Publications

All years

2025

Towards the Next Generation of Data-Driven Therapeutics Using Spatially Resolved Single-Cell Technologies and Generative AI

Read more about



, Open in new window

Authors: Rodov A. Baniadam H., Zeiser R., Amit I., Yosef N., Wertheimer T. & Ingelfinger F., et al. European Journal of Immunology | 2025 [All authors] »

Towards the Next Generation of Data-Driven Therapeutics Using Spatially Resolved Single-Cell Technologies and Generative AI

2024

The commitment of the human cell atlas to humanity

Read more about



, Open in new window

Authors: Amit I. Ardlie K., Arzuaga F., Awandare G., Bader G., Bernier A., Carninci P., Donnelly S., Eils R., Forrest A. R., Greely H. T., Guigo R., Hacohen N., Haniffa M., Kirby E. S., Knoppers B. M., Kriegstein A., Lein E. S., Linnarsson S., Majumder P. P., Merad M., Meyer K., Mhlanga M. M., Nolan G., Ntusi N. A., Peer D., Prabhakar S., Raven-Adams M., Regev A., Rozenblatt-Rosen O., Saha S., Saltzman A., Shalek A. K., Shin J. W., Stunnenberg H., Teichmann S. A., Tickle T., Villani A. C., Wells C., Wold B., Yang H. & Zhuang X., et al. Nature Communications | 2024 [All authors] »

The commitment of the human cell atlas to humanity

p16-dependent increase of PD-L1 stability regulates immunosurveillance of senescent cells

Read more about



, Open in new window

Authors: Majewska J. Agrawal A., Mayo A., Roitman L., Chatterjee R., Sekeresova Kralova J., Landsberger T., Katzenelenbogen Y., Meir-Salame T., Hagai E., Sopher I., Perez-Correa J. F., Wagner W., Maimon A., Amit I., Alon U. & Krizhanovsky V., et al. Nature Cell Biology | 2024 [All authors] »

p16-dependent increase of PD-L1 stability regulates immunosurveillance of senescent cells

Defining myeloid-derived suppressor cells

Read more about

Publication category: Cancer Immunotherapy

, Open in new window

Authors: Akkari L., Amit I. Bronte V., Fridlender Z. G., Gabrilovich D. I., Ginhoux F., Hedrick C. C. & Ostrand-Rosenberg S., et al. Nature Reviews Immunology | 2024 [All authors] »

Defining myeloid-derived suppressor cells

The CD8⁺ T cell tolerance checkpoint triggers a distinct differentiation state defined by protein translation defects

Read more about



, Open in new window

Authors: Van Der Byl W. Nüssing S., Peters T. J., Ahn A., Li H., Ledergor G., David E., Koh A. S., Wagle M. V., Deguit C. D. T., de Menezes M. N., Travers A., Sampurno S., Ramsbottom K. M., Li R., Kallies A., Beavis P. A., Jungmann R., Bastings M. M., Belz G. T., Goel S., Trapani J. A., Crabtree G. R., Chang H. Y., Amit I., Goodnow C. C., Luciani F. & Parish I. A., et al. Immunity | 2024 [All authors] »

The CD8⁺ T cell tolerance checkpoint triggers a distinct differentiation state defined by protein translation defects

Modeling T cell temporal response to cancer immunotherapy rationalizes development of combinatorial treatment protocols

Read more about

Publication category: Cancer Immunotherapy

, Open in new window

Authors: Barboy O. Bercovich A., Li H., Lubling Y., Yalin A., Shapir Itai Y., Abadie K., Zada M., David E., Shlomi S., Katzenelenbogen Y., Adhemar D., Gur C., Yofe I., Feferman T., Cohen M., Dahan R., Newell E., Lifshitz A., Tanay A. & Amit I., et al. Nature Cancer | 2024 [All authors] »

Modeling T cell temporal response to cancer immunotherapy rationalizes development of combinatorial treatment protocols

Geroprotective interventions converge on gene expression programs of reduced inflammation and restored fatty acid metabolism

Read more about

Publication category: Metabolism

, Open in new window

Authors: Landsberger T. Amit I. & Alon U., et al. GeroScience | 2024 [All authors] »

Geroprotective interventions converge on gene expression programs of reduced inflammation and restored fatty acid metabolism

Time-resolved single-cell transcriptomics defines immune trajectories in glioblastoma

Read more about

Publication category: Brain , Technology

, Open in new window

Authors: Kirschenbaum D., Xie K., Ingelfinger F. Katzenelenbogen Y., Abadie K., Look T., Sheban F., Phan T. S., Li B., Zwicky P., Yofe I., David E., Mazuz K., Hou J., Chen Y., Shaim H., Shanley M., Becker S., Qian J., Colonna M., Ginhoux F., Rezvani K., Theis F. J., Yosef N., Weiss T., Weiner A. & Amit I., et al. Cell | 2024 [All authors] »

Time-resolved single-cell transcriptomics defines immune trajectories in glioblastoma

Regulation of lymphoid-myeloid lineage bias through regnase-1/3-mediated control of Nfkbiz

Read more about

Publication category: Development

, Open in new window

Authors: Uehata T. Yamada S., Ori D., Vandenbon A., Giladi A., Jelinski A., Murakawa Y., Watanabe H., Takeuchi K., Toratani K., Mino T., Kiryu H., Standley D. M., Tsujimura T., Ikawa T., Kondoh G., Landthaler M., Kawamoto H., Rodewald H. R., Amit I., Yamamoto R., Miyazaki M. & Takeuchi O., et al. Blood | 2024 [All authors] »

Regulation of lymphoid-myeloid lineage bias through regnase-1/3-mediated control of Nfkbiz

Bispecific dendritic-T cell engager potentiates anti-tumor immunity

Read more about

Publication category: Cancer Immunotherapy

, Open in new window

Authors: Shapir Itai Y., Barboy O. Salomon R., Bercovich A., Xie K., Winter E., Shami T., Porat Z., Erez N., Tanay A., Amit I. & Dahan R., et al. Cell | 2024 [All authors] »

Bispecific dendritic-T cell engager potentiates anti-tumor immunity

2023

Spatial and temporal mapping of breast cancer lung metastases identify TREM2 macrophages as regulators of the metastatic boundary

Read more about

Publication category: Cancer Immunotherapy

, Open in new window

Authors: Yofe I. Shami T., Cohen N., Landsberger T., Sheban F., Stoler-Barak L., Yalin A., Phan T. S., Li B., Monteran L., Scharff Y., Giladi A., Elbaz M., David E., Gurevich-Shapiro A., Gur C., Shulman Z., Erez N. & Amit I., et al. Cancer Discovery | 2023 [All authors] »

Spatial and temporal mapping of breast cancer lung metastases identify TREM2 macrophages as regulators of the metastatic boundary

Neural plate progenitors give rise to both anterior and posterior pituitary cells

Read more about

Publication category: Development , Brain

, Open in new window

Authors: Chen Q. Leshkowitz D., Li H., van Impel A., Schulte-Merker S., Amit I., Rizzoti K. & Levkowitz G., et al. Developmental Cell | 2023 [All authors] »

Neural plate progenitors give rise to both anterior and posterior pituitary cells

Cholesterol 24-hydroxylase at the choroid plexus contributes to brain immune homeostasis

Read more about

Publication category: Brain

, Open in new window

Authors: Tsitsou-Kampeli A., Suzzi S., Kenigsbuch M. Satomi A., Strobelt R., Singer O., Feldmesser E., Purnapatre M., Colaiuta S. P., David E., Cahalon L., Hahn O., Wyss-Coray T., Shaul Y., Amit I. & Schwartz M., et al. Cell Reports Medicine | 2023 [All authors] »

Cholesterol 24-hydroxylase at the choroid plexus contributes to brain immune homeostasis

An immune cell atlas reveals the dynamics of human macrophage specification during prenatal development

Read more about

Publication category: Development

, Open in new window

Authors: Wang Z. Wu Z., Wang H., Feng R., Wang G., Li M., Wang S. Y., Chen X., Su Y., Wang J., Zhang W., Bao Y., Lan Z., Song Z., Wang Y., Luo X., Zhao L., Hou A., Tian S., Gao H., Miao W., Liu Y., Wang H., Yin C., Ji Z. L., Feng M., Liu H., Diao L., Amit I., Chen Y., Zeng Y., Ginhoux F., Wu X., Zhu Y. & Li H., et al. Cell | 2023 [All authors] »

An immune cell atlas reveals the dynamics of human macrophage specification during prenatal development

Cellular and metabolic characteristics of pre-leukemic hematopoietic progenitors with GATA2 haploinsufficiency

Read more about

Publication category: Cancer Immunotherapy

, Open in new window

Authors: Rein A. Geron I., Kugler E., Fishman H., Gottlieb E., Abramovich I., Giladi A., Amit I., Mulet-Lazaro R., Delwel R., Gröschel S., Levin-Zaidman S., Dezorella N., Holdengreber V., Rao T. N., Yacobovich J., Steinberg-Shemer O., Huang Q., Tan Y., Chen S., Izraeli S. & Birger Y., et al. Haematologica | 2023 [All authors] »

Cellular and metabolic characteristics of pre-leukemic hematopoietic progenitors with GATA2 haploinsufficiency

Early Infiltration of Innate Immune Cells to the Liver Depletes HNF4α and Promotes Extrahepatic Carcinogenesis

Read more about

Publication category: Cancer Immunotherapy , Metabolism

, Open in new window

Authors: Goldman O. Adler L. N., Hajaj E., Croese T., Darzi N., Galai S., Tishler H., Ariav Y., Lavie D., Fellus-Alyagor L., Oren R., Kuznetsov Y., David E., Jaschek R., Stossel C., Singer O., Malitsky S., Barak R., Seger R., Erez N., Amit I., Tanay A., Saada A., Golan T., Rubinek T., Sang Lee J., Ben-Shachar S., Wolf I. & Erez A., et al. Cancer Discovery | 2023 [All authors] »

Early Infiltration of Innate Immune Cells to the Liver Depletes HNF4α and Promotes Extrahepatic Carcinogenesis

Single-cell biology: what does the future hold?

Read more about



, Open in new window

Authors: Polychronidou M. Hou J., Babu M. M., Liberali P., Amit I., Deplancke B., Lahav G., Itzkovitz S., Mann M., Saez-Rodriguez J., Theis F. & Eils R., et al. Molecular Systems Biology | 2023 [All authors] »

Single-cell biology: what does the future hold?

Editorial: Microglia in neuroinflammation

Read more about



, Open in new window

Authors: Ayata P., Amit I. & Cuda C. M. Frontiers in Immunology | 2023 [All authors] »

Editorial: Microglia in neuroinflammation

In Synergy: Optimizing CAR T Development and Personalizing Patient Care Using Single-Cell Technologies

Read more about

Publication category: Cancer Immunotherapy

, Open in new window

Authors: Barboy O. Katzenelenbogen Y., Shalita R. & Amit I., et al. Cancer Discovery | 2023 [All authors] »

In Synergy: Optimizing CAR T Development and Personalizing Patient Care Using Single-Cell Technologies

Targeted delivery of tumor necrosis factor in combination with CCNU induces a T cell-dependent regression of glioblastoma

Read more about

Publication category: Cancer Immunotherapy , Brain

, Open in new window

Authors: Look T. Puca E., Bühler M., Kirschenbaum D., De Luca R., Stucchi R., Ravazza D., Di Nitto C., Roth P., Katzenelenbogen Y., Weiner A., Rindlisbacher L., Becher B., Amit I., Weller M., Neri D., Hemmerle T. & Weiss T., et al. Science Translational Medicine | 2023 [All authors] »

Targeted delivery of tumor necrosis factor in combination with CCNU induces a T cell-dependent regression of glioblastoma

Immunometabolism at the crossroads of obesity and cancera Keystone Symposia report

Read more about



, Open in new window

Authors: Cable J. Rathmell J. C., Pearce E. L., Ho P. C., Haigis M. C., Mamedov M. R., Wu M. J., Kaech S. M., Lynch L., Febbraio M. A., Bapat S. P., Hong H. S., Zou W., Belkaid Y., Sullivan Z. A., Keller A., Wculek S. K., Green D. R., Postic C., Amit I., Benitah S. A., Jones R. G., Reina-Campos M., Torres S. V., Beyaz S., Brennan D., O'Neill L. A., Perry R. J. & Brenner D., et al. Annals of the New York Academy of Sciences | 2023 [All authors] »

Immunometabolism at the crossroads of obesity and cancera Keystone Symposia report

The transcriptional and regulatory identity of erythropoietin producing cells

Read more about



, Open in new window

Authors: Kragesteen B. K., Giladi A., David E., Halevi S. Geirsdóttir L., Lempke O. M., Li B., Bapst A. M., Xie K., Katzenelenbogen Y., Dahl S. L., Sheban F., Gurevich-Shapiro A., Zada M., Phan T. S., Avellino R., Wang S., Barboy O., Shlomi-Loubaton S., Winning S., Markwerth P. P., Dekalo S., Keren-Shaul H., Kedmi M., Sikora M., Fandrey J., Korneliussen T. S., Prchal J. T., Rosenzweig B., Yutkin V., Racimo F., Willerslev E., Gur C., Wenger R. H. & Amit I., et al. Nature Medicine | 2023 [All authors] »

The transcriptional and regulatory identity of erythropoietin producing cells

A single-cell census of mouse limb development identifies complex spatiotemporal dynamics of skeleton formation

Read more about

Publication category: Development

, Open in new window

Authors: Markman S., Zada M. David E., Giladi A., Amit I. & Zelzer E., et al. Developmental Cell | 2023 [All authors] »

A single-cell census of mouse limb development identifies complex spatiotemporal dynamics of skeleton formation

Author Correction: A shared disease-associated oligodendrocyte signature among multiple CNS pathologies (Nature Neuroscience, (2022), 25, 7, (876-886), 10.1038/s41593-022-01104-7)

Read more about

Publication category: Brain

, Open in new window

Authors: Kenigsbuch M., Bost P. Halevi S., Chang Y., Chen S., Ma Q., Hajbi R., Schwikowski B., Bodenmiller B., Fu H., Schwartz M. & Amit I., et al. Nature Neuroscience | 2023 [All authors] »

Author Correction: A shared disease-associated oligodendrocyte signature among multiple CNS pathologies (Nature Neuroscience, (2022), 25, 7, (876-886), 10.1038/s41593-022-01104-7)

Fc glycoengineering of a PD-L1 antibody harnesses Fcγ receptors for increased antitumor efficacy

