Orit Rozenblatt–Rosen

Also affiliated with Kaiser Permanente South San Francisco Medical Center, Klarman Cell Observatory

Biochemistry, Genetics and Molecular BiologyMedicineImmunology and Microbiology

Pilot corpus only

This score is computed over theSindex pilot corpus and does not cover the full scientific literature. Scores are relative to papers we have ingested — papers, authors, and institutions outside the pilot are not represented. Methodology.

Top 1%percentile

32.7Author DataRank

Indexed papers

20in pilot corpus

datarank_citation_only_1hop_v6· scope data_onlyMethodology

Why this DataRank?

An author's DataRank is the sum of the DataRanks of all 20 indexed papers attributed to them. A prolific author with many moderate-impact papers can outrank one with a single high-impact paper.

Author scores recompute whenever paper DataRanks are refreshed, so this number lags the underlying paper scores by at most one batch run.

Read the full methodology →

The highest-impact dataset this researcher has shared, ranked by DataRank — the single contribution doing the most to lift their data-sharing standing.

The Human Tumor Atlas Network: Charting Tumor Transitions across Space and Time at Single-Cell Resolution

Cell(2020)10.1016/j.cell.2020.03.053

Top 4%

5.6DataRank

Top 4%609 citations

Aviv Regev, Philipp Oberdoerffer, Tal Nawy, Anna Hupalowska, Jennifer E. Rood +92 more

Papers

Driven by 202 papers — median percentile 77. Top paper: “Multimodal pooled Perturb-CITE-seq screens in patient models define mechanisms of cancer immune evasion”.

Multimodal pooled Perturb-CITE-seq screens in patient models define mechanisms of cancer immune evasion

Nature Genetics(2021)10.1038/s41588-021-00779-1

N/A

6.5DataRank · unranked

271 citations

Johannes C. Melms, Pratiksha I. Thakore, Kathryn Geiger-Schuller, Patricia Ho, Adrienne Luoma +17 more

The Human Tumor Atlas Network: Charting Tumor Transitions across Space and Time at Single-Cell Resolution

Cell(2020)10.1016/j.cell.2020.03.053

Top 4%

5.6DataRank

Top 4%609 citations

Aviv Regev, Philipp Oberdoerffer, Tal Nawy, Anna Hupalowska, Jennifer E. Rood +92 more

A single-cell and single-nucleus RNA-Seq toolbox for fresh and frozen human tumors

Nature Medicine(2020)10.1038/s41591-020-0844-1

Top 4%

5.6DataRank

Top 4%819 citations

Caroline B. M. Porter, Orr Ashenberg, Julia Waldman, Eugene Drokhlyansky, Isaac Wakiro +45 more

Multiplexed single-cell transcriptional response profiling to define cancer vulnerabilities and therapeutic mechanism of action

Nature Communications(2020)10.1038/s41467-020-17440-w

N/A

5.2DataRank · unranked

186 citations

Brenton R. Paolella, Allison C. Warren, Kathryn Geiger-Schuller, Tsukasa Shibue, Michael Rothberg +18 more

An integrated cell atlas of the lung in health and disease

Nature Medicine(2023)10.1038/s41591-023-02327-2

Top 4%

5.0DataRank

Top 4%781 citations

Ciro Ramírez-Suástegui, Tessa E. Gillett, Luke Zappia, Elo Madissoon, Nikolay S. Markov +87 more

Transcriptional mediators of treatment resistance in lethal prostate cancer

Nature Medicine(2021)10.1038/s41591-021-01244-6

N/A

4.8DataRank · unranked

196 citations

Michael S. Cuoco, Jett Crowdis, Alice Bosma-Moody, Zhenwei Zhang, Kevin Bi +35 more

Acquired FGFR and FGF Alterations Confer Resistance to Estrogen Receptor (ER) Targeted Therapy in ER+ Metastatic Breast Cancer

Clinical Cancer Research(2020)10.1158/1078-0432.ccr-19-3958

N/A

4.2DataRank · unranked

185 citations

Ofir Cohen, Kailey J. Kowalski, Justin G. Kusiel, Jorge E. Buendia-Buendia, Michael S. Cuoco +15 more

B-cell-specific checkpoint molecules that regulate anti-tumour immunity

Nature(2023)10.1038/s41586-023-06231-0

N/A

4.1DataRank · unranked

171 citations

Yoon-Chul Kye, Jingwen Shi, Elena Torlai Triglia, Alexandra Schnell, Johannes Fessler +22 more

A roadmap for the Human Developmental Cell Atlas

Nature(2021)10.1038/s41586-021-03620-1

Top 6%

3.9DataRank

Top 6%194 citations

Deanne Taylor, Sten Linnarsson, Bruce J. Aronow, Samirkumar B. Amin, Roger A. Barker +53 more

Single-Cell RNA-Seq Reveals Cellular Hierarchies and Impaired Developmental Trajectories in Pediatric Ependymoma

Cancer Cell(2020)10.1016/j.ccell.2020.06.004

N/A

3.8DataRank · unranked

165 citations

Bernhard Englinger, Li Jiang, Jens M Hübner, Olivia A. Hack, Sibylle Madlener +38 more

Opposing immune and genetic mechanisms shape oncogenic programs in synovial sarcoma

Nature Medicine(2021)10.1038/s41591-020-01212-6

N/A

3.5DataRank · unranked

127 citations

Cyril Neftel, Marni E. Shore, Hannah R. Weisman, Nathan D. Mathewson, Matthew J. McBride +50 more

A Distinct Transcriptional Program in Human CAR T Cells Bearing the 4-1BB Signaling Domain Revealed by scRNA-Seq

