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L

Lior Pachter

University of California System

81H-index
428Paper Count
10.5WCitation Count
Published Papers 99
Publication Date
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Systematic cell-type resolved transcriptomes of 8 tissues in 8 lab and wild-derived mouse strains capture global and local expression variation
errCell Genomics
IF9
err2026-04-01
err0
errOAAI
errRebboah, Elisabeth; Weber, Ryan; Abdollahzadeh, Elnaz; Swarna, Nikhila; Sullivan, Delaney K.; Trout, Diane; Reese, Fairlie; Liang, Heidi Yahan; Filimban, Ghassan; Mahdipoor, Parvin; Duffield, Margaret; Mojaverzargar, Romina; Taghizadeh, Erisa; Fattahi, Negar; Mojgani, Negar; Zhang, Haoran; Loving, Rebekah K.; Carilli, Maria; Booeshaghi, A. Sina; Kawauchi, Shimako; Hallgrimsdottir, Ingileif B.; Williams, Brian A.; MacGregor, Grant R.; Pachter, Lior; Wold, Barbara J.; Mortazavi, Ali
errShare
errSave
The impact of package selection and versioning on single-cell RNA-seq analysis
errCell Systems
IF7.7
err2026-03-27
err0
PREAI
errJoseph M. Rich; Lambda Moses; Pétur Helgi Einarsson; Kayla Jackson; Laura Luebbert; A. Sina Booeshaghi; Sindri Antonsson; Delaney K. Sullivan; Nicolas Bray; Páll Melsted; Lior Pachter
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errSave
Long-read sequencing transcriptome quantification with lr-kallisto
errPLOS COMPUTATIONAL BIOLOGY
IF3.6
err2025-12-01
err0
PREAI
errLoving, Rebekah K.; Sullivan, Delaney K.; Reese, Fairlie; Rebboah, Elisabeth; Sakr, Jasmine; Rezaie, Narges; Liang, Heidi Y.; Filimban, Ghassan; Kawauchi, Shimako; Booeshaghi, A. Sina; Melsted, Pall; Oakes, Conrad; Trout, Diane; Williams, Brian A.; MacGregor, Grant R.; Wold, Barbara J.; Mortazavi, Ali; Pachter, Lior
errShare
errSave
Analogies between the virial theorem and the Price equation
errPHYSICAL REVIEW E
IF2.4
err2025-11-21
err0
PREAI
errFelce, Catherine; Liorsdottir, Steinunn; Pachter, Lior
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errSave
CTIM-07. A PHASE 1 STUDY OF INTRAVENTRICULARLY ADMINISTERED AUTOLOGOUS HER2-TARGETING CHIMERIC ANTIGEN RECEPTOR T CELLS (HER2-CAR T CELLS), WITH AND WITHOUT LYMPHODEPLETION, IN HER2-POSITIVE BREAST CANCER PATIENTS WITH RECURRENT BRAIN AND/OR LEPTOMENINGEAL METASTASES
errNeuro-Oncology
IF13.4
err2025-11-11
err0
errOAAI
errJana Portnow; Suzette Blanchard; Julie Kilpatrick; Lauren Adkins; Laura Luebbert; Gaurav Dhapola; Reginaldo Rosa; Behnam Badie; Tracey Stiller; Stephanie Shishido; Jamie Wagner; Monica Nisis; Christine Brown; Catalina Martinez; Lior Pachter; Peter Kuhn; Stephen Forman; Saul Priceman
errShare
errSave
Monod: model-based discovery and integration through fitting stochastic transcriptional dynamics to single-cell sequencing data
errNature Methods
IF32.1
err2025-11-07
err0
PREAI
errGennady Gorin; Tara Chari; Maria Carilli; John J. Vastola; Lior Pachter
errShare
errSave
The Biodiversity Cell Atlas: mapping the tree of life at cellular resolution
errNature
IF48.5
err2025-09-24
err0
PREAI
errArnau Sebé-Pedrós; Amos Tanay; Mara K. N. Lawniczak; Detlev Arendt; Stein Aerts; John Archibald; Maria Ina Arnone; Mark Blaxter; Phillip Cleves; Susana M. Coelho; Mafalda Dias; Casey Dunn; Anamaria Elek; Jonathan Frazer; Toni Gabaldón; Jesse Gillis; Xavier Grau-Bové; Roderic Guigó; Oliver Hobert; Jaime Huerta-Cepas; Manuel Irimia; Allon Klein; Harris Lewin; Christopher J. Lowe; Heather Marlow; Jacob M. Musser; László G. Nagy; Sebastián R. Najle; Lior Pachter; Sadye Paez; Irene Papatheodorou; Michael J. Passalacqua; Nikolaus Rajewsky; Seung Y. Rhee; Thomas A. Richards; Tatjana Sauka-Spengler; Lauren M. Saunders; Eve Seuntjens; Jordi Solana; Yuyao Song; Ulrich Technau; Bo Wang
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errSave
Trajectory inference from single-cell genomics data with a process time model
errplos biology
IF3.6
err2025-01-21
err0
errOAAI
errFang, MC; Gorin, G; Pachter, L
errShare
errSave
Accurate quantification of nascent and mature RNAs from single-cell and single-nucleus RNA-seq