Read more about

Publication category: Cancer Immunotherapy

, Open in new window

Authors: Cohen Saban N., Yalin A., Landsberger T. Salomon R., Alva A., Feferman T., Amit I. & Dahan R., et al. Science immunology | 2023 [All authors] »

Fc glycoengineering of a PD-L1 antibody harnesses Fcγ receptors for increased antitumor efficacy

Cerebrospinal fluid proteomics indicates immune dysregulation and neuronal dysfunction in antibody associated autoimmune encephalitis

Read more about

Publication category: Brain , Autoimmunity

, Open in new window

Authors: Räuber S. Schroeter C. B., Strippel C., Nelke C., Ruland T., Dik A., Golombeck K. S., Regner-Nelke L., Paunovic M., Esser D., Münch C., Rosenow F., van Duijn M., Henes A., Ruck T., Amit I., Leypoldt F., Titulaer M. J., Wiendl H., Meuth S. G., Meyer zu Hörste G. & Melzer N., et al. Journal of Autoimmunity | 2023 [All authors] »

Cerebrospinal fluid proteomics indicates immune dysregulation and neuronal dysfunction in antibody associated autoimmune encephalitis

Neighbor-specific gene expression revealed from physically interacting cells during mouse embryonic development

Read more about

Publication category: Development , Technology

, Open in new window

Authors: Kim J. Rothová M. M., Madan E., Rhee S., Weng G., Palma A. M., Liao L., David E., Amit I., Hajkarim M. C., Vudatha V., Gutiérrez-García A., Moreno E., Winn R., Trevino J., Fisher P. B., Brickman J. M., Gogna R. & Won K. J., et al. Proceedings of the National Academy of Sciences of the United States of America | 2023 [All authors] »

Neighbor-specific gene expression revealed from physically interacting cells during mouse embryonic development

2022

Time-resolved single-cell RNA-seq using metabolic RNA labelling

Read more about

Publication category: Technology

, Open in new window

Authors: Erhard F. Saliba A., Lusser A., Toussaint C., Hennig T., Prusty B. K., Kirschenbaum D., Abadie K., Miska E. A., Friedel C. C., Amit I., Micura R. & Doelken L., et al. Nature Reviews Methods Primers | 2022 [All authors] »

Time-resolved single-cell RNA-seq using metabolic RNA labelling

Distinct gene programs underpinning disease tolerance and resistance in influenza virus infection

Read more about



, Open in new window

Authors: Cohn O. Yankovitz G., Peshes-Yaloz N., Steuerman Y., Frishberg A., Brandes R., Mandelboim M., Hamilton J. R., Hagai T., Amit I., Netea M. G., Hacohen N., Iraqi F. A., Bacharach E. & Gat-Viks I., et al. Cell Systems | 2022 [All authors] »

Distinct gene programs underpinning disease tolerance and resistance in influenza virus infection

A spatiotemporally resolved single-cell atlas of the Plasmodium liver stage

Read more about



, Open in new window

Authors: Afriat A. Zuzarte-Luis V., Halpern K. B., Buchauer L., Marques S., Chora A. F., Lahree A., Amit I., Mota M. M. & Itzkovitz S., et al. Nature | 2022 [All authors] »

A spatiotemporally resolved single-cell atlas of the Plasmodium liver stage

Microglia states and nomenclature: A field at its crossroads

Read more about

Publication category: Brain

, Open in new window

Authors: Paolicelli R. C. Sierra A., Stevens B., Tremblay M., Aguzzi A., Ajami B., Amit I., Audinat E., Bechmann I., Bennett M., Bennett F., Bessis A., Biber K., Bilbo S., Blurton-Jones M., Boddeke E., Brites D., Brône B., Brown G. C., Butovsky O., Carson M. J., Castellano B., Colonna M., Cowley S. A., Cunningham C., Davalos D., De Jager P. L., de Strooper B., Denes A., Eggen B. J., Eyo U., Galea E., Garel S., Ginhoux F., Glass C. K., Gokce O., Gomez-Nicola D., González B., Gordon S., Graeber M. B., Greenhalgh A. D., Gressens P., Greter M., Gutmann D. H., Haass C., Heneka M. T., Heppner F. L., Hong S., Hume D. A., Jung S., Kettenmann H., Kipnis J., Koyama R., Lemke G., Lynch M., Majewska A., Malcangio M., Malm T., Mancuso R., Masuda T., Matteoli M., McColl B. W., Miron V. E., Molofsky A. V., Monje M., Mracsko E., Nadjar A., Neher J. J., Neniskyte U., Neumann H., Noda M., Peng B., Peri F., Perry V. H., Popovich P. G., Pridans C., Priller J., Prinz M., Ragozzino D., Ransohoff R. M., Salter M. W., Schaefer A., Schafer D. P., Schwartz M., Simons M., Smith C. J., Streit W. J., Tay T. L., Tsai L., Verkhratsky A., von Bernhardi R., Wake H., Wittamer V., Wolf S. A., Wu L. & Wyss-Coray T., et al. Neuron | 2022 [All authors] »

Microglia states and nomenclature: A field at its crossroads

Anti-CTLA-4 antibodies drive myeloid activation and reprogram the tumor microenvironment through FcγR engagement and type I interferon signaling

Read more about

Publication category: Cancer Immunotherapy

, Open in new window

Authors: Yofe I., Landsberger T., Yalin A. Solomon I., Costoya C., Demane D. F., Shah M., David E., Borenstein C., Barboy O., Matos I., Peggs K. S., Quezada S. A. & Amit I., et al. Nature Cancer | 2022 [All authors] »

Anti-CTLA-4 antibodies drive myeloid activation and reprogram the tumor microenvironment through FcγR engagement and type I interferon signaling

The industrial genomic revolution: A new era in neuroimmunology

Read more about

Publication category: Brain , Technology

, Open in new window

Authors: Shalita R. & Amit I. Neuron | 2022 [All authors] »

The industrial genomic revolution: A new era in neuroimmunology

Human microglia development in the embryonic brain

Read more about

Publication category: Brain

, Open in new window

Authors: Li B. Li Y., Li Z., Jiao J. & Amit I., et al. Life Medicine | 2022 [All authors] »

Human microglia development in the embryonic brain

Spatiotemporal Omics-Refining the landscape of precision medicine

Read more about

Publication category: Technology

, Open in new window

Authors: Zhang J. Yin J., Heng Y., Xie K., Chen A., Amit I., Bian X. & Xu X., et al. Life Medicine | 2022 [All authors] »

Spatiotemporal Omics-Refining the landscape of precision medicine

DestVI identifies continuums of cell types in spatial transcriptomics data

Read more about

Publication category: Technology

, Open in new window

Authors: Lopez R., Li B., Keren-Shaul H. Boyeau P., Kedmi M., Pilzer D., Jelinski A., Yofe I., David E., Wagner A., Ergen C., Addadi Y., Golani O., Ronchese F., Jordan M. I., Amit I. & Yosef N., et al. Nature biotechnology | 2022 [All authors] »

DestVI identifies continuums of cell types in spatial transcriptomics data

Dual ontogeny of disease-associated microglia and disease inflammatory macrophages in aging and neurodegeneration

Read more about

Publication category: Brain

, Open in new window

Authors: Silvin' A. Uderhardt S., Piot C., Da Mesquita S., Yang K., Geirsdottir L., Mulder K., David E., Liu Z., Bridlance C., Thion M. S., Zhang X., Ting Kong W., Deloger M., Fontes V., Weiner A., Ee R., Dress R., Wen Hang J., Balachander A., Chakarov S., Malleret B., Dunsmore G., Cexus O., Chen J., Garel S., Dutertre C. A., Amit I., Kipnis J. & Ginhoux F., et al. Immunity | 2022 [All authors] »

Dual ontogeny of disease-associated microglia and disease inflammatory macrophages in aging and neurodegeneration

A shared disease-associated oligodendrocyte signature among multiple CNS pathologies

Read more about

Publication category: Brain

, Open in new window

Authors: Kenigsbuch M., Bost P., Halevi S. Chang Y., Chen S., Ma Q., Hajbi R., Schwikowski B., Bodenmiller B., Fu H., Schwartz M. & Amit I., et al. Nature Neuroscience | 2022 [All authors] »

A shared disease-associated oligodendrocyte signature among multiple CNS pathologies

Physically interacting beta-delta pairs in the regenerating pancreas revealed by single-cell sequencing

Read more about



, Open in new window

Authors: Yanowski E. Yacovzada N. S., David E., Giladi A., Jaitin D., Farack L., Egozi A., Ben-Zvi D., Itzkovitz S., Amit I. & Hornstein E., et al. Molecular metabolism (Germany) | 2022 [All authors] »

Physically interacting beta-delta pairs in the regenerating pancreas revealed by single-cell sequencing

Identification of the central intermediate in the extra-embryonic to embryonic endoderm transition through single-cell transcriptomics

Read more about

Publication category: Development

, Open in new window

Authors: Rothová M. M. Nielsen A. V., Proks M., Wong Y. F., Riveiro A. R., Linneberg-Agerholm M., David E., Amit I., Trusina A. & Brickman J. M., et al. Nature Cell Biology | 2022 [All authors] »

Identification of the central intermediate in the extra-embryonic to embryonic endoderm transition through single-cell transcriptomics

LGR5 expressing skin fibroblasts define a major cellular hub perturbed in scleroderma

Read more about

Publication category: Autoimmunity

, Open in new window

Authors: Gur C., Wang S. Sheban F., Zada M., Li B., Kharouf F., Peleg H., Aamar S., Yalin A., Kirschenbaum D., Braun-Moscovici Y., Jaitin D. A., Meir-Salame T., Hagai E., Kragesteen B. K., Avni B., Grisariu S., Bornstein C., Shlomi-Loubaton S., David E., Shreberk-Hassidim R., Molho-Pessach V., Amar D., Tzur T., Kuint R., Gross M., Barboy O., Moshe A., Fellus-Alyagor L., Hirsch D., Addadi Y., Erenfeld S., Biton M., Tzemach T., Elazary A., Naparstek Y., Tzemach R., Weiner A., Giladi A., Balbir-Gurman A. & Amit I., et al. Cell | 2022 [All authors] »

LGR5 expressing skin fibroblasts define a major cellular hub perturbed in scleroderma

Brain metastases: Not all tumors are created equal

Read more about

Publication category: Cancer Immunotherapy , Brain

, Open in new window

Authors: Kirschenbaum D. & Amit I. Neuron | 2022 [All authors] »

Brain metastases: Not all tumors are created equal

MYCN mediates cysteine addiction and sensitizes neuroblastoma to ferroptosis

Read more about

Publication category: Cancer Immunotherapy , Metabolism

, Open in new window

Authors: Alborzinia H. Flórez A. F., Kreth S., Brückner L. M., Yildiz U., Gartlgruber M., Odoni D. I., Poschet G., Garbowicz K., Shao C., Klein C., Meier J., Zeisberger P., Nadler-Holly M., Ziehm M., Paul F., Burhenne J., Bell E., Shaikhkarami M., Würth R., Stainczyk S. A., Wecht E. M., Kreth J., Büttner M., Ishaque N., Schlesner M., Nicke B., Stresemann C., Llamazares-Prada M., Reiling J. H., Fischer M., Amit I., Selbach M., Herrmann C., Wölfl S., Henrich K., Höfer T., Trumpp A. & Westermann F., et al. Nature Cancer | 2022 [All authors] »

MYCN mediates cysteine addiction and sensitizes neuroblastoma to ferroptosis

Single-cell immunology: Past, present, and future

Read more about

Publication category: Technology

, Open in new window

Authors: Ginhoux F., Yalin A. Dutertre C. A. & Amit I., et al. Immunity | 2022 [All authors] »

Single-cell immunology: Past, present, and future

The interaction of CD4⁺ helper T cells with dendritic cells shapes the tumor microenvironment and immune checkpoint blockade response

Read more about

Publication category: Cancer Immunotherapy

, Open in new window

Authors: Cohen M. Giladi A., Barboy O., Hamon P., Li B., Zada M., Gurevich-Shapiro A., Beccaria C. G., David E., Maier B. B., Buckup M., Kamer I., Deczkowska A., Le Berichel J., Bar J., Iannacone M., Tanay A., Merad M. & Amit I., et al. Nature Cancer | 2022 [All authors] »

The interaction of CD4⁺ helper T cells with dendritic cells shapes the tumor microenvironment and immune checkpoint blockade response

Bispecific antibodies increase the therapeutic window of CD40 agonists through selective dendritic cell targeting

Read more about

Publication category: Cancer Immunotherapy

, Open in new window

Authors: Salomon R., Rotem H., Katzenelenbogen Y. Weiner A., Cohen Saban N., Feferman T., Amit I. & Dahan R., et al. Nature Cancer | 2022 [All authors] »

Bispecific antibodies increase the therapeutic window of CD40 agonists through selective dendritic cell targeting

Fatal cytokine release syndrome by an aberrant FLIP/STAT3 axis

Read more about



, Open in new window

Authors: Musiu C. Caligola S., Fiore A., Lamolinara A., Frusteri C., Del Pizzo F. D., De Sanctis F., Cane S., Adamo A., Hofer F., Barouni R. M., Grilli A., Zilio S., Serafini P., Tacconelli E., Donadello K., Gottin L., Polati E., Girelli D., Polidoro I., Iezzi P. A., Angelucci D., Capece A., Chen Y., Shi Z., Murray P. J., Chilosi M., Amit I., Bicciato S., Iezzi M., Bronte V. & Ugel S., et al. Cell Death and Differentiation | 2022 [All authors] »

Fatal cytokine release syndrome by an aberrant FLIP/STAT3 axis

Alzheimers disease modification mediated by bone marrow-derived macrophages via a TREM2-independent pathway in mouse model of amyloidosis

Read more about

Publication category: Brain

, Open in new window

Authors: Dvir-Szternfeld R. Castellani G., Arad M., Cahalon L., Colaiuta S. P., Keren-Shaul H., Croese T., Burgaletto C., Baruch K., Ulland T., Colonna M., Weiner A., Amit I. & Schwartz M., et al. Nature Aging | 2022 [All authors] »

Alzheimers disease modification mediated by bone marrow-derived macrophages via a TREM2-independent pathway in mouse model of amyloidosis

Publisher Correction: XCR1 ⁺ type 1 conventional dendritic cells drive liver pathology in non-alcoholic steatohepatitis (Nature Medicine, (2021), 27, 6, (1043-1054), 10.1038/s41591-021-01344-3)