Molecular Therapy(2020)10.1016/j.ymthe.2020.07.023

N/A

3.3DataRank · unranked

111 citations

Rebecca C. Larson, Nemanja Despot Marjanovic, Kirk Gosik, Ana P. Castano, Selena J. Lorrey +17 more

Blood and immune development in human fetal bone marrow and Down syndrome

Nature(2021)10.1038/s41586-021-03929-x

N/A

3.2DataRank · unranked

160 citations

Simone Webb, Issac Goh, Mariana Quiroga Londoño, Gary Reynolds, Michael Mather +60 more

Streamlined Protocol for Deep Proteomic Profiling of FAC-sorted Cells and Its Application to Freshly Isolated Murine Immune Cells*

Molecular & Cellular Proteomics(2019)10.1074/mcp.ra118.001259

N/A

3.2DataRank · unranked

120 citations

Andrew Rhoads, Alexandra R. Cocco, Ryan Peckner, Adam L. Haber, Lawrence D. Schweitzer +8 more

B cell genomics behind cross-neutralization of SARS-CoV-2 variants and SARS-CoV

Cell(2021)10.1016/j.cell.2021.04.032

N/A

2.9DataRank · unranked

100 citations

Christopher O. Barnes, Basak Eraslan, Andrew Hudak, Jennifer R. Keeffe, Lisa A. Cosimi +34 more

An integrated cell atlas of the human lung in health and disease

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.03.10.483747

Top 8%

2.8DataRank

Top 8%97 citations

Daniel Strobl, Luke Zappia, Nikolay S. Markov, Laure-Emmanuelle Zaragosi, Marie-Jeanne Arguel +77 more

Building a high-quality Human Cell Atlas

Nature Biotechnology(2021)10.1038/s41587-020-00812-4

N/A

2.6DataRank · unranked

80 citations

Jay W. Shin, Anna Hupalowska, Prisca Liberali, Holger Heyn, Orit Rozenblatt–Rosen +1 more

A single-cell and single-nucleus RNA-seq toolbox for fresh and frozen human tumors

bioRxiv (Cold Spring Harbor Laboratory)(2019)10.1101/761429

N/A

2.5DataRank · unranked

68 citations

Orr Ashenberg, Julia Waldman, Eugene Drokhlyansky, Isaac Wakiro, Indresh Singh +44 more

An IL-27-Driven Transcriptional Network Identifies Regulators of IL-10 Expression across T Helper Cell Subsets

Cell Reports(2020)10.1016/j.celrep.2020.108433

N/A

2.5DataRank · unranked

90 citations

Asaf Madi, Nir Yosef, Norio Chihara, Amit Awasthi, Caroline Pot +20 more

Cell subtype-specific effects of genetic variation in the Alzheimer’s disease brain

Nature Genetics(2024)10.1038/s41588-024-01685-y

Top 9%

2.3DataRank

Top 9%179 citations

Zongmei Gao, Lu Zeng, Cristin McCabe, Charles C. White, Bernard Ng +22 more

Chronic lung diseases are associated with gene expression programs favoring SARS-CoV-2 entry and severity

Nature Communications(2021)10.1038/s41467-021-24467-0

N/A

2.0DataRank · unranked

43 citations

Nichelle I. Winters, Mei-i Chung, Chitra Joseph, Austin J. Gutierrez, Arun C. Habermann +67 more

TACCO unifies annotation transfer and decomposition of cell identities for single-cell and spatial omics

Nature Biotechnology(2023)10.1038/s41587-023-01657-3

N/A

2.0DataRank · unranked

86 citations

Noa Moriel, Inbal Avraham‐Davidi, Evan Murray, Jan Watter, Fei Chen +5 more

Multiplexed, image-based pooled screens in primary cells and tissues with PerturbView

Nature Biotechnology(2024)10.1038/s41587-024-02391-0

N/A

1.8DataRank · unranked

54 citations

Ana M. Meireles, Reuben Moncada, Yushu Chen, Ping Wu, Joshua Gould +38 more

Stepwise-edited, human melanoma models reveal mutations’ effect on tumor and microenvironment

Science(2022)10.1126/science.abi8175

N/A

1.8DataRank · unranked

70 citations

Elena Torlai Triglia, John Y. H. Kwon, Tommaso Biancalani, Labib R. Zakka, Saurabh Parkar +16 more

A cellular and spatial map of the choroid plexus across brain ventricles and ages

bioRxiv (Cold Spring Harbor Laboratory)(2019)10.1101/627539

Top 12%

1.7DataRank

Top 12%45 citations

Rebecca H. Herbst, Naomi Habib, Danielle Dionne, Cristin McCabe, Jin Cui +11 more

Multicellular communities are perturbed in the aging human brain and Alzheimer’s disease

Nature Neuroscience(2023)10.1038/s41593-023-01356-x

N/A

1.7DataRank · unranked

107 citations

Mariko Taga, Cristin McCabe, Gilad S. Green, Idan Hekselman, Charles C. White +12 more

Single-nucleus and spatial transcriptomics of archival pancreatic cancer reveals multi-compartment reprogramming after neoadjuvant treatment

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.08.25.267336

N/A

1.6DataRank · unranked

35 citations

Karthik A. Jagadeesh, Jimmy A. Guo, Hannah I. Hoffman, Payman Yadollahpour, Rahul Mohan +46 more

SpatialAgent: An autonomous AI agent for spatial biology

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.04.03.646459

N/A

1.5DataRank · unranked

47 citations

Yichun He, Paula P. Coelho, Matthew Bucci, Abbas Nazir, Bob Chen +35 more

Tim-3 adapter protein Bat3 acts as an endogenous regulator of tolerogenic dendritic cell function

