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Emma Dann

Gladstone-UCSF Institute of Genomic Immunology

22H-index
60Paper Count
6.2KCitation Count
Published Papers 17
Publication Date
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Genome-scale perturb-seq in primary human CD4<sup>+</sup> T cells maps context-specific regulators of T cell programs and human immune traits
errCell
IF42.5
err2026-08-28
err0
errOAAI
errRonghui Zhu; Emma Dann; Jun Yan; Justine Reyes Retana; Ryunosuke Goto; Reese C. Guitche; Lillian Brixi; Mineto Ota; Austin Hartman; Theodore L. Roth; Ansuman T. Satpathy; Jonathan K. Pritchard; Alexander Marson
errShare
errSave
In vivo genome-wide CRISPR screens of human T cells in solid tumours
errNature
IF48.5
err2026-08-12
err0
PREAI
errQi Liu; Peixin Amy Chen; Esha Urs; Shimin Zhang; Maya M. Arce; Charlotte H. Wang; Jun Yan; Vinh Q. Nguyen; Zhongmei Li; Jin Seo; Nupura Kale; Fanglue Peng; Yikai Luo; Laine Goudy; Taylor N. LaFlam; Haixia Zhong; Chandrima Modak; Emma Dann; Jae Hyung Jung; Amanda Kirane; Allison Betof Warner; Boi Bryant Quach; Zinaida Good; Brian R. Shy; Eric Shifrut; Sagar P. Bapat; Greg M. Allen; Justin Eyquem; Katherine Fuh; Stacie E. Dodgson; Jason G. Cyster; Alexander Marson; Julia Carnevale
errShare
errSave
Systematic discovery of pro- and anti-HIV host factors in primary human CD4+ T cells
errCell
IF42.5
err2026-04-20
err0
errOAAI
errUjjwal Rathore; Eli Dugan; Hunter Thornton; Vigneshwari Easwar Kumar; Rama Dajani; Ryan C. Burdick; Janet M. Young; Zachary Steinhart; Reanna Lao; Krista A. Delviks-Frankenberry; Wooyoung Choi; William S. Henriques; Ignacia Echeverria; Emma Dann; Ishaan Dureja; Nandini Pathak; Maya M. Arce; Justin McKetney; Jennifer M. Umhoefer; Simrun Parulekar
errShare
errSave
Pertpy: an end-to-end framework for perturbation analysis
errNature Methods
IF32.1
err2025-12-31
err0
errOAAI
errLukas Heumos; Yuge Ji; Lilly May; Tessa D. Green; Stefan Peidli; Xinyue Zhang; Xichen Wu; Johannes Ostner; Antonia Schumacher; Karin Hrovatin; Michaela Müller; Faye Chong; Gregor Sturm; Alejandro Tejada; Emma Dann; Mingze Dong; Gonçalo Pinto; Mojtaba Bahrami; Ilan Gold; Sergei Rybakov; Altana Namsaraeva; Amir Ali Moinfar; Zihe Zheng; Eljas Roellin; Isra Mekki; Chris Sander; Mohammad Lotfollahi; Herbert B. Schiller; Fabian J. Theis
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errSave
Causal modelling of gene effects from regulators to programs to traits
errNature
IF48.5
err2025-12-10
err0
errOAAI
errMineto Ota; Jeffrey P. Spence; Tony Zeng; Emma Dann; Nikhil Milind; Alexander Marson; Jonathan K. Pritchard
errShare
errSave
Defining and benchmarking open problems in single-cell analysis
errNature Biotechnology
IF41.7
err2025-07-01
err0
errOAAI
errMalte D. Luecken; Scott Gigante; Daniel B. Burkhardt; Robrecht Cannoodt; Daniel C. Strobl; Nikolay S. Markov; Luke Zappia; Giovanni Palla; Wesley Lewis; Daniel Dimitrov; Michael E. Vinyard; D. S. Magruder; Michaela F. Mueller; Alma Andersson; Emma Dann; Qian Qin; Dominik J. Otto; Michal Klein; Olga Borisovna Botvinnik; Louise Deconinck; Kai Waldrant; Sai Nirmayi Yasa; Artur Szałata; Andrew Benz; Zhijian Li; Jonathan M. Bloom; Angela Oliveira Pisco; Julio Saez-Rodriguez; Drausin Wulsin; Luca Pinello; Yvan Saeys; Fabian J. Theis; Smita Krishnaswamy