Read more about

Publication category: Cancer Immunotherapy

, Open in new window

Authors: Deczkowska A. David E., Ramadori P., Pfister D., Safran M., Li B., Giladi A., Jaitin D. A., Barboy O., Cohen M., Yofe I., Gur C., Shlomi-Loubaton S., Henri S., Suhail Y., Qiu M., Kam S., Hermon H., Lahat E., Ben Yakov G., Cohen-Ezra O., Davidov Y., Likhter M., Goitein D., Roth S., Weber A., Malissen B., Weiner A., Ben-Ari Z., Heikenwälder M., Elinav E. & Amit I., et al. Nature Medicine | 2022 [All authors] »

Publisher Correction: XCR1 ⁺ type 1 conventional dendritic cells drive liver pathology in non-alcoholic steatohepatitis (Nature Medicine, (2021), 27, 6, (1043-1054), 10.1038/s41591-021-01344-3)

Early antitumor activity of oral Langerhans cells is compromised by a carcinogen

Read more about

Publication category: Cancer Immunotherapy

, Open in new window

Authors: Saba Y. Aizenbud I., Matanes D., Koren N., Barel O., Zubeidat K., Capucha T., David E., Eli-Berchoer L., Stoitzner P., Wilensky A., Amit I., Czerninski R., Yona S. & Hovav A., et al. Proceedings of the National Academy of Sciences of the United States of America | 2022 [All authors] »

Early antitumor activity of oral Langerhans cells is compromised by a carcinogen

2021

Clump sequencing exposes the spatial expression programs of intestinal secretory cells

Read more about

Publication category: Technology

, Open in new window

Authors: Manco R. Averbukh I., Porat Z., Bahar Halpern K., Amit I. & Itzkovitz S., et al. Nature Communications | 2021 [All authors] »

Clump sequencing exposes the spatial expression programs of intestinal secretory cells

Dichotomous metabolic networks govern human ILC2 proliferation and function

Read more about



, Open in new window

Authors: Surace L. Doisne J., Croft C. A., Thaller A., Escoll P., Marie S., Petrosemoli N., Guillemot V., Dardalhon V., Topazio D., Cama A., Buchrieser C., Taylor N., Amit I., Musumeci O. & Di Santo J. P., et al. Nature Immunology | 2021 [All authors] »

Dichotomous metabolic networks govern human ILC2 proliferation and function

Single-cell analysis of regions of interest (SCARI) using a photosensitive tag

Read more about

Publication category: Technology

, Open in new window

Authors: van der Leun A. M. Hoekstra M. E., Reinalda L., Scheele C. L. G. J., Toebes M., van de Graaff M. J., Chen L. Y. Y., Li H., Bercovich A., Lubling Y., David E., Thommen D. S., Tanay A., van Rheenen J., Amit I., van Kasteren S. I. & Schumacher T. N., et al. Nature Chemical Biology | 2021 [All authors] »

Single-cell analysis of regions of interest (SCARI) using a photosensitive tag

Tumor cells in light-chain amyloidosis and myeloma show distinct transcriptional rewiring of normal plasma cell development

Read more about

Publication category: Cancer Immunotherapy

, Open in new window

Authors: Alameda D. Goicoechea I., Vicari M., Arriazu E., Nevone A., Rodríguez S., Lasa M., Puig N., Cedena M., Alignani D., Garate S., Lara-Astiaso D., Vilas-Zornoza A., Sarvide S., Ocio E. M., Lecumberri R., Garcia de Coca A., Labrador J., Gonzalez M., Palomera L., Gironella M., Cabañas V., Casanova M., Oriol A., Krsnik I., Pérez-Montaña A., de la Rubia J., de la Puerta J., de Arriba F., Fazio V. M., Martinez-Lopez J., Lahuerta J., Mateos M., Odero M. D., Prosper F., Weiner A., Amit I., Nuvolone M., San-Miguel J. F. F. & Paiva B., et al. Blood | 2021 [All authors] »

Tumor cells in light-chain amyloidosis and myeloma show distinct transcriptional rewiring of normal plasma cell development

Multi-tissue single-cell analysis deconstructs the complex programs of mouse natural killer and type 1 innate lymphoid cells in tissues and circulation

Read more about



, Open in new window

Authors: McFarland A. P., Yalin A., Wang S. Cortez V. S., Landsberger T., Sudan R., Peng V., Miller H. L., Ricci B., David E., Faccio R., Amit I. & Colonna M., et al. Immunity (Cambridge, Mass.) | 2021 [All authors] »

Multi-tissue single-cell analysis deconstructs the complex programs of mouse natural killer and type 1 innate lymphoid cells in tissues and circulation

XCR1⁺ type 1 conventional dendritic cells drive liver pathology in non-alcoholic steatohepatitis

Read more about



, Open in new window

Authors: Deczkowska A. David E., Ramadori P., Pfister D., Safran M., At The B., Giladi A., Jaitin D. A., Barboy O., Cohen M., Yofe I., Gur C., Shlomi-Loubaton S., Henri S., Suhail Y., Qiu M., Kam S., Hermon H., Lahat E., Ben Yakov G., Cohen-Ezra O., Davidov Y., Likhter M., Goitein D., Roth S., Weber A., Malissen B., Weiner A., Ben-Ari Z., Heikenwälder M., Elinav E. & Amit I., et al. Nature Medicine | 2021 [All authors] »

XCR1⁺ type 1 conventional dendritic cells drive liver pathology in non-alcoholic steatohepatitis

Heads or tails: histone tail clipping regulates macrophage activity

Read more about



, Open in new window

Authors: Kragesteen B. K. & Amit I. Nature Immunology | 2021 [All authors] »

Heads or tails: histone tail clipping regulates macrophage activity

A 3D system to model human pancreas development and its reference single-cell transcriptome atlas identify signaling pathways required for progenitor expansion

Read more about

Publication category: Technology

, Open in new window

Authors: Gonçalves C. A. Larsen M., Jung S., Stratmann J., Nakamura A., Leuschner M., Hersemann L., Keshara R., Perlman S., Lundvall L., Thuesen L. L., Hare K. J., Amit I., Jørgensen A., Kim Y. H., del Sol A. & Grapin-Botton A., et al. Nature Communications | 2021 [All authors] »

A 3D system to model human pancreas development and its reference single-cell transcriptome atlas identify signaling pathways required for progenitor expansion

NASH limits anti-tumour surveillance in immunotherapy-treated HCC

Read more about

Publication category: Cancer Immunotherapy

, Open in new window

Authors: Pfister D. Núñez N. G., Pinyol R., Govaere O., Pinter M., Szydlowska M., Gupta R., Qiu M., Deczkowska A., Weiner A., Müller F., Sinha A., Friebel E., Engleitner T., Lenggenhager D., Moncsek A., Heide D., Stirm K., Kosla J., Kotsiliti E., Leone V., Dudek M., Yousuf S., Inverso D., Singh I., Teijeiro A., Castet F., Montironi C., Haber P. K., Tiniakos D., Bedossa P., Cockell S., Younes R., Vacca M., Marra F., Schattenberg J. M., Allison M., Bugianesi E., Ratziu V., Pressiani T., DAlessio A., Personeni N., Rimassa L., Daly A. K., Scheiner B., Pomej K., Kirstein M. M., Vogel A., Peck-Radosavljevic M., Hucke F., Finkelmeier F., Waidmann O., Trojan J., Schulze K., Wege H., Koch S., Weinmann A., Bueter M., Rössler F., Siebenhüner A., De Dosso S., Mallm J. P., Umansky V., Jugold M., Luedde T., Schietinger A., Schirmacher P., Emu B., Augustin H. G., Billeter A., Müller-Stich B., Kikuchi H., Duda D. G., Kütting F., Waldschmidt D. T., Ebert M. P., Rahbari N., Mei H. E., Schulz A. R., Ringelhan M., Malek N., Spahn S., Bitzer M., Ruiz de Galarreta M., Lujambio A., Dufour J. F., Marron T. U., Kaseb A., Kudo M., Huang Y. H., Djouder N., Wolter K., Zender L., Marche P. N., Decaens T., Pinato D. J., Rad R., Mertens J. C., Weber A., Unger K., Meissner F., Roth S., Jilkova Z. M., Claassen M., Anstee Q. M., Amit I., Knolle P., Becher B., Llovet J. M. & Heikenwalder M., et al. Nature (London) | 2021 [All authors] »

NASH limits anti-tumour surveillance in immunotherapy-treated HCC

Identification of resistance pathways and therapeutic targets in relapsed multiple myeloma patients through single-cell sequencing

Read more about

Publication category: Cancer Immunotherapy

, Open in new window

Authors: Zada M., Wang S., Bornstein C. David E., Moshe A., Li B., Shlomi-loubaton S., Gatt M. E., Gur C., Lavi N., Ganzel C., Luttwak E., Chubar E., Rouvio O., Vaxman I., Pasvolsky O., Ballan M., Tadmor T., Nemets A., Jarchowcky-dolberg O., Shvetz O., Laiba M., Shpilberg O., Dally N., Avivi I., Weiner A. & Amit I., et al. Nature Medicine | 2021 [All authors] »

Identification of resistance pathways and therapeutic targets in relapsed multiple myeloma patients through single-cell sequencing

Deciphering the state of immune silence in fatal COVID-19 patients

Read more about

Publication category: Technology

, Open in new window

Authors: Bost P. De Sanctis F., Canè S., Ugel S., Donadello K., Castellucci M., Eyal D., Fiore A., Anselmi C., Barouni R. M., Trovato R., Caligola S., Lamolinara A., Iezzi M., Facciotti F., Mazzariol A., Gibellini D., De Nardo P., Tacconelli E., Gottin L., Polati E., Schwikowski B., Amit I. & Bronte V., et al. Nature Communications | 2021 [All authors] »

Deciphering the state of immune silence in fatal COVID-19 patients

Bi-fated tendon-to-bone attachment cells are regulated by shared enhancers and KLF transcription factors

Read more about

Publication category: Development

, Open in new window

Authors: Kult S. Olender T., Osterwalder M., Markman S., Leshkowitz D., Krief S., Blecher-Gonen R., Ben-Moshe S., Farack L., Keren-Shaul H., Salame T. M., Capellini T. D., Itzkovitz S., Amit I., Visel A. & Zelzer E., et al. eLife | 2021 [All authors] »

Bi-fated tendon-to-bone attachment cells are regulated by shared enhancers and KLF transcription factors

Meningeal lymphoid structures are activated under acute and chronic spinal cord pathologies

Read more about

Publication category: Brain

, Open in new window

Authors: Cohen M. Giladi A., Raposo C., Zada M., Li B., Ruckh J., Deczkowska A., Mohar B., Shechter R., Lichtenstein R. G., Amit I. & Schwartz M., et al. Life Science Alliance | 2021 [All authors] »

Meningeal lymphoid structures are activated under acute and chronic spinal cord pathologies

NF-κB activity during pancreas development regulates adult β-cell mass by modulating neonatal β-cell proliferation and apoptosis

Read more about

Publication category: Development

, Open in new window

Authors: Sever D. Hershko-Moshe A., Srivastava R., Eldor R., Hibsher D., Keren-Shaul H., Amit I., Bertuzzi F., Krogvold L., Dahl-Jørgensen K., Ben-Dov I. Z., Landsman L. & Melloul D., et al. Cell Death Discovery | 2021 [All authors] »

NF-κB activity during pancreas development regulates adult β-cell mass by modulating neonatal β-cell proliferation and apoptosis

2020

A single cell atlas of the human liver tumor microenvironment

Read more about

Publication category: Cancer Immunotherapy

, Open in new window

Authors: Massalha H. Bahar Halpern K., Abu-Gazala S., Jana T., Massasa E. E., Moor A. E., Buchauer L., Rozenberg M., Pikarsky E., Amit I., Zamir G. & Itzkovitz S., et al. Molecular Systems Biology | 2020 [All authors] »

A single cell atlas of the human liver tumor microenvironment

Acute liver failure is regulated by MYC- and microbiome-dependent programs

Read more about

Publication category: Metabolism

, Open in new window

Authors: Kolodziejczyk A. A. Federici S., Zmora N., Mohapatra G., Dori-Bachash M., Hornstein S., Leshem A., Reuveni D., Zigmond E., Tobar A., Salame T. M., Harmelin A., Shlomai A., Shapiro H., Amit I. & Elinav E., et al. Nature Medicine | 2020 [All authors] »

Acute liver failure is regulated by MYC- and microbiome-dependent programs

Elevated Calprotectin and Abnormal Myeloid Cell Subsets Discriminate Severe from Mild COVID-19

Read more about

Publication category: Development , Technology

, Open in new window

Authors: Silvin A. Chapuis N., Dunsmore G., Goubet A., Dubuisson A., Derosa L., Almire C., Henon C., Kosmider O., Droin N., Rameau P., Catelain C., Alfaro A., Dussiau C., Friedrich C., Sourdeau E., Marin N., Szwebel T., Cantin D., Mouthon L., Borderie D., Deloger M., Bredel D., Mouraud S., Drubay D., Andrieu M., Lhonneur A., Saada V., Stoclin A., Willekens C., Pommeret F., Griscelli F., Ng L. G., Zhang Z., Bost P., Amit I., Barlesi F., Marabelle A., Pene F., Gachot B., Andre F., Zitvogel L., Ginhoux F., Fontenay M. & Solary E., et al. Cell | 2020 [All authors] »

Elevated Calprotectin and Abnormal Myeloid Cell Subsets Discriminate Severe from Mild COVID-19

LifeTime and improving European healthcare through cell-based interceptive medicine

Read more about

Publication category: Development

, Open in new window

Authors: Nikolaus Rajewsky, Geneviève Almouzni, Stanislaw A. Gorski Stein Aerts, Ido Amit, Michela G. Bertero, Christoph Bock, Annelien L. Bredenoord, Giacomo Cavalli, Susanna Chiocca, Hans Clevers, Bart De Strooper, Angelika Eggert, Jan Ellenberg, Xosé M. Fernández, Marek Figlerowicz, Susan M. Gasser, Norbert Hubner, Jørgen Kjems, Jürgen A. Knoblich, Grietje Krabbe, Peter Lichter, Sten Linnarsson, Jean-Christophe Marine, John C. Marioni, Marc A. Marti-Renom, Mihai G. Netea, Dörthe Nickel, Marcelo Nollmann, Halina R. Novak, Helen Parkinson, Stefano Piccolo, Inês Pinheiro, Ana Pombo, Christian Popp, Wolf Reik, Sergio Roman-Roman, Philip Rosenstiel, Joachim L. Schultze, Oliver Stegle, Amos Tanay, Giuseppe Testa, Dimitris Thanos, Fabian J. Theis, Maria-Elena Torres-Padilla, Alfonso Valencia, Céline Vallot, Alexander van Oudenaarden, Marie Vidal, Thierry Voet & LifeTime Community Working Groups, et al. Nature | 2020 [All authors] »