Science Immunology(2022)10.1126/sciimmunol.abm0631

N/A

1.4DataRank · unranked

52 citations

Nandini Acharya, Ayshwarya Subramanian, Vinee Purohit, Marcin Tabaka, Yu Hou +11 more

A multi-modal single-cell and spatial expression map of metastatic breast cancer biopsies across clinicopathological features

Nature Medicine(2024)10.1038/s41591-024-03215-z

Top 15%

1.3DataRank

Top 15%91 citations

Daniel L. Abravanel, Åsa Segerstolpe, Timothy R. Blosser, Yury Goltsev, Yi Cui +57 more

SnFFPE-Seq: towards scalable single nucleus RNA-Seq of formalin-fixed paraffin-embedded (FFPE) tissue

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.08.25.505257

N/A

1.3DataRank · unranked

28 citations

Alexandre Melnikov, Cristin McCabe, Eugene Drokhlyansky, Nicholas Van Wittenberghe, Emma M. Magee +7 more

Single-nucleus cross-tissue molecular reference maps to decipher disease gene function

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.07.19.452954

Top 16%

1.3DataRank

Top 16%27 citations

Eugene Drokhlyansky, Shankara Anand, Ayshwarya Subramanian, Evgenij Fiskin, Michal Slyper +19 more

Dissecting the multicellular ecosystem of metastatic melanoma by single-cell RNA-seq

Science(2016)10.1126/science.aad0501

N/A

1.3DataRank · unranked

5121 citations

Benjamin Izar, Sanjay M. Prakadan, Marc H. Wadsworth, Daniel Treacy, John J. Trombetta +39 more

An esophagus cell atlas reveals dynamic rewiring during active eosinophilic esophagitis and remission

Nature Communications(2024)10.1038/s41467-024-47647-0

N/A

1.3DataRank · unranked

57 citations

John J. Garber, Amiko Uchida, Ariel Lefkovith, Grace T. Carter, Praveen Vimalathas +14 more

An Integrative Model of Cellular States, Plasticity, and Genetics for Glioblastoma

Cell(2019)10.1016/j.cell.2019.06.024

N/A

1.2DataRank · unranked

2765 citations

Julie Laffy, Mariella G. Filbin, Toshiro Hara, Marni E. Shore, Gilbert J. Rahme +59 more

Single-cell RNA-seq reveals new types of human blood dendritic cells, monocytes, and progenitors

Science(2017)10.1126/science.aah4573

N/A

1.2DataRank · unranked

2459 citations

Rahul Satija, Gary Reynolds, Siranush Sarkizova, Karthik Shekhar, James Fletcher +19 more

A single-cell survey of the small intestinal epithelium

Nature(2017)10.1038/nature24489

N/A

1.1DataRank · unranked

1850 citations

Moshe Biton, Noga Rogel, Rebecca H. Herbst, Karthik Shekhar, Indresh Singh +18 more

Systematic benchmarking of single-cell ATAC-sequencing protocols

Nature Biotechnology(2023)10.1038/s41587-023-01881-x

N/A

1.1DataRank · unranked

52 citations

Gert Hulselmans, Christopher Flerin, Paula Soler-Vila, Albert Rafels, Valerie Christiaens +42 more

A human liver cell-based system modeling a clinical prognostic liver signature for therapeutic discovery

Nature Communications(2021)10.1038/s41467-021-25468-9

N/A

1.1DataRank · unranked

41 citations

Simonetta Bandiera, Naoto Fujiwara, Shen Li, Hussein El Saghire, Mirian Fernández-Vaquero +63 more

Rewiring of the cellular and inter-cellular landscape of the human colon during ulcerative colitis

bioRxiv (Cold Spring Harbor Laboratory)(2019)10.1101/455451

N/A

1.1DataRank · unranked

19 citations

Moshe Biton, Keri M. Sullivan, Grace Burgin, Daniel B. Graham, Rebecca H. Herbst +24 more

Intra- and Inter-cellular Rewiring of the Human Colon during Ulcerative Colitis

Cell(2019)10.1016/j.cell.2019.06.029

N/A

1.1DataRank · unranked

1412 citations

Moshe Biton, Keri M. Sullivan, Grace Burgin, Daniel B. Graham, Rebecca H. Herbst +28 more

Massively parallel single-nucleus RNA-seq with DroNc-seq

Nature Methods(2017)10.1038/nmeth.4407

N/A

1.1DataRank · unranked

1179 citations

Anindita Basu, Tyler Burks, Karthik Shekhar, Matan Hofree, François Aguet +9 more

Decoupling genetics, lineages, and microenvironment in IDH-mutant gliomas by single-cell RNA-seq

Science(2017)10.1126/science.aai8478

N/A

1.0DataRank · unranked

1050 citations

Itay Tirosh, Christine Hebert, Keren Yizhak, Cyril Neftel, Mariella G. Filbin +29 more

Transcriptional mediators of treatment resistance in lethal prostate cancer

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.03.19.998450

N/A

1.0DataRank · unranked

26 citations

Michael S. Cuoco, Jett Crowdis, Alice Bosma-Moody, Zhenwei Zhang, Kevin Bi +22 more

Reconstructing and Reprogramming the Tumor-Propagating Potential of Glioblastoma Stem-like Cells

Cell(2014)10.1016/j.cell.2014.02.030

N/A

1.0DataRank · unranked

949 citations

Matthew A. Reyna, Daniel A. Gilchrist, Anoop P. Patel, Hiroaki Wakimoto, Samuel D. Rabkin +21 more

SOX2 is an amplified lineage-survival oncogene in lung and esophageal squamous cell carcinomas