errShare
errSave
multiDGD: A versatile deep generative model for multi-omics data
errNATURE COMMUNICATIONS
IF15.7
err2024-11-20
err8
errOAAI
errSchuster, V; Dann, E; Krogh, A; Teichmann, SA
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errSave
Early human lung immune cell development and its role in epithelial cell fate
errEUROPEAN RESPIRATORY JOURNAL
IF21
err2024-10-30
err0
errOAAI
errBarnes, Josephine; Yoshida, Masahiro; He, Peng; Worlock, Kaylee; Lindeboom, Rik; Suo, Chenqu; Pett, J. Patrick; Wilbrey-Clark, Anna; Dann, Emma; Mamanova, Lira; Richardson, Laura; Polanski, Krzysztof; Pennycuick, Adam; Allen-Hytinnen, Jessica; Herczeg, Ivan; Arzili, Romina; Hynds, Robert; Teixeira, Vitor; Haniffa, Muzlifah; Lim, Kyungtae; Sun, Dawei; Rawlins, Emma; Oliver, Amanda; Lyons, Paul; Marioni, John; Ruhrberg, Christiana; Tuong, Zewen; Clatworthy, Menna; Reading, James; Janes, Sam; Teichmann, Sarah; Meyer, Kerstin; Nikolic, Marko
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errSave
Gene-level alignment of single-cell trajectories
errNATURE METHODS
IF32.1
err2024-09-19
err0
errOAAI
errSumanaweera, Dinithi; Suo, Chenqu; Cujba, Ana-Maria; Muraro, Daniele; Dann, Emma; Polanski, Krzysztof; Steemers, Alexander S.; Lee, Woochan; Oliver, Amanda J.; Park, Jong-Eun; Meyer, Kerstin B.; Dumitrascu, Bianca; Teichmann, Sarah A.
errShare
errSave
Leveraging neighborhood representations of single-cell data to achieve sensitive DE testing with miloDE
errGENOME BIOLOGY
IF9.4
err2024-07-18
err1
errOAAI
errMissarova, Alsu; Dann, Emma; Rosen, Leah; Satija, Rahul; Marioni, John
errShare
errSave
Early human lung immune cell development and its role in epithelial cell fate
errSCIENCE IMMUNOLOGY
IF16.3
err2023-12-22
err14
errOAAI
errBarnes, Josephine L.; Yoshida, Masahiro; He, Peng; Worlock, Kaylee B.; Lindeboom, Rik G. H.; Suo, Chenqu; Pett, J. Patrick; Wilbrey-Clark, Anna; Dann, Emma; Mamanova, Lira; Richardson, Laura; Polanski, Krzysztof; Pennycuick, Adam; Allen-Hyttinen, Jessica; Herczeg, Ivan T.; Arzili, Romina; Hynds, Robert E.; Teixeira, Vitor H.; Haniffa, Muzlifah; Lim, Kyungtae; Sun, Dawei; Rawlins, Emma L.; Oliver, Amanda J.; Lyons, Paul A.; Marioni, John C.; Ruhrberg, Christiana; Tuong, Zewen Kelvin; Clatworthy, Menna R.; Reading, James L.; Janes, Sam M.; Teichmann, Sarah A.; Meyer, Kerstin B.; Nikolic, Marko Z.
errShare
errSave
Precise identification of cell states altered in disease using healthy single-cell references
errNATURE GENETICS
IF31.8
err2023-10-12
err9
errOAAI
errDann, Emma; Cujba, Ana-Maria; Oliver, Amanda J.; Meyer, Kerstin B.; Teichmann, Sarah A.; Marioni, John C.
errShare
errSave
Dandelion uses the single-cell adaptive immune receptor repertoire to explore lymphocyte developmental origins
errNATURE BIOTECHNOLOGY
IF41.7
err2023-04-13
err18
errOAAI
errSuo, Chenqu; Polanski, Krzysztof; Dann, Emma; Lindeboom, Rik G. H.; Vilarrasa-Blasi, Roser; Vento-Tormo, Roser; Haniffa, Muzlifah; Meyer, Kerstin B.; Dratva, Lisa M.; Tuong, Zewen Kelvin; Clatworthy, Menna R.; Teichmann, Sarah A.