LifeTime and improving European healthcare through cell-based interceptive medicine

Coupled scRNA-Seq and Intracellular Protein Activity Reveal an Immunosuppressive Role of TREM2 in Cancer

Read more about

Publication category: Cancer Immunotherapy , Technology

, Open in new window

Authors: Katzenelenbogen Y., Sheban F., Yalin A. Yofe I., Svetlichnyy D., Jaitin D. A., Bornstein C., Moshe A., Keren-Shaul H., Cohen M., Wang S., Li B., David E., Salame T., Weiner A. & Amit I., et al. Cell | 2020 [All authors] »

Coupled scRNA-Seq and Intracellular Protein Activity Reveal an Immunosuppressive Role of TREM2 in Cancer

Cancer-associated fibroblast compositions change with breast cancer progression linking the ratio of S100A4(+) and PDPN+ CAFs to clinical outcome

Read more about

Publication category: Cancer Immunotherapy

, Open in new window

Authors: Friedman G. Levi-Galibov O., David E., Bornstein C., Giladi A., Dadiani M., Mayo A., Halperin C., Pevsner-Fischer M., Lavon H., Mayer S., Nevo R., Stein Y., Balint-Lahat N., Barshack I., Ali H. R., Caldas C., Nili-Gal-Yam E., Alon U., Amit I. & Scherz-Shouval R., et al. Nature Cancer | 2020 [All authors] »

Cancer-associated fibroblast compositions change with breast cancer progression linking the ratio of S100A4(+) and PDPN+ CAFs to clinical outcome

Single-cell transcriptomics reveals regulators underlying immune cell diversity and immune subtypes associated with prognosis in nasopharyngeal carcinoma

Read more about

Publication category: Cancer Immunotherapy

, Open in new window

Authors: Chen Y. Yin J., Li W., Li H., Chen D., Zhang C., Lv J., Wang Y., Li X., Li J., Zhang P., Li Y., He Q., Yang X., Lei Y., Tang L., Zhou G., Mao Y., Wei C., Xiong K., Zhang H., Zhu S., Hou Y., Sun Y., Dean M., Amit I., Wu K., Kuang D., Li G., Liu N. & Ma J., et al. Cell Research | 2020 [All authors] »

Single-cell transcriptomics reveals regulators underlying immune cell diversity and immune subtypes associated with prognosis in nasopharyngeal carcinoma

Single-cell landscape of bronchoalveolar immune cells in patients with COVID-19

Read more about

Publication category: Development

, Open in new window

Authors: Liao M. Liu Y., Yuan J., Wen Y., Xu G., Zhao J., Cheng L., Li J., Wang X., Wang F., Liu L., Amit I., Zhang S. & Zhang Z., et al. Nature Medicine | 2020 [All authors] »

Single-cell landscape of bronchoalveolar immune cells in patients with COVID-19

The Physiology, Pathology, and Potential Therapeutic Applications of the TREM2 Signaling Pathway

Read more about

Publication category: Brain

, Open in new window

Authors: Deczkowska A. Weiner A. & Amit I., et al. Cell | 2020 [All authors] »

The Physiology, Pathology, and Potential Therapeutic Applications of the TREM2 Signaling Pathway

Host-Viral Infection Maps Reveal Signatures of Severe COVID-19 Patients

Read more about

Publication category: Technology

, Open in new window

Authors: Bost P., Giladi A. Liu Y., Bendjelal Y., Xu G., David E., Blecher-Gonen R., Cohen M., Medaglia C., Li H., Deczkowska A., Zhang S., Schwikowski B., Zhang Z. & Amit I., et al. Cell | 2020 [All authors] »

Host-Viral Infection Maps Reveal Signatures of Severe COVID-19 Patients

Dissecting cellular crosstalk by sequencing physically interacting cells

Read more about

Publication category: Technology

, Open in new window

Authors: Giladi A., Cohen M. Medaglia C., Baran Y., Li B., Zada M., Bost P., Blecher-Gonen R., Salame T., Mayer J. U., David E., Ronchese F., Tanay A. & Amit I., et al. Nature Biotechnology | 2020 [All authors] »

Dissecting cellular crosstalk by sequencing physically interacting cells

Cxcl10(+) monocytes define a pathogenic subset in the central nervous system during autoimmune neuroinflammation

Read more about

Publication category: Brain

, Open in new window

Authors: Giladi A. Wagner L. K., Li H., Doerr D., Medaglia C., Paul F., Shemer A., Jung S., Yona S., Mack M., Leutz A., Amit I. & Mildner A., et al. Nature Immunology | 2020 [All authors] »

Cxcl10(+) monocytes define a pathogenic subset in the central nervous system during autoimmune neuroinflammation

C/EBPβ-Dependent Epigenetic Memory Induces Trained Immunity in Hematopoietic Stem Cells

Read more about

Publication category: Development

, Open in new window

Authors: de Laval B. Maurizio J., Kandalla P. K., Brisou G., Simonnet L., Huber C., Gimenez G., Matcovitch-Natan O., Reinhardt S., David E., Mildner A., Leutz A., Nadel B., Bordi C., Amit I., Sarrazin S. & Sieweke M. H., et al. Cell Stem Cell | 2020 [All authors] »

C/EBPβ-Dependent Epigenetic Memory Induces Trained Immunity in Hematopoietic Stem Cells

Lgr5+telocytes are a signaling source at the intestinal villus tip

Read more about

Publication category: Development

, Open in new window

Authors: Bahar Halpern K. Massalha H., Zwick R. K., Moor A. E., Castillo-Azofeifa D., Rozenberg M., Farack L., Egozi A., Miller D. R., Averbukh I., Harnik Y., Weinberg-Corem N., de Sauvage F. J., Amit I., Klein O. D., Shoshkes-Carmel M. & Itzkovitz S., et al. Nature Communications | 2020 [All authors] »

Lgr5+telocytes are a signaling source at the intestinal villus tip

Bystander IFN-gamma activity promotes widespread and sustained cytokine signaling altering the tumor microenvironment

Read more about

Publication category: Cancer Immunotherapy

, Open in new window

Authors: Thibaut R. Bost P., Milo I., Cazaux M., Lemaitre F., Garcia Z., Amit I., Breart B., Cornuot C., Schwikowski B. & Bousso P., et al. Nature Cancer | 2020 [All authors] »

Bystander IFN-gamma activity promotes widespread and sustained cytokine signaling altering the tumor microenvironment

Spatiotemporal regulation of type I interferon expression determines the antiviral polarization of CD4(+) T cells

Read more about

Publication category: Development

, Open in new window

Authors: De Giovanni M. Cutillo V., Giladi A., Sala E., Maganuco C. G., Medaglia C., Di Lucia P., Bono E., Cristofani C., Consolo E., Giustini L., Fiore A., Eickhoff S., Kastenmueller W., Amit I., Kuka M. & Iannacone M., et al. Nature Immunology | 2020 [All authors] »

Spatiotemporal regulation of type I interferon expression determines the antiviral polarization of CD4(+) T cells

Single-cell genomic approaches for developing the next generation of immunotherapies

Read more about

Publication category: Cancer Immunotherapy

, Open in new window

Authors: Yofe I., Dahan R. & Amit I. Nature Medicine | 2020 [All authors] »

Single-cell genomic approaches for developing the next generation of immunotherapies

2019

Cross-Species Single-Cell Analysis Reveals Divergence of the Primate Microglia Program

Read more about

Publication category: Brain

, Open in new window

Authors: Geirsdottir L., David E., Keren-Shaul H. Weiner A., Bohlen S. C., Neuber J., Balic A., Giladi A., Sheban F., Dutertre C., Pfeifle C., Peri F., Raffo-Romero A., Vizioli J., Matiasek K., Scheiwe C., Meckel S., Maetz-Rensing K., van der Meer F., Thormodsson F. R., Stadelmann C., Zilkha N., Kimchi T., Ginhoux F., Ulitsky I., Erny D., Amit I. & Prinz M., et al. Cell | 2019 [All authors] »

Cross-Species Single-Cell Analysis Reveals Divergence of the Primate Microglia Program

ETS Proteins Bind with Glucocorticoid Receptors: Relevance for Treatment of Ewing Sarcoma

Read more about

Publication category: Cancer Immunotherapy

, Open in new window

Authors: Srivastava S. Nataraj N. B., Sekar A., Ghosh S., Bornstein C., Drago-Garcia D., Roth L., Romaniello D., Marrocco I., David E., Gilad Y., Lauriola M., Rotkopf R., Kimchi A., Haga Y., Tsutsumi Y., Mirabeau O., Surdez D., Zinovyev A., Delattre O., Kovar H., Amit I. & Yarden Y., et al. Cell Reports | 2019 [All authors] »

ETS Proteins Bind with Glucocorticoid Receptors: Relevance for Treatment of Ewing Sarcoma

Embrace the fat when getting old

Read more about

Publication category: Metabolism

, Open in new window

Authors: Adlung L. Amit I. & Elinav E., et al. AGING-US | 2019 [All authors] »

Embrace the fat when getting old

Plasmacytoid dendritic cells develop from Ly6D(+) lymphoid progenitors distinct from the myeloid lineage

Read more about

Publication category: Development

, Open in new window

Authors: Dress R. J. Dutertre C., Giladi A., Schlitzer A., Low I., Shadan N. B., Tay A., Lum J., Kairi M. F. B. M., Hwang Y. Y., Becht E., Cheng Y., Chevrier M., Larbi A., Newell E. W., Amit I., Chen J. & Ginhoux F., et al. Nature Immunology | 2019 [All authors] »

Plasmacytoid dendritic cells develop from Ly6D(+) lymphoid progenitors distinct from the myeloid lineage

Lipid-Associated Macrophages Control Metabolic Homeostasis in a Trem2-Dependent Manner

Read more about

Publication category: Metabolism

, Open in new window

Authors: Jaitin D. A., Adlung L., Thaiss C. A., Weiner A., Li B. Descamps H., Lundgren P., Bleriot C., Liu Z., Deczkowska A., Keren-Shaul H., David E., Zmora N., Eldar S. M., Lubezky N., Shibolet O., Hill D. A., Lazar M. A., Colonna M., Ginhoux F., Shapiro H., Elinav E. & Amit I., et al. Cell | 2019 [All authors] »

Lipid-Associated Macrophages Control Metabolic Homeostasis in a Trem2-Dependent Manner

A niche-dependent myeloid transcriptome signature defines dormant myeloma cells

Read more about

Publication category: Cancer Immunotherapy

, Open in new window

Authors: Khoo W. H. Ledergor G., Weiner A., Roden D. L., Terry R. L., McDonald M. M., Chai R. C., De Veirman K., Owen K. L., Opperman K. S., Vandyke K., Clark J. R., Seckinger A., Kovacic N., Nguyen A., Mohanty S. T., Pettitt J. A., Xiao Y., Corr A. P., Seeliger C., Novotny M., Lasken R. S., Nguyen T., Oyajobi B. O., Aftab D., Swarbrick A., Parker B., Hewett D. R., Hose D., Vanderkerken K., Zannettino A. C. W., Amit I., Phan T. G. & Croucher P., et al. Blood | 2019 [All authors] »

A niche-dependent myeloid transcriptome signature defines dormant myeloma cells

Deletion of a Csf1r enhancer selectively impacts CSF1R expression and development of tissue macrophage populations

Read more about

Publication category: Development

, Open in new window

Authors: Rojo R. Raper A., Ozdemir D. D., Lefevre L., Grabert K., Wollscheid-Lengeling E., Bradford B., Caruso M., Gazova I., Sanchez A., Lisowski Z. M., Alves J., Molina-Gonzalez I., Davtyan H., Lodge R. J., Glover J. D., Wallace R., Munro D. A. D., David E., Amit I., Miron V. E., Priller J., Jenkins S. J., Hardingham G. E., Blurton-Jones M., Mabbott N. A., Summers K. M., Hohenstein P., Hume D. A. & Pridans C., et al. Nature Communications | 2019 [All authors] »

Deletion of a Csf1r enhancer selectively impacts CSF1R expression and development of tissue macrophage populations

MARS-seq2.0: an experimental and analytical pipeline for indexed sorting combined with single-cell RNA sequencing

Read more about

Publication category: Technology

, Open in new window

Authors: Keren-Shaul H. Kenigsberg E., Jaitin D. A., David E., Paul F., Tanay A. & Amit I., et al. Nature Protocols | 2019 [All authors] »

MARS-seq2.0: an experimental and analytical pipeline for indexed sorting combined with single-cell RNA sequencing

Corticosteroid signaling at the brain-immune interface impedes coping with severe psychological stress

Read more about

Publication category: Brain

, Open in new window

Authors: Kertser A. Baruch K., Deczkowska A., Weiner A., Croese T., Kenigsbuch M., Cooper I., Tsoory M., Ben-Hamo S., Amit I. & Schwartz M., et al. Science Advances | 2019 [All authors] »

Corticosteroid signaling at the brain-immune interface impedes coping with severe psychological stress

Cell composition analysis of bulk genomics using single-cell data

Read more about

Publication category: Technology

, Open in new window

Authors: Frishberg A. Peshes-Yaloz N., Cohn O., Rosentul D., Steuerman Y., Valadarsky L., Yankovitz G., Mandelboim M., Iraqi F. A., Amit I., Mayo L., Bacharach E. & Gat-Viks I., et al. Nature Methods | 2019 [All authors] »

Cell composition analysis of bulk genomics using single-cell data

DC Respond to Cognate T Cell Interaction in the Antigen-Challenged Lymph Node

Read more about

Publication category: Development

, Open in new window

Authors: Curato C. Bernshtein B., Zupancic E., Dufner A., Jaitin D., Giladi A., David E., Chappell-Maor L., Leshkowitz D., Knobeloch K., Amit I., Florindo H. F. & Jung S., et al. Frontiers in Immunology | 2019 [All authors] »

DC Respond to Cognate T Cell Interaction in the Antigen-Challenged Lymph Node

Single-Cell Analysis of Diverse Pathogen Responses Defines a Molecular Roadmap for Generating Antigen-Specific Immunity

Read more about

Publication category: Development , Technology

, Open in new window

Authors: Blecher-Gonen R., Bost P., Hilligan K. L. David E., Salame T. M., Roussel E., Connor L. M., Mayer J. U., Halpern K. B., Toth B., Itzkovitz S., Schwikowski B., Ronchese F. & Amit I., et al. Cell Systems | 2019 [All authors] »

Single-Cell Analysis of Diverse Pathogen Responses Defines a Molecular Roadmap for Generating Antigen-Specific Immunity