Nature Genetics(2009)10.1038/ng.465

N/A

1.0DataRank · unranked

949 citations

Hideo Watanabe, Craig H. Mermel, Soyoung Yu, Sven Perner, So Young Kim +48 more

A Cellular Taxonomy of the Bone Marrow Stroma in Homeostasis and Leukemia

Cell(2019)10.1016/j.cell.2019.04.040

N/A

1.0DataRank · unranked

905 citations

Dariusz Przybylski, Monika S. Kowalczyk, Youmna Kfoury, Nicolas Severe, Karin Gustafsson +16 more

Spatially organized multicellular immune hubs in human colorectal cancer

Cell(2021)10.1016/j.cell.2021.08.003

N/A

1.0DataRank · unranked

787 citations

Matan Hofree, Siranush Sarkizova, Joshua D. Pirl, Vjola Jorgji, Alborz Bejnood +73 more

Immune checkpoint TIM-3 regulates microglia and Alzheimer’s disease

Nature(2025)10.1038/s41586-025-08852-z

N/A

0.998DataRank · unranked

64 citations

Ayshwarya Subramanian, Zhuoran Yin, Ahad Khalilnezhad, Yufan Wu, Danyang He +38 more

Developmental and oncogenic programs in H3K27M gliomas dissected by single-cell RNA-seq

Science(2018)10.1126/science.aao4750

N/A

0.989DataRank · unranked

728 citations

Itay Tirosh, Volker Hovestadt, Leah E. Escalante, Nathan D. Mathewson, Cyril Neftel +46 more

The Human Cell Atlas: from vision to reality

Nature(2017)10.1038/550451a

N/A

0.984DataRank · unranked

706 citations

Michael J. T. Stubbington, Prisca Liberali, Sarah A. Teichmann, Orit Rozenblatt–Rosen

Checkpoint Blockade Immunotherapy Induces Dynamic Changes in PD-1−CD8+ Tumor-Infiltrating T Cells

Immunity(2019)10.1016/j.immuni.2018.11.014

N/A

0.972DataRank · unranked

652 citations

Asaf Madi, Giulia Escobar, Max Klapholz, Jackson Nyman, Elena Christian +9 more

The neuropeptide NMU amplifies ILC2-driven allergic lung inflammation

Nature(2017)10.1038/nature24029

N/A

0.966DataRank · unranked

625 citations

Samantha J. Riesenfeld, Patrick R. Burkett, Raja-Elie E. Abdulnour, Jackson Nyman, Danielle Dionne +18 more

Tumor and immune reprogramming during immunotherapy in advanced renal cell carcinoma

Cancer Cell(2021)10.1016/j.ccell.2021.02.015

N/A

0.964DataRank · unranked

617 citations

Meng Xiao He, Ziad Bakouny, Abhay Kanodia, Sara Napolitano, Jingyi Wu +26 more

Single-cell transcriptomics to explore the immune system in health and disease

Science(2017)10.1126/science.aan6828

N/A

0.962DataRank · unranked

610 citations

Orit Rozenblatt–Rosen, Prisca Liberali, Sarah A. Teichmann, Michael J. T. Stubbington

Interactions between cancer cells and immune cells drive transitions to mesenchymal-like states in glioblastoma

Cancer Cell(2021)10.1016/j.ccell.2021.05.002

N/A

0.953DataRank · unranked

575 citations

Rony Chanoch-Myers, Nathan D. Mathewson, Chad Myskiw, Lyla Atta, Lillian Bussema +17 more

The Human and Mouse Enteric Nervous System at Single-Cell Resolution

Cell(2020)10.1016/j.cell.2020.08.003

N/A

0.948DataRank · unranked

556 citations

Christopher S. Smillie, Nicholas Van Wittenberghe, Maria Ericsson, Gabriel K. Griffin, David S. Fischer +14 more

Single-cell RNA-seq reveals cell type–specific molecular and genetic associations to lupus

Science(2022)10.1126/science.abf1970

N/A

0.939DataRank · unranked

522 citations

M. Grace Gordon, Meena Subramaniam, Min Cheol Kim, George C. Hartoularos, Sasha Targ +25 more

A single-cell landscape of high-grade serous ovarian cancer

Nature Medicine(2020)10.1038/s41591-020-0926-0

N/A

0.938DataRank · unranked

518 citations

Itay Tirosh, Elizabeth H. Stover, Isaac Wakiro, Michael S. Cuoco, Idan Alter +30 more

Pan-cancer single-cell RNA-seq identifies recurring programs of cellular heterogeneity

Nature Genetics(2020)10.1038/s41588-020-00726-6

N/A

0.918DataRank · unranked

455 citations

Rotem Tal, Zhanna Orlova, Michael S. Cuoco, James M. McFarland, Allison C. Warren +22 more

Induction and transcriptional regulation of the co-inhibitory gene module in T cells

Nature(2018)10.1038/s41586-018-0206-z

N/A

0.918DataRank · unranked

453 citations

Asaf Madi, Takaaki Kondo, Huiyuan Zhang, Nandini Acharya, Meromit Singer +17 more

A Distinct Gene Module for Dysfunction Uncoupled from Activation in Tumor-Infiltrating T Cells

Cell(2016)10.1016/j.cell.2016.08.052

N/A

0.910DataRank · unranked

431 citations

Chao Wang, Le Cong, Nemanja Despot Marjanovic, Monika S. Kowalczyk, Huiyuan Zhang +15 more

The enteric nervous system of the human and mouse colon at a single-cell resolution

bioRxiv (Cold Spring Harbor Laboratory)(2019)10.1101/746743

N/A

0.905DataRank · unranked

24 citations

Christopher S. Smillie, Nicholas Van Wittenberghe, Maria Ericsson, Gabriel K. Griffin, Danielle Dionne +11 more