errNUCLEIC ACIDS RESEARCH
IF13.1
err2024-12-06
err0
errOAAI
errSullivan, Delaney K.; Hjorleifsson, Kristjan Eldjarn; Swarna, Nikhila P.; Oakes, Conrad; Holley, Guillaume; Melsted, Pall; Pachter, Lior
errShare
errSave
kallisto, bustools and kb-python for quantifying bulk, single-cell and single-nucleus RNA-seq
errNATURE PROTOCOLS
IF16
err2024-10-10
err1
PREAI
errSullivan, Delaney K.; Min, Kyung Hoi (Joseph); Hjorleifsson, Kristjan Eldjarn; Luebbert, Laura; Holley, Guillaume; Moses, Lambda; Gustafsson, Johan; Bray, Nicolas L.; Pimentel, Harold; Booeshaghi, A. Sina; Melsted, Pall; Pachter, Lior
errShare
errSave
Biophysically interpretable inference of cell types from multimodal sequencing data
errNATURE COMPUTATIONAL SCIENCE
IF18.3
err2024-09-20
err2
PREAI
errChari, Tara; Gorin, Gennady; Pachter, Lior
errShare
errSave
Spectral neural approximations for models of transcriptional dynamics
errBIOPHYSICAL JOURNAL
IF3.1
err2024-09-01
err4
errOAAI
errGorin, Gennady; Carilli, Maria; Chari, Tara; Pachter, Lior
errShare
errSave
Biophysical modeling with variational autoencoders for bimodal, single-cell RNA sequencing data
errNATURE METHODS
IF32.1
err2024-07-25
err6
PREAI
errCarilli, Maria; Gorin, Gennady; Choi, Yongin; Chari, Tara; Pachter, Lior
errShare
errSave
A Novel Approach to Comparative RNA-Seq Does Not Support a Conserved Set of Orthologs Underlying Animal Regeneration
errGENOME BIOLOGY AND EVOLUTION
IF2.8
err2024-06-24
err1
errOAAI
errSierra, Noemie C.; Olsman, Noah; Yi, Lynn; Pachter, Lior; Goentoro, Lea; Gold, David A.
errShare
errSave
PSCA-CAR T cell therapy in metastatic castration-resistant prostate cancer: a phase 1 trial
errNATURE MEDICINE
IF50
err2024-06-12
err15
errOAAI
errDorff, Tanya B.; Blanchard, M. Suzette; Adkins, Lauren N.; Luebbert, Laura; Leggett, Neena; Shishido, Stephanie N.; Macias, Alan; Del Real, Marissa M.; Dhapola, Gaurav; Egelston, Colt; Murad, John P.; Rosa, Reginaldo; Paul, Jinny; Chaudhry, Ammar; Martirosyan, Hripsime; Gerdts, Ethan; Wagner, Jamie R.; Stiller, Tracey; Tilakawardane, Dileshni; Pal, Sumanta; Martinez, Catalina; Reiter, Robert E.; Budde, Lihua E.; D'Apuzzo, Massimo; Kuhn, Peter; Pachter, Lior; Forman, Stephen J.; Priceman, Saul J.
errShare
errSave
De novo mutation discovery in a mouse model and a human patient sample of non-Hodgkin's lymphoma
errCANCER RESEARCH
IF16.6
err2024-03-22
err0
PREAI
errSullivan, Delaney K.; Albinali, Eissa; Boffelli, Mayuko; Pachter, Lior
errShare
errSave
New and notable: Revisiting the two cultures through extrinsic noise
errBIOPHYSICAL JOURNAL
IF3.1
err2024-01-01
err0
PREAI
errGorin, Gennady; Pachter, Lior
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errSave
Direct androgen receptor control of sexually dimorphic gene expression in the mammalian kidney
errDEVELOPMENTAL CELL
IF8.7
err2023-11-01
err9
errOAAI
errXiong, Lingyun; Liu, Jing; Han, Seung Yub; Koppitch, Kari; Guo, Jin-Jin; Rommelfanger, Megan; Miao, Zhen; Gao, Fan; Hallgrimsdottir, Ingileif B.; Pachter, Lior; Kim, Junhyong; MacLean, Adam L.; McMahon, Andrew P.
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errSave
Studying stochastic systems biology of the cell with single-cell genomics data
errCELL SYSTEMS
IF7.7
err2023-10-01
err9
errOAAI
errGorin, Gennady; Vastola, John J.; Pachter, Lior
errShare
errSave
Principles of open source bioinstrumentation applied to the poseidon syringe pump system (vol 9, 12385, 2019)
errSCIENTIFIC REPORTS
IF3.9
err2023-09-08
err0
errOAAI
errBooeshaghi, A. Sina; Beltrame, Eduardo da Veiga; Bannon, Dylan; Gehring, Jase; Pachter, Lior
errShare
errSave

Research Directions

No research directions
Co-authors
Cooperation Journals
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Eric S. Lander
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Gad Getz
H-index: 248 · Papers: 1.8K
H
Hans Clevers
H-index: 236 · Papers: 1.3K
G
Gordon B. Mills
H-index: 231 · Papers: 3.5K
M
Matthew Meyerson
H-index: 223 · Papers: 1.9K
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