Dysfunctional CD8 T Cells Form a Proliferative, Dynamically Regulated Compartment within Human Melanoma

Read more about

Publication category: Cancer Immunotherapy

, Open in new window

Authors: Li H., van der Leun A. M., Yofe I., Lubling Y. Gelbard-Solodkin D., van Akkooi A. C. J., van den Braber M., Rozeman E. A., Haanen J. B. A. G., Blank C. U., Horlings H. M., David E., Baran Y., Bercovich A., Lifshitz A., Schumacher T. N., Tanay A. & Amit I., et al. Cell | 2019 [All authors] »

Dysfunctional CD8 T Cells Form a Proliferative, Dynamically Regulated Compartment within Human Melanoma

Deterministic Somatic Cell Reprogramming Involves Continuous Transcriptional Changes Governed by Myc and Epigenetic-Driven Modules

Read more about

Publication category: Development

, Open in new window

Authors: Zviran A. Mor N., Rais Y., Gingold H., Peles S., Chomsky E., Viukov S., Buenrostro J. D., Scognamiglio R., Weinberger L., Manor Y. S., Krupalnik V., Zerbib M., Hezroni H., Jaitin D. A., Larastiaso D., Gilad S., Benjamin S., Gafni O., Mousa A., Ayyash M., Sheban D., Bayerl J., Aguilera-Castrejon A., Massarwa R., Maza I., Hanna S., Stelzer Y., Ulitsky I., Greenleaf W. J., Tanay A., Trumpp A., Amit I., Pilpel Y., Novershtern N. & Hanna J. H., et al. Cell Stem Cell | 2019 [All authors] »

Deterministic Somatic Cell Reprogramming Involves Continuous Transcriptional Changes Governed by Myc and Epigenetic-Driven Modules

PD-1/PD-L1 checkpoint blockade harnesses monocyte-derived macrophages to combat cognitive impairment in a tauopathy mouse model

Read more about

Publication category: Brain

, Open in new window

Authors: Rosenzweig N., Dvir-Szternfeld R. Tsitsou-Kampeli A., Keren-Shaul H., Ben-Yehuda H., Weill-Raynal P., Cahalon L., Kertser A., Baruch K., Amit I., Weiner A. & Schwartz M., et al. Nature Communications | 2019 [All authors] »

PD-1/PD-L1 checkpoint blockade harnesses monocyte-derived macrophages to combat cognitive impairment in a tauopathy mouse model

2018

Single cell dissection of plasma cell heterogeneity in symptomatic and asymptomatic myeloma

Read more about

Publication category: Cancer Immunotherapy

, Open in new window

Authors: Ledergor G., Weiner A. Zada M., Wang S., Cohen Y. C., Gatt M. E., Snir N., Magen H., Koren-Michowitz M., Herzog-Tzarfati K., Keren-Shaul H., Bornstein C., Rotkopf R., Yofe I., David E., Yellapantula V., Kay S., Salai M., Ben Yehuda D., Nagler A., Shvidel L., Orr-Urtreger A., Halpern K. B., Itzkovitz S., Landgren O., San-Miguel J., Paiva B., Keats J. J., Papaemmanuil E., Avivi I., Barbash G. I., Tanay A. & Amit I., et al. Nature Medicine | 2018 [All authors] »

Single cell dissection of plasma cell heterogeneity in symptomatic and asymptomatic myeloma

Impaired immune surveillance accelerates accumulation of senescent cells and aging

Read more about

Publication category: Metabolism

, Open in new window

Authors: Ovadya Y., Landsberger T. Leins H., Vadai E., Gal H., Biran A., Yosef R., Sagiv A., Agrawal A., Shapira A., Windheim J., Tsoory M., Schirmbeck R., Amit I., Geiger H. & Krizhanovsky V., et al. Nature Communications | 2018 [All authors] »

Impaired immune surveillance accelerates accumulation of senescent cells and aging

Paired-cell sequencing enables spatial gene expression mapping of liver endothelial cells

Read more about

Publication category: Metabolism , Technology

, Open in new window

Authors: Halpern K. B. Shenhav R., Massalha H., Toth B., Egozi A., Massasa E. E., Medgalia C., David E., Giladi A., Moor A. E., Porat Z., Amit I. & Itzkovitz S., et al. Nature Biotechnology | 2018 [All authors] »

Paired-cell sequencing enables spatial gene expression mapping of liver endothelial cells

Lung Single-Cell Signaling Interaction Map Reveals Basophil Role in Macrophage Imprinting

Read more about

Publication category: Development

, Open in new window

Authors: Cohen M., Giladi A., Gorki A. Galbard Solodkin D., Zada M., Hladik A., Miklosi A., Salame T., Halpern K. B., David E., Itzkovitz S., Harkany T., Knapp S. & Amit I., et al. Cell | 2018 [All authors] »

Lung Single-Cell Signaling Interaction Map Reveals Basophil Role in Macrophage Imprinting

From the Human Cell Atlas to dynamic immune maps in human disease

Read more about

Publication category: Technology

, Open in new window

Authors: Adlung L. & Amit I. Nature Reviews Immunology | 2018 [All authors] »

From the Human Cell Atlas to dynamic immune maps in human disease

Combining Developmental and Perturbation-Seq Uncovers Transcriptional Modules Orchestrating Neuronal Remodeling

Read more about

Publication category: Development

, Open in new window

Authors: Alyagor I., Berkun V. Keren-Shaul H., Marmor-Kollet N., David E., Mayseless O., Issman-Zecharya N., Amit I. & Schuldiner O., et al. Developmental Cell | 2018 [All authors] »

Combining Developmental and Perturbation-Seq Uncovers Transcriptional Modules Orchestrating Neuronal Remodeling

Early metazoan cell type diversity and the evolution of multicellular gene regulation

Read more about

Publication category: Development

, Open in new window

Authors: Sebe-Pedros A. Chomsky E., Pang K., Lara-Astiaso D., Gaiti F., Mukamel Z., Amit I., Hejnol A., Degnan B. M. & Tanay A., et al. Nature ecology & evolution | 2018 [All authors] »

Early metazoan cell type diversity and the evolution of multicellular gene regulation

Single-cell characterization of haematopoietic progenitors and their trajectories in homeostasis and perturbed haematopoiesis

Read more about

Publication category: Development

, Open in new window

Authors: Giladi A., Paul F. Herzog Y., Lubling Y., Weiner A., Yofe I., Jaitin D., Cabezas-Wallscheid N., Dress R., Ginhoux F., Trumpp A., Tanay A. & Amit I., et al. Nature Cell Biology | 2018 [All authors] »

Single-cell characterization of haematopoietic progenitors and their trajectories in homeostasis and perturbed haematopoiesis

The bone marrow is patrolled by NK cells that are primed and expand in response to systemic viral activation

Read more about

Publication category: Development

, Open in new window

Authors: Milo I. Blecher-Gonen R., Barnett-Itzhaki Z., Bar-Ziv R., Tal O., Gurevich I., Feferman T., Drexler I., Amit I., Bousso P. & Shakhar G., et al. European Journal of Immunology | 2018 [All authors] »

The bone marrow is patrolled by NK cells that are primed and expand in response to systemic viral activation

Single-cell mapping of the thymic stroma identifies IL-25-producing tuft epithelial cells

Read more about

Publication category: Development

, Open in new window

Authors: Bornstein C., Nevo S., Giladi A. Kadouri N., Pouzolles M., Gerbe F., David E., Machado A., Chuprin A., Toth B., Goldberg O., Itzkovitz S., Taylor N., Jay P., Zimmermann V. S., Abramson J. & Amit I., et al. Nature | 2018 [All authors] »

Single-cell mapping of the thymic stroma identifies IL-25-producing tuft epithelial cells

Differences in Cell Cycle Status Underlie Transcriptional Heterogeneity in the HSC Compartment

Read more about

Publication category: Development

, Open in new window

Authors: Lauridsen F. K. B. Jensen T. L., Rapin N., Aslan D., Wilhelmson A. S., Pundhir S., Rehn M., Paul F., Giladi A., Hasemann M. S., Serup P., Amit I. & Porse B. T., et al. Cell Reports | 2018 [All authors] »

Differences in Cell Cycle Status Underlie Transcriptional Heterogeneity in the HSC Compartment

Dissection of Influenza Infection In Vivo by Single-Cell RNA Sequencing

Read more about

Publication category: Technology

, Open in new window

Authors: Steuerman Y., Cohen M. Peshes-Yaloz N., Valadarsky L., Cohn O., David E., Frishberg A., Mayo L., Bacharach E., Amit I. & Gat-Viks I., et al. Cell Systems | 2018 [All authors] »

Dissection of Influenza Infection In Vivo by Single-Cell RNA Sequencing

Trained Memory of Human Uterine NK Cells Enhances Their Function in Subsequent Pregnancies

Read more about

Publication category: Development

, Open in new window

Authors: Gamliel M. Goldman-Wohl D., Isaacson B., Gur C., Stein N., Yamin R., Berger M., Grunewald M., Keshet E., Rais Y., Bornstein C., David E., Jelinski A., Eisenberg I., Greenfield C., Ben-David A., Imbar T., Gilad R., Haimov-Kochman R., Mankuta D., Elami-Suzin M., Amit I., Hanna J. H., Yagel S. & Mandelboim O., et al. Immunity | 2018 [All authors] »

Trained Memory of Human Uterine NK Cells Enhances Their Function in Subsequent Pregnancies

Disease-Associated Microglia: A Universal Immune Sensor of Neurodegeneration

Read more about

Publication category: Brain

, Open in new window

Authors: Deczkowska A., Keren-Shaul H., Weiner A. Colonna M., Schwartz M. & Amit I., et al. Cell | 2018 [All authors] »

Disease-Associated Microglia: A Universal Immune Sensor of Neurodegeneration

Microglial immune checkpoint mechanisms

Read more about

Publication category: Brain

, Open in new window

Authors: Deczkowska A., Amit I. & Schwartz M. Nature Neuroscience | 2018 [All authors] »

Microglial immune checkpoint mechanisms

Salient experiences are represented by unique transcriptional signatures in the mouse brain

Read more about

Publication category: Brain

, Open in new window

Authors: Mukherjee D. Ignatowska-Jankowska B. M., Itskovits E., Gonzales B. J., Turm H., Izakson L., Haritan D., Bleistein N., Cohen C., Amit I., Shay T., Grueter B., Zaslaver A. & Citri A., et al. eLife | 2018 [All authors] »

Salient experiences are represented by unique transcriptional signatures in the mouse brain

Microbiome Influences Prenatal and Adult Microglia in a Sex-Specific Manner

Read more about

Publication category: Development , Brain

, Open in new window

Authors: Thion M. S. Low D., Silvin A., Chen J., Grisel P., Schulte-Schrepping J., Blecher R., Ulas T., Squarzoni P., Hoeffel G., Coulpier F., Siopi E., David F. S., Scholz C., Shihui F., Lum J., Amoyo A. A., Larbi A., Poidinger M., Buttgereit A., Lledo P., Greter M., Chan J. K. Y., Amit I., Beyer M., Schultze J. L., Schlitzer A., Pettersson S., Ginhoux F. & Garel S., et al. Cell | 2018 [All authors] »

Microbiome Influences Prenatal and Adult Microglia in a Sex-Specific Manner

Single-Cell Genomics: A Stepping Stone for Future Immunology Discoveries

Read more about

Publication category: Technology

, Open in new window

Authors: Giladi A. & Amit I. Cell | 2018 [All authors] »

Single-Cell Genomics: A Stepping Stone for Future Immunology Discoveries

A Myc enhancer cluster regulates normal and leukaemic haematopoietic stem cell hierarchies

Read more about

Publication category: Cancer Immunotherapy

, Open in new window

Authors: Bahr C. von Paleske L., Slu V. V. U., Emeseiro S. R., Takayama N., Ng S. W., Murison A., Langenfeld K., Petretich M., Scognamiglio R., Zeisberger P., Benk A. S., Amit I., Zandstra P. W., Lupien M., Dick J. E., Trumpp A. & Spitz F., et al. Nature | 2018 [All authors] »

A Myc enhancer cluster regulates normal and leukaemic haematopoietic stem cell hierarchies

2017

Mef2C restrains microglial inflammatory response and is lost in brain ageing in an IFN-I-dependent manner

Read more about

Publication category: Brain

, Open in new window

Authors: Deczkowska A., Matcovitch-Natan O. Tsitsou-Kampeli A., Ben-Hamo S., Dvir-Szternfeld R., Spinrad A., Singer O., David E., Winter D. R., Smith L. K., Kertser A., Baruch K., Rosenzweig N., Terem A., Prinz M., Villeda S., Citri A., Amit I. & Schwartz M., et al. Nature Communications | 2017 [All authors] »

Mef2C restrains microglial inflammatory response and is lost in brain ageing in an IFN-I-dependent manner

Science Forum: The Human Cell Atlas

Read more about

Publication category: Development

, Open in new window

Authors: Regev A., Teichmann S. A., Lander E. S., Amt I. Benoist C., Birney E., Bodenmiller B., Campbell P., Carninci P., Clatworthy M., Clevers H., Deplancke B., Dunham I., Eberwine J., Elis R., Enard W., Farmer A., Fugger L., Gottgens B., Hacohen N., Haniffa M., Hemberg M., Kim S., Klenerman P., Kriegstein A., Lein E. D., Linnarsson S., Lundberg E., Lundeberg J., Majumder P., Marioni J. C., Merad M., Mhlanga M., Nawijin M., Netea M., Nolan G., Pe'er D., Phillipakis A., Ponting C. P., Quake S., Reik W., Rozenblatt-Rosen O., Sanes J., Satija R., Schumacher T. N., Shalek A., Shapiro E., Sharma P., Shin J. W., Stegle O. & , et al. eLife | 2017 [All authors] »

Science Forum: The Human Cell Atlas

Spatial reconstruction of immune niches by combining photoactivatable reporters and scRNA-seq

Read more about

Publication category: Technology

, Open in new window

Authors: Medaglia C., Giladi A., Stoler-Barak L. De Giovanni M., Salame T. M., Biram A., David E., Li H., Iannacone M., Shulman Z. & Amit I., et al. Science | 2017 [All authors] »

Spatial reconstruction of immune niches by combining photoactivatable reporters and scRNA-seq

Immunology, one cell at a time

Read more about

Publication category: Technology

, Open in new window

Authors: Giladi A. & Amit I. Nature | 2017 [All authors] »