Expansion sequencing: Spatially precise in situ transcriptomics in intact biological systems

Science(2021)10.1126/science.aax2656

N/A

0.902DataRank · unranked

408 citations

Daniel R. Goodwin, Anubhav Sinha, Asmamaw T. Wassie, Fei Chen, Evan R. Daugharthy +164 more

A spatial cell atlas of neuroblastoma reveals developmental, epigenetic and spatial axis of tumor heterogeneity

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.01.07.574538

Top 22%

0.898DataRank

Top 22%34 citations

Orr Ashenberg, Natalie B. Collins, Åsa Segerstolpe, Sizun Jiang, Michal Slyper +53 more

Inhibitory CD161 receptor identified in glioma-infiltrating T cells by single-cell analysis

Cell(2021)10.1016/j.cell.2021.01.022

N/A

0.897DataRank · unranked

394 citations

Orr Ashenberg, Itay Tirosh, Simon Gritsch, Elizabeth M. Perez, Sascha Marx +38 more

A cellular and spatial map of the choroid plexus across brain ventricles and ages

Cell(2021)10.1016/j.cell.2021.04.003

N/A

0.886DataRank · unranked

366 citations

Rebecca H. Herbst, Cristin McCabe, Gilad S. Green, Karol Kaiser, Joshua P. Head +18 more

TIM-3 restrains anti-tumour immunity by regulating inflammasome activation

Nature(2021)10.1038/s41586-021-03626-9

N/A

0.885DataRank · unranked

363 citations

Marcin Tabaka, Markus A. Schramm, Sheng Xiao, Ruihan Tang, Danielle Dionne +5 more

Author Correction: Systematic comparison of single-cell and single-nucleus RNA-sequencing methods

Nature Biotechnology(2020)10.1038/s41587-020-0534-z

N/A

0.875DataRank · unranked

16 citations

Xian Adiconis, Sean K. Simmons, Monika S. Kowalczyk, Cynthia C. Hession, Nemanja Despot Marjanovic +17 more

Differential pre-malignant programs and microenvironment chart distinct paths to malignancy in human colorectal polyps

Cell(2021)10.1016/j.cell.2021.11.031

N/A

0.871DataRank · unranked

332 citations

Cherie’ R. Scurrah, Eliot T. McKinley, Alan J. Simmons, Marisol A. Ramirez-Solano, Xiangzhu Zhu +48 more

BACH2 regulates diversification of regulatory and proinflammatory chromatin states in TH17 cells

Nature Immunology(2024)10.1038/s41590-024-01901-1

N/A

0.863DataRank · unranked

40 citations

Alexandra Schnell, Linglin Huang, Maryann Zhao, Yu Hou, Elena Christian +16 more

The commitment of the human cell atlas to humanity

Nature Communications(2024)10.1038/s41467-024-54306-x

Top 24%

0.847DataRank

Top 24%20 citations

Kristin G. Ardlie, Fabiana Arzuaga, Gordon A. Awandare, Samirkumar B. Amin, Alexander Bernier +38 more

Core Circadian Clock Genes Regulate Leukemia Stem Cells in AML

Cell(2016)10.1016/j.cell.2016.03.015

N/A

0.843DataRank · unranked

275 citations

Monika S. Kowalczyk, Carl G. de Boer, Rebekka K. Schneider, Peter G. Miller, Marie McConkey +15 more

Conventional type I dendritic cells maintain a reservoir of proliferative tumor-antigen specific TCF-1+ CD8+ T cells in tumor-draining lymph nodes

Immunity(2021)10.1016/j.immuni.2021.08.026

N/A

0.839DataRank · unranked

267 citations

Rebecca H. Herbst, David A. Canner, Amy Li, Michelle Hillman, Sean-Luc Shanahan +17 more

Cumulus provides cloud-based data analysis for large-scale single-cell and single-nucleus RNA-seq

Nature Methods(2020)10.1038/s41592-020-0905-x

N/A

0.837DataRank · unranked

264 citations

Joshua Gould, Yiming Yang, Siranush Sarkizova, Marcin Tabaka, Orr Ashenberg +9 more

Systematically characterizing the roles of E3-ligase family members in inflammatory responses with massively parallel Perturb-seq

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.01.23.525198

N/A

0.836DataRank · unranked

23 citations

Basak Eraslan, Olena Kuksenko, Kushal K. Dey, Karthik A. Jagadeesh, Pratiksha I. Thakore +18 more

Stem-like intestinal Th17 cells give rise to pathogenic effector T cells during autoimmunity

Cell(2021)10.1016/j.cell.2021.11.018

N/A

0.826DataRank · unranked

246 citations

Linglin Huang, Meromit Singer, Anvita Singaraju, Rocky M. Barilla, Brianna M.L. Regan +11 more

Epigenetic encoding, heritability and plasticity of glioma transcriptional cell states

Nature Genetics(2021)10.1038/s41588-021-00927-7

N/A

0.824DataRank · unranked

242 citations

Federico Gaiti, Dana Silverbush, Joshua S. Schiffman, Hannah R. Weisman, Lloyd Kluegel +18 more

Mouse fetal growth restriction through parental and fetal immune gene variation and intercellular communications cascade

Nature Communications(2022)10.1038/s41467-022-32171-w

N/A

0.813DataRank · unranked

23 citations

Orr Ashenberg, Jack Lee, Samantha J. Riesenfeld, Matan Hofree, Maria Aggelakopoulou +21 more