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errSave
Cell2location maps fine-grained cell types in spatial transcriptomics
errNATURE BIOTECHNOLOGY
IF41.7
err2022-01-13
err378
PREAI
errKleshchevnikov, Vitalii; Shmatko, Artem; Dann, Emma; Aivazidis, Alexander; King, Hamish W.; Li, Tong; Elmentaite, Rasa; Lomakin, Artem; Kedlian, Veronika; Gayoso, Adam; Jain, Mika Sarkin; Park, Jun Sung; Ramona, Lauma; Tuck, Elizabeth; Arutyunyan, Anna; Vento-Tormo, Roser; Gerstung, Moritz; James, Louisa; Stegle, Oliver; Bayraktar, Omer Ali
errShare
errSave
Differential abundance testing on single-cell data using k-nearest neighbor graphs
errNATURE BIOTECHNOLOGY
IF41.7
err2021-09-30
err245
errOAAI
errDann, Emma; Henderson, Neil C.; Teichmann, Sarah A.; Morgan, Michael D.; Marioni, John C.
errShare
errSave
Single-cell multi-omics analysis of the immune response in COVID-19
errNATURE MEDICINE
IF50
err2021-04-20
err389
errOAAI
errStephenson, Emily; Reynolds, Gary; Botting, Rachel A.; Calero-Nieto, Fernando J.; Morgan, Michael D.; Tuong, Zewen Kelvin; Bach, Karsten; Sungnak, Waradon; Worlock, Kaylee B.; Yoshida, Masahiro; Kumasaka, Natsuhiko; Kania, Katarzyna; Engelbert, Justin; Olabi, Bayan; Spegarova, Jarmila Stremenova; Wilson, Nicola K.; Mende, Nicole; Jardine, Laura; Gardner, Louis C. S.; Goh, Issac; Horsfall, Dave; McGrath, Jim; Webb, Simone; Mather, Michael W.; Lindeboom, Rik G. H.; Dann, Emma; Huang, Ni; Polanski, Krzysztof; Prigmore, Elena; Gothe, Florian; Scott, Jonathan; Payne, Rebecca P.; Baker, Kenneth F.; Hanrath, Aidan T.; van der Loeff, Ina C. D. Schim; Barr, Andrew S.; Sanchez-Gonzalez, Amada; Bergamaschi, Laura; Mescia, Federica; Barnes, Josephine L.; Kilich, Eliz; de Wilton, Angus; Saigal, Anita; Saleh, Aarash; Janes, Sam M.; Smith, Claire M.; Gopee, Nusayhah; Wilson, Caroline; Coupland, Paul; Coxhead, Jonathan M.; Kiselev, Vladimir Yu; van Dongen, Stijn; Bacardit, Jaume; King, Hamish W.; Rostron, Anthony J.; Simpson, A. John; Hambleton, Sophie; Laurenti, Elisa; Lyons, Paul A.; Meyer, Kerstin B.; Nikolic, Marko Z.; Duncan, Christopher J. A.; Smith, Kenneth G. C.; Teichmann, Sarah A.; Clatworthy, Menna R.; Marioni, John C.; Gottgens, Berthold; Haniffa, Muzlifah
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errSave
Circulating tumor DNA profile recognizes transformation to castration-resistant neuroendocrine prostate cancer
errJOURNAL OF CLINICAL INVESTIGATION
IF13.6
err2020-02-24
err135
errOAAI
errBeltran, Himisha; Romanel, Alessandro; Conteduca, Vincenza; Casiraghi, Nicola; Sigouros, Michael; Franceschini, Gian Marco; Orlando, Francesco; Fedrizzi, Tarcisio; Ku, Sheng-Yu; Dann, Emma; Alonso, Alicia; Mosquera, Juan Miguel; Sboner, Andrea; Xiang, Jenny; Elemento, Olivier; Nanus, David M.; Tagawa, Scott T.; Benelli, Matteo; Demichelis, Francesca
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errSave

Research Directions

No research directions
Co-authors
Cooperation Journals
S
Sarah A. Teichmann
H-index: 141 · Papers: 677
F
Fabian J. Theis
H-index: 125 · Papers: 1.1K
J
Jonathan K. Pritchard
H-index: 118 · Papers: 369
O
Olivier Elemento
H-index: 117 · Papers: 1.7K
O
Oliver Stegle
H-index: 112 · Papers: 512
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