Immunology, one cell at a time

MicroRNA-142 controls thymocyte proliferation

Read more about

Publication category: Development , Autoimmunity

, Open in new window

Authors: Mildner A. Chapnik E., Varol D., Aychek T., Lampl N., Rivkin N., Bringmann A., Paul F., Boura-Halfon S., Hayoun Y. S., Barnett Itzhaki I. Z., Amit I., Hornstein E. & Jung S., et al. European Journal of Immunology | 2017 [All authors] »

MicroRNA-142 controls thymocyte proliferation

Dicer Deficiency Differentially Impacts Microglia of the Developing and Adult Brain

Read more about

Publication category: Development , Brain

, Open in new window

Authors: Varol D. Mildner A., Blank T., Shemer A., Barashi N., Yona S., David E., Boura-Halfon S., Segal-Hayoun Y., Chappell-Maor L., Keren-Shaul H., Leshkowitz D., Hornstein E., Fuhrmann M., Amit I., Maggio N., Prinz M. & Jung S., et al. Immunity | 2017 [All authors] »

Dicer Deficiency Differentially Impacts Microglia of the Developing and Adult Brain

A Unique Microglia Type Associated with Restricting Development of Alzheimer's Disease

Read more about

Publication category: Brain

, Open in new window

Authors: Keren-Shaul H., Spinrad A., Weiner A., Matcovitch-Natan O. Dvir-Szternfeld R., Ulland T. K., David E., Baruch K., Lara-Astaiso D., Toth B., Itzkovitz S., Colonna M., Schwartz M. & Amit I., et al. Cell | 2017 [All authors] »

A Unique Microglia Type Associated with Restricting Development of Alzheimer's Disease

Innate Immune Landscape in Early Lung Adenocarcinoma by Paired Single-Cell Analyses

Read more about

Publication category: Cancer Immunotherapy

, Open in new window

Authors: Lavin Y. Kobayashi S., Leader A., Amir E. D., Elefant N., Bigenwald C., Remark R., Sweeney R., Becker C. D., Levine J. H., Meinhof K., Chow A., Kim-Shulze S., Wolf A., Medaglia C., Li H., Rytlewski J. A., Emerson R. O., Solovyov A., Greenbaum B. D., Sanders C., Vignali M., Beasley M. B., Flores R., Gnjatic S., Pe'er D., Rahman A., Amit I. & Merad M., et al. Cell | 2017 [All authors] »

Innate Immune Landscape in Early Lung Adenocarcinoma by Paired Single-Cell Analyses

Genomic Characterization of Murine Monocytes Reveals C/EBP beta Transcription Factor Dependence of Ly6C(-) Cells

Read more about

Publication category: Development

, Open in new window

Authors: Mildner A. Schoenheit J., Giladi A., David E., Lara Astiaso A. D., Lorenzo Vivas V. E., Paul F., Chappell-Maor L., Priller J., Leutz A., Amit I. & Jung S., et al. Immunity | 2017 [All authors] »

Genomic Characterization of Murine Monocytes Reveals C/EBP beta Transcription Factor Dependence of Ly6C(-) Cells

Autonomous TNF is critical for in vivo monocyte survival in steady state and inflammation

Read more about

Publication category: Development

, Open in new window

Authors: Wolf Y. Shemer A., Polonsky M., Gross-Vered M., Mildner A., Yona S., David E., Kim K., Goldmann T., Amit I., Heikenwalder M., Nedospasov S., Prinz M., Friedman N. & Jung S., et al. Journal of Experimental Medicine | 2017 [All authors] »

Autonomous TNF is critical for in vivo monocyte survival in steady state and inflammation

Systematic Epigenomic Analysis Reveals Chromatin States Associated with Melanoma Progression

Read more about

Publication category: Cancer Immunotherapy

, Open in new window

Authors: Fiziev P. Akdemir K. C., Miller J. P., Keung E. Z., Samant N. S., Sharma S., Natale C. A., Terranova C. J., Maitituoheti M., Amin S. B., Martinez-Ledesma E., Dhamdhere M., Axelrad J. B., Shah A., Cheng C. S., Mahadeshwar H., Seth S., Barton M. C., Protopopov A., Tsai K. Y., Davies M. A., Garcia B. A., Amit I., Chin L., Ernst J. & Rai K., et al. Cell Reports | 2017 [All authors] »

Systematic Epigenomic Analysis Reveals Chromatin States Associated with Melanoma Progression

Single-cell transcriptome conservation in cryopreserved cells and tissues

Read more about

Publication category: Technology

, Open in new window

Authors: Guillaumet-Adkins A. Rodriguez-Esteban G., Mereu E., Mendez-Lago M., Jaitin D. A., Villanueva A., Vidal A., Martinez-Marti A., Felip E., Vivancos A., Keren-Shaul H., Heath S., Gut M., Amit I., Gut I. & Heyn H., et al. GENOME BIOLOGY | 2017 [All authors] »

Single-cell transcriptome conservation in cryopreserved cells and tissues

Systemic Human ILC Precursors Provide a Substrate for Tissue ILC Differentiation

Read more about

Publication category: Development

, Open in new window

Authors: Lim A. I. Li Y., Lopez-Lastra S., Stadhouders R., Paul F., Casrouge A., Serafini N., Puel A., Bustamante J., Surace L., Masse-Ranson G., David E., Strick-Marchand H., Le Bourhis B. L., Cocchi R., Topazio D., Graziano P., Muscarella L. A., Rogge L., Norel X., Sallenave J., Allez M., Graf T., Hendriks R. W., Casanova J., Amit I., Yssel H. & Di Santo S. J. P., et al. Cell | 2017 [All authors] »

Systemic Human ILC Precursors Provide a Substrate for Tissue ILC Differentiation

Single-cell spatial reconstruction reveals global division of labour in the mammalian liver

Read more about

Publication category: Metabolism , Technology

, Open in new window

Authors: Halpern K. B., Shenhav R. Matcovitch-Natan O., Toth B., Lemze D., Golan M., Massasa E. E., Baydatch S., Landen S., Moor A. E., Brandis A., Giladi A., Stokar-Avihail A., David E., Amit I. & Itzkovitz S., et al. Nature | 2017 [All authors] »

Single-cell spatial reconstruction reveals global division of labour in the mammalian liver

Transcriptional programs that control expression of the autoimmune regulator gene Aire

Read more about

Publication category: Development

, Open in new window

Authors: Herzig Y. Nevo S., Bornstein C., Brezis M. R., Ben-Hur S., Shkedy A., Eisenberg-Bord M., Levi B., Delacher M., Goldfarb Y., David E., Weinberger L., Viukov S., Ben-Dor S., Giraud M., Hanna J. H., Breiling A., Lyko F., Amit I., Feuerer M. & Abramson J., et al. Nature Immunology | 2017 [All authors] »

Transcriptional programs that control expression of the autoimmune regulator gene Aire

CD74 is a novel transcription regulator

Read more about

Publication category: Development

, Open in new window

Authors: Gil-Yarom N. Radomir L., Sever L., Kramer M. P., Lewinsky H., Bornstein C., Blecher-Gonen R., Barnett Itzhaki Z., Mirkin V., Friedlander G., Shvidel L., Herishanu Y., Lolis E. J., Becker Herman S., Amit I. & Shachar I., et al. Proceedings of the National Academy of Sciences of the United States of America | 2017 [All authors] »

CD74 is a novel transcription regulator

2016

Microbiota Diurnal Rhythmicity Programs Host Transcriptome Oscillations

Read more about

Publication category: Metabolism

, Open in new window

Authors: Thaiss C., Levy M. Korem T., Dohnalova L., Shapiro H., Jaitin D., David E., Winter D., Gury-BenAri M., Tatirovsky E., Tuganbaev T., Federici S., Zmora N., Zeevi D., Dori-Bachash M., Pevsner-Fischer M., Kartvelishvily E., Brandis A., Harmelin A., Shibolet O., Halpern Z., Honda K., Amit I., Segal E. & Elinav E., et al. Cell | 2016 [All authors] »

Microbiota Diurnal Rhythmicity Programs Host Transcriptome Oscillations

Dissecting Immune Circuits by Linking CRISPR-Pooled Screens with Single-Cell RNA-Seq

Read more about

Publication category: Technology

, Open in new window

Authors: Jaitin D. A., Weiner A., Yofe I. Lara Astiaso D., Keren-Shaul H., David E., Salame T. M., Tanay A., van Oudenaarden A. & Amit I., et al. Cell | 2016 [All authors] »

Dissecting Immune Circuits by Linking CRISPR-Pooled Screens with Single-Cell RNA-Seq

The International Human Epigenome Consortium: A Blueprint for Scientific Collaboration and Discovery

Read more about



, Open in new window

Authors: Stunnenberg H. G. Abrignani S., Adams D., de Almeida M., Altucci L., Amin V., Amit I., Antonarakis S. E., Aparicio S., Arima T., Arrigoni L., Arts R., Asnafi V., Badosa M. E., Bae J. B., Bassler K., Beck S., Berkman B., Bernstein B. E., Bilenky M., Bird A., Bock C., Boehm B., Bourque G., Breeze C. E., Brors B., Bujold D., Burren O., Bussemakers M. J., Butterworth A., Campo E., Carrillo-de-Santa-Pau E., Chadwick L., Chan K. M., Chen W., Cheung T. H., Chiapperino L., Choi N. H., Chung H. R., Clarke L., Connors J. M., Cronet P., Danesh J., Dermitzakis M., Drewes G., Durek P., Dyke S., Dylag T., Eaves C. J., Ebert P., Eils R., Eils J., Ennis C. A., Enver T., Feingold E. A., Felder B., Ferguson-Smith A., Fitzgibbon J., Flicek P., Foo R. S., Fraser P., Frontini M., Furlong E., Gakkhar S., Gasparoni N., Gasparoni G., Geschwind D. H., Glažar P., Graf T., Grosveld F., Guan X. Y., Guigo R., Gut I. G., Hamann A., Han B. G., Harris R. A., Heath S., Helin K., Hengstler J. G., Heravi-Moussavi A., Herrup K., Hill S., Hilton J. A., Hitz B. C., Horsthemke B., Hu M., Hwang J. Y., Ip N. Y., Ito T., Javierre B. M., Jenko S., Jenuwein T., Joly Y., Jones S. J., Kanai Y., Kang H. G., Karsan A., Kiemer A. K., Kim S. C., Kim B. J., Kim H. H., Kimura H., Kinkley S., Klironomos F., Koh I. U., Kostadima M., Kressler C., Kreuzhuber R., Kundaje A., Küppers R., Larabell C., Lasko P., Lathrop M., Lee D. H., Lee S., Lehrach H., Leitão E., Lengauer T., Lernmark Å., Leslie R. D., Leung G. K., Leung D., Loeffler M., Ma Y., Mai A., Manke T., Marcotte E. R., Marra M. A., Martens J. H., Martin-Subero J. I., Maschke K., Merten C., Milosavljevic A., Minucci S., Mitsuyama T., Moore R. A., Müller F., Mungall A. J., Netea M. G., Nordström K., Norstedt I., Okae H., Onuchic V., Ouellette F., Ouwehand W., Pagani M., Pancaldi V., Pap T., Pastinen T., Patel R., Paul D. S., Pazin M. J., Pelicci P. G., Phillips A. G., Polansky J., Porse B., Pospisilik J. A., Prabhakar S., Procaccini D. C., Radbruch A., Rajewsky N., Rakyan V., Reik W., Ren B., Richardson D., Richter A., Rico D., Roberts D. J., Rosenstiel P., Rothstein M., Salhab A., Sasaki H., Satterlee J. S., Sauer S., Schacht C., Schmidt F., Schmitz G., Schreiber S., Schröder C., Schübeler D., Schultze J. L., Schulyer R. P., Schulz M., Seifert M., Shirahige K., Siebert R., Sierocinski T., Siminoff L., Sinha A., Soranzo N., Spicuglia S., Spivakov M., Steidl C., Strattan J. S., Stratton M., Südbeck P., Sun H., Suzuki N., Suzuki Y., Tanay A., Torrents D., Tyson F. L., Ulas T., Ullrich S., Ushijima T., Valencia A., Vellenga E., Vingron M., Wallace C., Wallner S., Walter J., Wang H., Weber S., Weiler N., Weller A., Weng A., Wilder S., Wiseman S. M., Wu A. R., Wu Z., Xiong J., Yamashita Y., Yang X., Yap D. Y., Yip K. Y., Yip S., Yoo J. I., Zerbino D., Zipprich G. & Hirst M., et al. Cell | 2016 [All authors] »

The International Human Epigenome Consortium: A Blueprint for Scientific Collaboration and Discovery

Extracellular Matrix Proteolysis by MT1-MMP Contributes to Influenza-Related Tissue Damage and Mortality

Read more about

Publication category: Development

, Open in new window

Authors: Talmi-Frank D. Altboum Z., Solomonov I., Udi Y., Jaitin D. A., Klepfish M., David E., Zhuravlev A., Keren-Shaul H., Winter D. R., Gat-Viks I., Mandelboim M., Ziv T., Amit I. & Sagi I., et al. Cell Host & Microbe | 2016 [All authors] »

Extracellular Matrix Proteolysis by MT1-MMP Contributes to Influenza-Related Tissue Damage and Mortality

Co-ChIP enables genome-wide mapping of histone mark co-occurrence at single-molecule resolution

Read more about

Publication category: Technology

, Open in new window

Authors: Weiner A., Lara Astiaso A. D. Krupalnik V., Gafni O., David E., Winter D. R., Hanna J. H. & Amit I., et al. Nature biotechnology | 2016 [All authors] »

Co-ChIP enables genome-wide mapping of histone mark co-occurrence at single-molecule resolution

Distinct biological events generated by ECM proteolysis by two homologous collagenases

Read more about

Publication category: Development

, Open in new window

Authors: Solomonov I. Zehorai E., Talmi-Frank D., Wolf S. G., Shainskaya A., Zhuravlev A., Kartvelishvily E., Visse R., Levin Y., Kampf N., Jaitin D. A., David E., Amit I., Nagase H. & Sagi I., et al. Proceedings of the National Academy of Sciences of the United States of America | 2016 [All authors] »

Distinct biological events generated by ECM proteolysis by two homologous collagenases

Microglia development follows a stepwise program to regulate brain homeostasis

Read more about

Publication category: Development , Brain

, Open in new window

Authors: Matcovitch-Natan O., Winter D. R. Giladi A., Vargas Aguilar A. S., Spinrad A., Sarrazin S., Ben-Yehuda H., David E., Zelada Gonzalez G. F., Perrin P., Keren-Shaul H., Gury M., Lara-Astaiso D., Thaiss C. A., Cohen M., Bahar Halpern H. K., Baruch K., Deczkowska A., Lorenzo Vivas V. E., Itzkovitz S., Elinav E., Sieweke M. H., Schwartz M. & Amit I., et al. Science | 2016 [All authors] »