Cell-subtype specific effects of genetic variation in the aging and Alzheimer cortex

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.11.07.515446

N/A

0.808DataRank · unranked

35 citations

Zongmei Gao, Lu Zeng, Cristin McCabe, Charles C. White, Bernard Ng +22 more

Nuclei multiplexing with barcoded antibodies for single-nucleus genomics

Nature Communications(2019)10.1038/s41467-019-10756-2

N/A

0.803DataRank · unranked

211 citations

Bo Li, Cristin McCabe, Abigail Knecht, Yiming Yang, Eugene Drokhlyansky +11 more

Erratum: The neuropeptide NMU amplifies ILC2-driven allergic lung inflammation

Nature(2017)10.1038/nature24480

N/A

0.792DataRank · unranked

20 citations

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bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.10.14.338418

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bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.11.16.383307

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0.631DataRank · unranked

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0.353DataRank · unranked

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0.345DataRank · unranked

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bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.01.30.426796

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bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.03.21.533680

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(2023)10.1158/2326-6066.22542489

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(2023)10.1158/1078-0432.22476836

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(2023)10.1158/2326-6066.22542495

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INDIGO (University of Illinois at Chicago)(2023)10.1158/1078-0432.22476818.v1

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(2023)10.1158/1078-0432.22476842

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(2020)10.17504/protocols.io.bkgnktve

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(2023)10.1158/1078-0432.22476821

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Figshare(2023)10.1158/2326-6066.22542495.v1

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(2019)10.17504/protocols.io.4cqgsvw

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INDIGO (University of Illinois at Chicago)(2023)10.1158/1078-0432.22476821.v1

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INDIGO (University of Illinois at Chicago)(2023)10.1158/1078-0432.22476833.v1

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0 citations

Ofir Cohen, Kailey J. Kowalski, Justin G. Kusiel, Jorge E. Buendia-Buendia, Michael S. Cuoco +16 more

HTAPP_Smart-Seq2_Modified SS2-M protocol for frozen glioma and sarcoma samples v1

(2019)10.17504/protocols.io.98jh9un

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Simon Gritsch, Alyssa Richman, Monika Kowalczyk, Orit Rozenblatt–Rosen, Prisca Liberali +4 more

HTAPP_Smart-Seq2 Version 6.1 (SS2-M for nuclei) v1

(2019)10.17504/protocols.io.4jsgune

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Eugene Drokhlyansky, Nicholas Van Wittenberghe, Orit Rozenblatt–Rosen, Prisca Liberali, John J. Trombetta +2 more

Supplemental Table 8 from Acquired FGFR and FGF Alterations Confer Resistance to Estrogen Receptor (ER) Targeted Therapy in ER+ Metastatic Breast Cancer

(2023)10.1158/1078-0432.22476812

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Ofir Cohen, Kailey J. Kowalski, Justin G. Kusiel, Jorge E. Buendia-Buendia, Michael S. Cuoco +16 more

HTAPP_Dissociation of human ovarian cancer resection to a single-cell suspension for single-cell RNA-seq v1

(2019)10.17504/protocols.io.4kaguse

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Sara Napolitano, Jingyi Wu, Sébastien Vigneau, Asaf Rotem, Orit Rozenblatt–Rosen +4 more

Supplemental Table 3 from Acquired FGFR and FGF Alterations Confer Resistance to Estrogen Receptor (ER) Targeted Therapy in ER+ Metastatic Breast Cancer

(2023)10.1158/1078-0432.22476827

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Ofir Cohen, Kailey J. Kowalski, Justin G. Kusiel, Jorge E. Buendia-Buendia, Michael S. Cuoco +16 more

HTAPP_Test protocol__Dissociation of primary neuroblastoma resection to a single-cell suspension for single-cell RNA-seq (using collagenase 4) v1

(2021)10.17504/protocols.io.btd7ni9n

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Michal Slyper, Sébastien Vigneau, Asaf Rotem, Orit Rozenblatt–Rosen, Prisca Liberali +3 more

Processed data supplementary to "Systematic benchmarking of single-cell ATAC sequencing protocols"

Zenodo (CERN European Organization for Nuclear Research)(2022)10.5281/zenodo.5850232

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Christopher Flerin, Paula Soler, Albert Rafels, Gert Hulselmans, Valerie Christiaens +25 more

Supplemental Table 12 from Acquired FGFR and FGF Alterations Confer Resistance to Estrogen Receptor (ER) Targeted Therapy in ER+ Metastatic Breast Cancer

INDIGO (University of Illinois at Chicago)(2023)10.1158/1078-0432.22476836.v1

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Ofir Cohen, Kailey J. Kowalski, Justin G. Kusiel, Jorge E. Buendia-Buendia, Michael S. Cuoco +16 more

Supplemental Table 10 from Acquired FGFR and FGF Alterations Confer Resistance to Estrogen Receptor (ER) Targeted Therapy in ER+ Metastatic Breast Cancer

INDIGO (University of Illinois at Chicago)(2023)10.1158/1078-0432.22476842.v1

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Ofir Cohen, Kailey J. Kowalski, Justin G. Kusiel, Jorge E. Buendia-Buendia, Michael S. Cuoco +16 more

Supplemental Table 7 from Acquired FGFR and FGF Alterations Confer Resistance to Estrogen Receptor (ER) Targeted Therapy in ER+ Metastatic Breast Cancer

(2023)10.1158/1078-0432.22476815

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Ofir Cohen, Kailey J. Kowalski, Justin G. Kusiel, Jorge E. Buendia-Buendia, Michael S. Cuoco +16 more

Table S2: CRC risk and DNA repair genes evaluated for germline alterations from Intrinsic Resistance to Immune Checkpoint Blockade in a Mismatch Repair–Deficient Colorectal Cancer