Microglia development follows a stepwise program to regulate brain homeostasis

The Spectrum and Regulatory Landscape of Intestinal Innate Lymphoid Cells Are Shaped by the Microbiome

Read more about

Publication category: Metabolism

, Open in new window

Authors: Gury-BenAri M., Thaiss C. A. Serafini N., Winter D. R., Giladi A., Lara Astiaso A. D., Levy M., Salame T. M., Weiner A., David E., Shapiro H., Dori-Bachash M., Pevsner-Fischer M., Lorenzo Vivas V. E., Keren-Shaul H., Paul F., Harmelin A., Eberl G., Itzkovitz S., Tanay A., Di Santo S. J. P., Elinav E. & Amit I., et al. Cell | 2016 [All authors] »

The Spectrum and Regulatory Landscape of Intestinal Innate Lymphoid Cells Are Shaped by the Microbiome

M-sec regulates polarized secretion of inflammatory endothelial chemokines and facilitates CCL2-mediated lymphocyte transendothelial migration

Read more about

Publication category: Development

, Open in new window

Authors: Barzilai S., Blecher-Gonen R. Barnett Itzhaki Z., Zauberman A., Lebel-Haziv Y., Amit I. & Alon R., et al. Journal of Leukocyte Biology | 2016 [All authors] »

M-sec regulates polarized secretion of inflammatory endothelial chemokines and facilitates CCL2-mediated lymphocyte transendothelial migration

Voices Of Biotech

Read more about

Publication category: Technology

, Open in new window

Authors: Amit I. Baker D., Barker R., Berger B., Bertozzi C., Bhatia S., Biffi A., Demichelis F., Doudna J., Dowdy S. F., Endy D., Helmstaedter M., Junca H., June C., Kamb S., Khvorova A., Kim D., Kim J., Krishnan Y., Lakadamyali M., Lappalainen T., Lewin S., Liao J., Loman N., Lundberg E., Lynd L., Martin C., Mellman I., Miyawaki A., Mummery C., Nelson K., Paz J., Peralta-Yahya P., Picotti P., Polyak K., Prather K., Qin J., Quake S., Regev A., Rogers J. A., Shetty R., Sommer M., Stevens M., Stolovitzky G., Takahashi M., Tang F., Teichmann S., Torres-Padilla M., Tripathi L., Vemula P., Verdine G., Vollmer F., Wang J., Ying J. Y., Zhang F. & Zhang T., et al. Nature Biotechnology | 2016 [All authors] »

Voices Of Biotech

Sumoylation coordinates the repression of inflammatory and anti-viral gene-expression programs during innate sensing

Read more about

Publication category: Technology

, Open in new window

Authors: Decque A. Joffre O., Magalhaes J. G., Cossec J. C., Blecher-Gonen R., Lapaquette P., Silvin A., Manel N., Joubert P. E., Seeler J. S., Albert M. L., Amit I., Amigorena S. & Dejean A., et al. Nature Immunology | 2016 [All authors] »

Sumoylation coordinates the repression of inflammatory and anti-viral gene-expression programs during innate sensing

PD-1 immune checkpoint blockade reduces pathology and improves memory in mouse models of Alzheimer's disease

Read more about

Publication category: Brain

, Open in new window

Authors: Baruch K. Deczkowska A., Rosenzweig N., Tsitsou-Kampeli A., Sharif A. M., Matcovitch-Natan O., Kertser A., David E., Amit I. & Schwartz M., et al. Nature Medicine | 2016 [All authors] »

PD-1 immune checkpoint blockade reduces pathology and improves memory in mouse models of Alzheimer's disease

The role of the local environment and epigenetics in shaping macrophage identity and their effect on tissue homeostasis

Read more about

Publication category: Development

, Open in new window

Authors: Amit I., Winter D. R. & Jung S. Nature Immunology | 2016 [All authors] »

The role of the local environment and epigenetics in shaping macrophage identity and their effect on tissue homeostasis

2015

Microbiota-Modulated Metabolites Shape the Intestinal Microenvironment by Regulating NLRP6 Inflammasome Signaling

Read more about

Publication category: Metabolism

, Open in new window

Authors: Levy M., Thaiss C. A. Zeevi D., Dohnalova L., Zilberman-Schapira G., Mahdi J. A., David E., Savidor A., Korem T., Herzig Y., Pevsner-Fischer M., Shapiro H., Christ A., Harmelin A., Halpern Z., Latz E., Flavell R. A., Amit I., Segal E. & Elinav E., et al. Cell | 2015 [All authors] »

Microbiota-Modulated Metabolites Shape the Intestinal Microenvironment by Regulating NLRP6 Inflammasome Signaling

Transcriptional Heterogeneity and Lineage Commitment in Myeloid Progenitors

Read more about

Publication category: Development , Technology

, Open in new window

Authors: Paul F. Arkin Y., Giladi A., Jaitin D. A., Kenigsberg E., Keren-Shaul H., Winter D., Lara-Astiaso D., Gury M., Weiner A., David E., Cohen N., Lauridsen F. K. B., Haas S., Schlitzer A., Mildner A., Ginhoux F., Jung S., Trumpp A., Porse B. T., Tanay A. & Amit I., et al. Cell | 2015 [All authors] »

Transcriptional Heterogeneity and Lineage Commitment in Myeloid Progenitors

Making the case for chromatin profiling: A new tool to investigate the immune-regulatory landscape

Read more about

Publication category: Development , Technology

, Open in new window

Authors: Winter D. R., Jung S. & Amit I. Nature Reviews Immunology | 2015 [All authors] »

Making the case for chromatin profiling: A new tool to investigate the immune-regulatory landscape

From mass cytometry to cancer prognosis

Read more about

Publication category: Cancer Immunotherapy , Technology

, Open in new window

Authors: Winter D. R., Ledergor G. & Amit I. Nature Biotechnology | 2015 [All authors] »

From mass cytometry to cancer prognosis

Distinct Murine Mucosal Langerhans Cell Subsets Develop from Pre-dendritic Cells and Monocytes

Read more about

Publication category: Development

, Open in new window

Authors: Capucha T., Mizraji G., Segev H. Blecher-Gonen R., Winter D., Khalaileh A., Tabib Y., Attal T., Nassar M., Zelentsova K., Kisos H., Zenke M., Sere K., Hieronymus T., Burstyn-Cohen T., Amit I., Wilensky A. & Hovav A., et al. Immunity | 2015 [All authors] »

Distinct Murine Mucosal Langerhans Cell Subsets Develop from Pre-dendritic Cells and Monocytes

DCs are ready to commit

Read more about

Publication category: Development

, Open in new window

Authors: Winter D. & Amit I. Nature Immunology | 2015 [All authors] »

DCs are ready to commit

High-resolution chromatin dynamics during a yeast stress response

Read more about

Publication category: Technology

, Open in new window

Authors: Weiner A., Hsieh T. S., Appleboim A. Chen H. V., Rahat A., Amit I., Rando O. J. & Friedman N., et al. Molecular Cell | 2015 [All authors] »

High-resolution chromatin dynamics during a yeast stress response

Derivation of novel human ground state naive pluripotent stem cells (vol 504, pg 282, 2013): Derivation of novel human ground state naive pluripotent stem cells

Read more about

Publication category: Development

, Open in new window

Authors: Gafni O., Weinberger L., Mansour A. A. Manor Y. S., Chomsky E., Ben-Yosef D., Kalma Y., Viukov S., Maza I., Zviran A., Rais Y., Shipony Z., Mukamel Z., Krupalnik V., Zerbib M., Geula S., Caspi I., Schneir D., Shwartz T., Gilad S., Amann-Zalcenstein D., Benjamin S., Amit I., Tanay A., Massarwa R., Novershtern N. & Hanna J. H., et al. Nature | 2015 [All authors] »

Derivation of novel human ground state naive pluripotent stem cells (vol 504, pg 282, 2013): Derivation of novel human ground state naive pluripotent stem cells

Deterministic direct reprogramming of somatic cells to pluripotency (vol 502, pg 65, 2013): Deterministic direct reprogramming of somatic cells to pluripotency (Nature (2013) 502 (65-70) DOI: 10.1038/nature12587)

Read more about

Publication category: Development

, Open in new window

Authors: Rais Y., Zviran A., Geula S. Gafni O., Chomsky E., Viukov S., Mansour A. A., Caspi I., Krupalnik V., Zerbib M., Maza I., Mor N., Baran D., Weinberger L., Jaitin D. A., Lara-Astiaso D., Blecher-Gonen R., Shipony Z., Mukamel Z., Hagai T., Gilad S., Amann-Zalcenstein D., Tanay A., Amit I., Novershtern N. & Hanna J. H., et al. Nature | 2015 [All authors] »

Deterministic direct reprogramming of somatic cells to pluripotency (vol 502, pg 65, 2013): Deterministic direct reprogramming of somatic cells to pluripotency (Nature (2013) 502 (65-70) DOI: 10.1038/nature12587)

Simultaneous measurement of genome-wide transcription elongation speeds and rates of RNA polymerase II transition into active elongation with 4sUDRB-seq

Read more about

Publication category: Technology

, Open in new window

Authors: Fuchs G. Voichek Y., Rabani M., Benjamin S., Gilad S., Amit I. & Oren M., et al. Nature protocols | 2015 [All authors] »

Simultaneous measurement of genome-wide transcription elongation speeds and rates of RNA polymerase II transition into active elongation with 4sUDRB-seq

Transcription factor binding dynamics during human ES cell differentiation

Read more about

Publication category: Development

, Open in new window

Authors: Tsankov A. M. Gu H., Akopian V., Ziller M. J., Donaghey J., Amit I., Gnirke A. & Meissner A., et al. Nature | 2015 [All authors] »

Transcription factor binding dynamics during human ES cell differentiation

m⁶A mRNA methylation facilitates resolution of naïve pluripotency toward differentiation

Read more about

Publication category: Development , Technology

, Open in new window

Authors: Geula S., Moshitch-Moshkovitz S., Dominissini D. Mansour A. A., Kol N., Salmon-Divon M., Hershkovitz V., Peer E., Mor N., Manor Y. S., Ben-Haim M., Eyal E., Yunger S., Pinto Y., Jaitin D. A., Viukov S., Rais Y., Krupalnik V., Chomsky E., Zerbib M., Maza I., Rechavi Y., Massarwa R., Hanna S., Amit I., Levanon E. Y., Amariglio N., Stern-Ginossar N., Novershtern N., Rechavi G. & Hanna J. H., et al. Science | 2015 [All authors] »

m⁶A mRNA methylation facilitates resolution of naïve pluripotency toward differentiation

Each cell counts: Hematopoiesis and immunity research in the era of single cell genomics

Read more about

Publication category: Technology

, Open in new window

Authors: Jaitin D. A., Keren-Shaul H., Elefant N. & Amit I. Seminars in Immunology | 2015 [All authors] »

Each cell counts: Hematopoiesis and immunity research in the era of single cell genomics

2014

High-resolution sequencing and modeling identifies distinct dynamic RNA regulatory strategies

Read more about

Publication category: Technology

, Open in new window

Authors: Rabani M. Raychowdhury R., Jovanovic M., Rooney M., Stumpo D. J., Pauli A., Hacohen N., Schier A. F., Blackshear P. J., Friedman N., Amit I. & Regev A., et al. Cell | 2014 [All authors] »

High-resolution sequencing and modeling identifies distinct dynamic RNA regulatory strategies

A Negative Feedback Loop of Transcription Factors Specifies Alternative Dendritic Cell Chromatin States

Read more about

Publication category: Development

, Open in new window

Authors: Bornstein C., Winter D. Barnett Itzhaki I. Z., David E., Kadri S., Garber M. & Amit I., et al. Molecular Cell | 2014 [All authors] »

A Negative Feedback Loop of Transcription Factors Specifies Alternative Dendritic Cell Chromatin States

Chronic exposure to TGFβ1 regulates myeloid cell inflammatory response in an IRF7-dependent manner

Read more about

Publication category: Development , Brain

, Open in new window

Authors: Cohen M., Matcovitch O. David E., Barnett Itzhaki I. Z., Keren-Shaul H., Blecher-Gonen R., Jaitin D. A., Sica A., Amit I. & Schwartz M., et al. EMBO Journal | 2014 [All authors] »

Chronic exposure to TGFβ1 regulates myeloid cell inflammatory response in an IRF7-dependent manner

Tissue-resident macrophage enhancer landscapes are shaped by the local microenvironment

Read more about

Publication category: Development

, Open in new window

Authors: Lavin Y., Winter D. Blecher-Gonen R., David E., Keren-Shaul H., Merad M., Jung S. & Amit I., et al. Cell | 2014 [All authors] »

Tissue-resident macrophage enhancer landscapes are shaped by the local microenvironment

Plasticity in the transcriptional and epigenetic circuits regulating dendritic cell lineage specification and function

Read more about

Publication category: Development

, Open in new window

Authors: Paul F. & Amit I. Current Opinion in Immunology | 2014 [All authors] »

Plasticity in the transcriptional and epigenetic circuits regulating dendritic cell lineage specification and function

The central nervous system microenvironment imprints microglial inability to switch from pro- to anti-inflammatory phenotype

Read more about

Publication category: Brain

, Open in new window

Authors: Orit Matcovitch; Merav Cohen; Eyal David; Zohar Barnettitzhaki; Hadas Keren-Shaul; Ronnie Blecher-gonen; Diego Adhemar Jaitin; Antonio Sica; Ido Amit; Michal Schwartz Journal of Neuroimmunology | 2014 [All authors] »

The central nervous system microenvironment imprints microglial inability to switch from pro- to anti-inflammatory phenotype

Aging-induced type I interferon response at the choroid plexus negatively affects brain function

Read more about

Publication category: Brain

, Open in new window

Authors: Baruch K., Deczkowska A. David E., Castellano J. M., Miller O., Kertser A., Berkutzki T., Barnett Itzhaki I. Z., Bezalel D., Wyss-Coray T., Amit I. & Schwartz M., et al. Science | 2014 [All authors] »

Aging-induced type I interferon response at the choroid plexus negatively affects brain function

The role of chromatin dynamics in immune cell development

Read more about

Publication category: Development

, Open in new window

Authors: Winter D. R. & Amit I. Immunological Reviews | 2014 [All authors] »

The role of chromatin dynamics in immune cell development

Analysis of the transcriptional networks underpinning the activation of murine macrophages by inflammatory mediators

Read more about

Publication category: Development

, Open in new window

Authors: Raza S. Barnett M. W., Barnett Itzhaki I. Z., Amit I., Hume D. A. & Freeman T. C., et al. Journal of Leukocyte Biology | 2014 [All authors] »

Analysis of the transcriptional networks underpinning the activation of murine macrophages by inflammatory mediators

Chromatin state dynamics during blood formation

Read more about

Publication category: Development , Technology

, Open in new window

Authors: Lara Astiaso A. D., Weiner A. Lorenzo Vivas V. E., Zaretsky I., Jaitin D. A., David E., Keren-Shaul H., Mildner A., Winter D., Jung S., Friedman N. & Amit I., et al. Science | 2014 [All authors] »

Chromatin state dynamics during blood formation

Digital cell quantification identifies global immune cell dynamics during influenza infection

Read more about

Publication category: Development , Technology

, Open in new window

Authors: Altboum Z., Steuerman Y. David E., Barnett Itzhaki I. Z., Valadarsky L., Keren-Shaul H., Meningher T., Mendelson E., Mandelboim M., Gat-Viks I. & Amit I., et al. Molecular Systems Biology | 2014 [All authors] »

Digital cell quantification identifies global immune cell dynamics during influenza infection

Massively parallel single-cell RNA-seq for marker-free decomposition of tissues into cell types

Read more about

Publication category: Technology

, Open in new window

Authors: Jaitin D. A., Kenigsberg E., Keren-Shaul H. Elefant N., Paul F., Zaretsky I., Mildner A., Cohen N., Jung S., Tanay A. & Amit I., et al. Science | 2014 [All authors] »

Massively parallel single-cell RNA-seq for marker-free decomposition of tissues into cell types

4sUDRB-seq: measuring genomewide transcriptional elongation rates and initiation frequencies within cells

Read more about

Publication category: Technology

, Open in new window

Authors: Fuchs G., Voichek Y. Benjamin S., Gilad S., Amit I. & Oren M., et al. GENOME BIOLOGY | 2014 [All authors] »

4sUDRB-seq: measuring genomewide transcriptional elongation rates and initiation frequencies within cells

Sequential feedback induction stabilizes the phosphate starvation response in budding yeast

Read more about

Publication category: Technology

, Open in new window

Authors: Vardi N. Levy S., Gurvich Y., Polacheck T., Carmi M., Jaitin D., Amit I. & Barkai N., et al. Cell Reports | 2014 [All authors] »

Sequential feedback induction stabilizes the phosphate starvation response in budding yeast

2013

Semiconductor-based DNA sequencing of histone modification states

Read more about

Publication category: Technology

, Open in new window

Authors: Cheng C. S. Rai K., Garber M., Hollinger A., Robbins D., Anderson S., Macbeth A., Tzou A., Carneiro M. O., Raychowdhury R., Russ C., Hacohen N., Gershenwald J. E., Lennon N., Nusbaum C., Chin L., Regev A. & Amit I., et al. Nature Communications | 2013 [All authors] »

Semiconductor-based DNA sequencing of histone modification states

Deciphering molecular circuits from genetic variation underlying transcriptional responsiveness to stimuli

Read more about

Publication category: Technology

, Open in new window

Authors: Gat-Viks I. Chevrier N., Wilentzik R., Eisenhaure T., Raychowdhury R., Steuerman Y., Shalek A. K., Hacohen N., Amit I. & Regev A., et al. Nature biotechnology | 2013 [All authors] »

Deciphering molecular circuits from genetic variation underlying transcriptional responsiveness to stimuli

High-throughput chromatin immunoprecipitation for genome-wide mapping of in vivo protein-DNA interactions and epigenomic states

Read more about

Publication category: Technology

, Open in new window

Authors: Blecher-Gonen R. Barnett Itzhaki Z., Jaitin D., Amann Zalcenstein D., Lara Astiaso D. & Amit I., et al. Nature protocols | 2013 [All authors] »

High-throughput chromatin immunoprecipitation for genome-wide mapping of in vivo protein-DNA interactions and epigenomic states

Mononuclear phagocyte miRNome analysis identifies miR-142 as critical regulator of murine dendritic cell homeostasis

Read more about

Publication category: Development

, Open in new window

Authors: Mildner A. Chapnik E., Manor O., Yona S., Kim K., Aychek T., Varol D., Beck G., Itzhaki Z. B., Feldmesser E., Amit I., Hornstein E. & Jung S., et al. Blood | 2013 [All authors] »

Mononuclear phagocyte miRNome analysis identifies miR-142 as critical regulator of murine dendritic cell homeostasis

Deterministic direct reprogramming of somatic cells to pluripotency

Read more about

Publication category: Development

, Open in new window

Authors: Rais Y., Zviran A., Geula S. Gafni O., Chomsky E., Viukov S., Mansour A. A., Caspi I., Krupalnik V., Zerbib M., Maza I., Mor N., Baran D., Weinberger L., Jaitin D. A., Lara Astiaso A. D., Blecher-Gonen R., Shipony Z., Mukamel Z., Hagai T., Gilad S., Amann Zalcenstein D., Tanay A., Amit I., Novershtern N. & Hanna J. (., et al. Nature | 2013 [All authors] »

Deterministic direct reprogramming of somatic cells to pluripotency

Derivation of novel human ground state naive pluripotent stem cells

Read more about

Publication category: Development

, Open in new window

Authors: Gafni O., Weinberger L., Mansour A. A. Manor Y. S., Chomsky E., Ben-Yosef D., Kalma Y., Viukov S., Maza I., Zviran A., Rais Y., Shipony Z., Mukamel Z., Krupalnik V., Zerbib M., Geula S., Caspi I., Schneir D., Shwartz T., Gilad S., Amann Zalcenstein D., Benjamin S., Amit I., Tanay A., Massarwa R., Novershtern N. & Hanna J. (., et al. Nature | 2013 [All authors] »

Derivation of novel human ground state naive pluripotent stem cells

2012

Nanowire-mediated delivery enables functional interrogation of primary immune cells: Application to the analysis of chronic lymphocytic leukemia

Read more about



, Open in new window

Authors: Shalek A. K. Gaublomme J. T., Wang L., Yosef N., Chevrier N., Andersen M. S., Robinson J. T., Pochet N., Neuberg D., Gertner R. S., Amit I., Brown J. R., Hacohen N., Regev A., Wu C. J. & Park H., et al. Nano Letters | 2012 [All authors] »

Nanowire-mediated delivery enables functional interrogation of primary immune cells: Application to the analysis of chronic lymphocytic leukemia

A High-Throughput Chromatin Immunoprecipitation Approach Reveals Principles of Dynamic Gene Regulation in Mammals

Read more about



, Open in new window

Authors: Garber M. Yosef N., Goren A., Raychowdhury R., Thielke A., Guttman M., Robinson J., Minie B., Chevrier N., Itzhaki Z., Blecher-Gonen R., Bornstein C., Amann Zalcenstein D., Weiner A., Friedrich D., Meldrim J., Ram O., Cheng C., Gnirke A., Fisher S., Friedmann N., Wong B., Bernstein B. E., Nusbaum C., Hacohen N., Regev A. & Amit I., et al. Molecular Cell | 2012 [All authors] »

A High-Throughput Chromatin Immunoprecipitation Approach Reveals Principles of Dynamic Gene Regulation in Mammals

The H3K27 demethylase Utx regulates somatic and germ cell epigenetic reprogramming

Read more about

Publication category: Development

, Open in new window

Authors: Mansour A. A. Gafni O., Weinberger L., Zviran A., Ayyash M., Rais Y., Krupalnik V., Zerbib M., Amann Zalcenstein D., Maza I., Geula S., Viukov S., Holtzman L., Pribluda A., Canaani E., Horn-Saban S., Amit I., Novershtern N. & Hanna J. H., et al. Nature | 2012 [All authors] »

The H3K27 demethylase Utx regulates somatic and germ cell epigenetic reprogramming

Expression Noise and Acetylation Profiles Distinguish HDAC Functions

Read more about

Publication category: Technology

, Open in new window

Authors: Weinberger L., Voichek Y. Tirosh I., Hornung G., Amit I. & Barkai N., et al. Molecular Cell | 2012 [All authors] »

Expression Noise and Acetylation Profiles Distinguish HDAC Functions

M(odu)LLating the Innate Response

Read more about

Publication category: Technology

, Open in new window

Authors: Blecher-Gonen R. & Amit I. Immunity | 2012 [All authors] »

M(odu)LLating the Innate Response

EGR1 and the ERK-ERF axis drive mammary cell migration in response to EGF

Read more about

Publication category: Development

, Open in new window

Authors: Tarcic G. Avraham R., Pines G., Amit I., Shay T., Lu Y., Zwang Y., Katz M., Ben Chetrit C. N., Jacob-Hirsch J., Virgilio L., Rechavi G., Mavrothalassitis G., Mills G. B., Domany E. & Yarden Y., et al. FASEB Journal | 2012 [All authors] »

EGR1 and the ERK-ERF axis drive mammary cell migration in response to EGF

2011

Combinatorial patterning of chromatin regulators uncovered by genome-wide location analysis in human cells

Read more about



, Open in new window

Authors: Ram O. Goren A., Amit I., Shoresh N., Yosef N., Ernst J., Kellis M., Gymrek M., Issner R., Coyne M., Durham T., Zhang X., Donaghey J., Epstein C. B., Regev A. & Bernstein B. E., et al. Cell | 2011 [All authors] »

Combinatorial patterning of chromatin regulators uncovered by genome-wide location analysis in human cells

Strategies to discover regulatory circuits of the mammalian immune system

Read more about

Publication category: Technology

, Open in new window

Authors: Amit I., Regev A. & Hacohen N. Nature Reviews Immunology | 2011 [All authors] »

Strategies to discover regulatory circuits of the mammalian immune system

Systematic discovery of TLR signaling components delineates viral-sensing circuits

Read more about



, Open in new window

Authors: Chevrier N. Mertins P., Artyomov M. N., Shalek A. K., Iannacone M., Ciaccio M. F., Gat-Viks I., Tonti E., DeGrace M. M., Clauser K. R., Garber M., Eisenhaure T. M., Yosef N., Robinson J., Sutton A., Andersen M. S., Root D. E., von Andrian U., Jones R. B., Park H., Carr S. A., Regev A., Amit I. & Hacohen N., et al. Cell | 2011 [All authors] »

Systematic discovery of TLR signaling components delineates viral-sensing circuits

2010

EGF decreases the abundance of MicroRNAs that restrain oncogenic transcription factors

Read more about

Publication category: Development

, Open in new window

Authors: Avraham R. Sas-Chen A., Manor O., Steinfeld I., Shalgi R., Tarcic G., Bossel N., Zeisel A., Amit I., Zwang Y., Enerly E., Russnes H. G., Biagioni F., Mottolese M., Strano S., Blandino G., Borresen-Dale A., Pilpel Y. & Yakhini Z., et al. Science Signaling | 2010 [All authors] »

EGF decreases the abundance of MicroRNAs that restrain oncogenic transcription factors

2007

Systems approach to growth factor signaling and to therapeutic intervention

Read more about

Publication category: Development

, Open in new window

Authors: Yarden Y. & Amit I. Ejc Supplements | 2007 [All authors] »

Systems approach to growth factor signaling and to therapeutic intervention

A reciprocal tensin-3-cten switch mediates EGF-driven mammary cell migration

Read more about

Publication category: Development

, Open in new window

Authors: Katz M. Amit I., Citri A., Shay T., Carvalho S., Lavi S., Milanezi F., Lyass L., Amariglio N., Jacob-Hirsch J., Ben Chetrit C. N., Tarcic G., Lindzen M., Avraham R., Liao Y., Trusk P., Lyass A., Rechavi G. & Spector N. L., et al. Nature Cell Biology | 2007 [All authors] »

A reciprocal tensin-3-cten switch mediates EGF-driven mammary cell migration

Regulation of MAPKs by growth factors and receptor tyrosine kinases

Read more about

Publication category: Development

, Open in new window

Authors: Katz M., Amit I. & Yarden Y. Biochimica et Biophysica Acta - Molecular Cell Research | 2007 [All authors] »

Regulation of MAPKs by growth factors and receptor tyrosine kinases

A module of negative feedback regulators defines growth factor signaling

Read more about

Publication category: Development

, Open in new window

Authors: Amit I. Citri A., Shay T., Lu Y., Katz M., Zhang F., Tarcic G., Siwak D., Lahad J., Jacob-Hirsch J., Amariglio N., Vaisman N., Segal E., Rechavi G., Alon U., Mills G. B., Domany E. & Yarden Y., et al. Nature Genetics | 2007 [All authors] »

A module of negative feedback regulators defines growth factor signaling

Evolvable signaling networks of receptor tyrosine kinases: Relevance of robustness to malignancy and to cancer therapy

Read more about

Publication category: Development

, Open in new window

Authors: Amit I., Wides R. & Yarden Y. Molecular Systems Biology | 2007 [All authors] »

Evolvable signaling networks of receptor tyrosine kinases: Relevance of robustness to malignancy and to cancer therapy

2005

Suppressors of cytokine signaling 4 and 5 regulate epidermal growth factor receptor signaling

Read more about

Publication category: Development

, Open in new window

Authors: Kario E. Marmor M., Adamsky K., Citri A., Amit I., Amariglio N., Rechavi G. & Yarden Y., et al. Journal of Biological Chemistry | 2005 [All authors] »

Suppressors of cytokine signaling 4 and 5 regulate epidermal growth factor receptor signaling

2004

LRIG1 restricts growth factor signaling by enhancing receptor ubiquitylation and degradation

Read more about

Publication category: Development

, Open in new window

Authors: Gur G. Rubin C., Katz M., Amit I., Citri A., Nilsson J., Amariglio N., Henriksson R., Rechavi G., Hedman H., Wides R. & Yarden Y., et al. EMBO Journal | 2004 [All authors] »

LRIG1 restricts growth factor signaling by enhancing receptor ubiquitylation and degradation

Tal, a Tsg101-specific E3 ubiquitin ligase, regulates receptor endocytosis and retrovirus budding

Read more about

Publication category: Development

, Open in new window

Authors: Amit I. Yakir L., Katz M., Zwang Y., Marmor M., Citri A., Shtiegman K., Alroy I., Tuvia S., Reiss Y., Roubini E., Cohen M., Wides R., Bacharach E., Schubert U. & Yarden Y., et al. GENES & DEVELOPMENT | 2004 [All authors] »

Tal, a Tsg101-specific E3 ubiquitin ligase, regulates receptor endocytosis and retrovirus budding