Figshare(2023)10.1158/2326-6066.22542489.v1

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David Liu, Matan Hofree, Saud H. AlDubayan, Isaac Wakiro, Mei-Ju Su +17 more

Data from Intrinsic Resistance to Immune Checkpoint Blockade in a Mismatch Repair–Deficient Colorectal Cancer

(2023)10.1158/2326-6066.c.6549951

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David Liu, Matan Hofree, Saud H. AlDubayan, Isaac Wakiro, Mei-Ju Su +17 more

HTAPP_Dissociation of human primary lung cancer resection to a single-cell suspension for single-cell RNA-seq v1

(2019)10.17504/protocols.io.4j8gurw

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Avinash Waghray, Julia Waldman, Isaac Wakiro, Mei-Ju Su, Sébastien Vigneau +6 more

HTAPP_Dissociation of primary neuroblastoma resection to a single-cell suspension for single-cell RNA-seq (using papain, density gradient, and optionally ACK) v1

(2021)10.17504/protocols.io.brvnm65e

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Jingyi Wu, Michal Slyper, Sébastien Vigneau, Asaf Rotem, Orit Rozenblatt–Rosen +4 more

HTAPP_OCT-embedded frozen tissue sectioning and mounting on Visium specialized slides v1

(2020)10.17504/protocols.io.bqm3mu8n

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Orit Rozenblatt–Rosen, Prisca Liberali, Åsa Segerstolpe, Orit Rozenblatt‐Rosen

Author response: Spatially defined multicellular functional units in colorectal cancer revealed from single cell and spatial transcriptomics

(2025)10.7554/elife.104815.3.sa2

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Simon Mages, Johanna Klughammer, Noa Moriel, Shinya Imada, Matan Hofree +26 more

Supplemental Table 11 from Acquired FGFR and FGF Alterations Confer Resistance to Estrogen Receptor (ER) Targeted Therapy in ER+ Metastatic Breast Cancer

INDIGO (University of Illinois at Chicago)(2023)10.1158/1078-0432.22476839.v1

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Ofir Cohen, Kailey J. Kowalski, Justin G. Kusiel, Jorge E. Buendia-Buendia, Michael S. Cuoco +16 more

Supplemental Table 7 from Acquired FGFR and FGF Alterations Confer Resistance to Estrogen Receptor (ER) Targeted Therapy in ER+ Metastatic Breast Cancer

INDIGO (University of Illinois at Chicago)(2023)10.1158/1078-0432.22476815.v1

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Ofir Cohen, Kailey J. Kowalski, Justin G. Kusiel, Jorge E. Buendia-Buendia, Michael S. Cuoco +16 more

Supplementary Data from Acquired FGFR and FGF Alterations Confer Resistance to Estrogen Receptor (ER) Targeted Therapy in ER+ Metastatic Breast Cancer

(2023)10.1158/1078-0432.22476806

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Ofir Cohen, Kailey J. Kowalski, Justin G. Kusiel, Jorge E. Buendia-Buendia, Michael S. Cuoco +16 more

A human liver cell-based system modeling a clinical prognostic liver signature combined with single cell RNA-seq for discovery of novel liver disease therapeutics

Journal of Hepatology(2020)10.1016/s0168-8278(20)30611-5

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Simonetta Bandiera, Naoto Fujiwara, Shen Li, Hussein El Saghire, Xiaochen Sun +62 more

HTAPP_Dissociation of human primary lung cancer resection to a single-cell suspension for single-cell RNA-seq v2

(2020)10.17504/protocols.io.bhbgj2jw

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0DataRank · unranked

0 citations

Avinash Waghray, Julia Waldman, Isaac Wakiro, Mei-Ju Su, Sébastien Vigneau +6 more

HTAPP_Dissociation of human metastatic breast cancer core needle biopsy to a single-cell suspension for single-cell RNA-seq v1

(2019)10.17504/protocols.io.4j7gurn

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0 citations

Julia Waldman, Jingyi Wu, Abhay Kanodia, Sébastien Vigneau, Asaf Rotem +5 more

Supplemental Table 4 from Acquired FGFR and FGF Alterations Confer Resistance to Estrogen Receptor (ER) Targeted Therapy in ER+ Metastatic Breast Cancer

(2023)10.1158/1078-0432.22476824

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0 citations

Ofir Cohen, Kailey J. Kowalski, Justin G. Kusiel, Jorge E. Buendia-Buendia, Michael S. Cuoco +16 more

Supplemental Table 3 from Acquired FGFR and FGF Alterations Confer Resistance to Estrogen Receptor (ER) Targeted Therapy in ER+ Metastatic Breast Cancer

INDIGO (University of Illinois at Chicago)(2023)10.1158/1078-0432.22476827.v1

N/A

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Ofir Cohen, Kailey J. Kowalski, Justin G. Kusiel, Jorge E. Buendia-Buendia, Michael S. Cuoco +16 more

HTAPP_Processing human ovarian cancer ascites to a single-cell suspension for single-cell RNA-seq v1

(2019)10.17504/protocols.io.4kbgusn

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0 citations

Parin Shah, Mei-Ju Su, Isaac Wakiro, Sara Napolitano, Jingyi Wu +7 more

Supplemental Table 6 from Acquired FGFR and FGF Alterations Confer Resistance to Estrogen Receptor (ER) Targeted Therapy in ER+ Metastatic Breast Cancer

(2023)10.1158/1078-0432.22476818

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Ofir Cohen, Kailey J. Kowalski, Justin G. Kusiel, Jorge E. Buendia-Buendia, Michael S. Cuoco +16 more

DroNc-seq step-by-step v1

(2017)10.17504/protocols.io.md2c28e

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Naomi Habib, Prisca Liberali, Feng Zhang, Karthik Shekhar, Matan Hofree +10 more

HTAPP_TST- Nuclei isolation from frozen tissue v1

(2019)10.17504/protocols.io.4pggvjw

N/A

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Nicholas Van Wittenberghe, Michal Slyper, Julia Waldman, Orit Rozenblatt–Rosen, Prisca Liberali +2 more

Supplemental Table 4 from Acquired FGFR and FGF Alterations Confer Resistance to Estrogen Receptor (ER) Targeted Therapy in ER+ Metastatic Breast Cancer

INDIGO (University of Illinois at Chicago)(2023)10.1158/1078-0432.22476824.v1

N/A

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Ofir Cohen, Kailey J. Kowalski, Justin G. Kusiel, Jorge E. Buendia-Buendia, Michael S. Cuoco +16 more

HTAPP_Designing gene panels for neuroblastoma targeted spatial transcriptomics assays v1

(2021)10.17504/protocols.io.bw86phze

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Orr Ashenberg, Anand G. Patel, Natalie Collins, Xiaowei Zhuang, Orit Rozenblatt–Rosen +6 more

HTAPP_EZ Nuclei Isolation from frozen tissue v1

(2019)10.17504/protocols.io.4j9gur6

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Cristin McCabe, Eugene Drokhlyansky, Orit Rozenblatt–Rosen, Prisca Liberali, Orit Rozenblatt‐Rosen +1 more

Supplemental Table 13 from Acquired FGFR and FGF Alterations Confer Resistance to Estrogen Receptor (ER) Targeted Therapy in ER+ Metastatic Breast Cancer

(2023)10.1158/1078-0432.22476833

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Ofir Cohen, Kailey J. Kowalski, Justin G. Kusiel, Jorge E. Buendia-Buendia, Michael S. Cuoco +16 more

Table S1: Somatic Mutations from Intrinsic Resistance to Immune Checkpoint Blockade in a Mismatch Repair–Deficient Colorectal Cancer

Figshare(2023)10.1158/2326-6066.22542492.v1

N/A

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David Liu, Matan Hofree, Saud H. AlDubayan, Isaac Wakiro, Mei-Ju Su +17 more

Supplementary Data from Acquired FGFR and FGF Alterations Confer Resistance to Estrogen Receptor (ER) Targeted Therapy in ER+ Metastatic Breast Cancer

INDIGO (University of Illinois at Chicago)(2023)10.1158/1078-0432.22476806.v1

N/A

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Ofir Cohen, Kailey J. Kowalski, Justin G. Kusiel, Jorge E. Buendia-Buendia, Michael S. Cuoco +16 more

HTAPP_Dissociation of human metastatic breast cancer core needle biopsy to a single-cell suspension for single-cell RNA-seq v2

(2020)10.17504/protocols.io.bhbjj2kn

N/A

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Julia Waldman, Jingyi Wu, Abhay Kanodia, Sébastien Vigneau, Asaf Rotem +4 more

HTAPP_OCT embedding of snap frozen tumor tissue v1

(2019)10.17504/protocols.io.4n2gvge

N/A

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Nicole Cullen, Sébastien Vigneau, Orit Rozenblatt–Rosen, Prisca Liberali, Orit Rozenblatt‐Rosen +2 more

Supplemental Table 2 from Acquired FGFR and FGF Alterations Confer Resistance to Estrogen Receptor (ER) Targeted Therapy in ER+ Metastatic Breast Cancer

INDIGO (University of Illinois at Chicago)(2023)10.1158/1078-0432.22476830.v1

N/A

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Ofir Cohen, Kailey J. Kowalski, Justin G. Kusiel, Jorge E. Buendia-Buendia, Michael S. Cuoco +16 more

Supplemental Table 8 from Acquired FGFR and FGF Alterations Confer Resistance to Estrogen Receptor (ER) Targeted Therapy in ER+ Metastatic Breast Cancer

INDIGO (University of Illinois at Chicago)(2023)10.1158/1078-0432.22476812.v1

N/A

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Ofir Cohen, Kailey J. Kowalski, Justin G. Kusiel, Jorge E. Buendia-Buendia, Michael S. Cuoco +16 more

Endogenous Glucocorticoid Signaling Regulates CD8+ T Cell Differentiation and Development of Dysfunction in the Tumor Microenvironment

Immunity(2020)10.1016/j.immuni.2020.08.005

N/A

0DataRank · unranked

230 citations

Asaf Madi, Huiyuan Zhang, Max Klapholz, Giulia Escobar, Shai Dulberg +15 more

PDTM-32. RESOLVING MEDULLOBLASTOMA CELLULAR ARCHITECTURE BY SINGLE-CELL GENOMICS

Neuro-Oncology(2019)10.1093/neuonc/noz175.808

N/A

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Volker Hovestadt, Kyle Smith, McKenzie Shaw, Alicia Baumgartner, John DeWitt +52 more

TDP-43 loss and ALS-risk SNPs drive mis-splicing and depletion of UNC13A

Nature(2022)10.1038/s41586-022-04436-3

N/A

0DataRank · unranked

525 citations

Oscar G. Wilkins, Matthew J. Keuss, Sarah E. Hill, Matteo Zanovello, Weaverly Colleen Lee +90 more

SlideCNA: Spatial copy number alteration detection from Slide-seq-like spatial transcriptomics data

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.11.25.517982

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Åsa Segerstolpe, Michal Slyper, Julia Waldman, Evan Murray, Ofir Cohen +13 more

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