Lior Pachter

Electrical Engineering and Computer Science University of California, Berkeley, Berkeley, CA 
Biosystems & Computational Biology (BIO); Artificial Intelligence (AI)
"Lior Pachter"

Cross-listing: Evolution Tree


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Bonnie Berger grad student 1994-1999 MIT (Computational Biology Tree)


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Ali Sina Booeshaghi grad student Caltech (Evolution Tree)
Eric H. Kuo grad student 2005 UC Berkeley (Evolution Tree)
Sourav Chatterji grad student 2006 UC Berkeley (Evolution Tree)
Colin N. Dewey grad student 2006 UC Berkeley (Evolution Tree)
Ariel S. Schwartz grad student 2007 UC Berkeley (Evolution Tree)
Peter M. Huggins grad student 2008 UC Berkeley (Evolution Tree)
Radu H. Mihaescu grad student 2008 UC Berkeley (Evolution Tree)
Aaron D. Kleinman grad student 2012 UC Berkeley (Evolution Tree)
Meromit Singer grad student 2012 UC Berkeley (Evolution Tree)
Robert Tunney grad student 2018 (FlyTree)
Bo Li post-doc 2013- UC Berkeley (Computational Biology Tree)


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Richard E. Lenski collaborator n/a (Terrestrial Ecology Tree)
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Melsted P, Booeshaghi AS, Liu L, et al. (2021) Modular, efficient and constant-memory single-cell RNA-seq preprocessing. Nature Biotechnology
Booeshaghi AS, Pachter L. (2021) Normalization of single-cell RNA-seq counts by log(x + 1)* or log(1 + x). Bioinformatics (Oxford, England)
Booeshaghi AS, Lubock NB, Cooper AR, et al. (2020) Reliable and accurate diagnostics from highly multiplexed sequencing assays. Scientific Reports. 10: 21759
Gorin G, Pachter L. (2020) Special function methods for bursty models of transcription. Physical Review. E. 102: 022409
Bloom JS, Jones EM, Gasperini M, et al. (2020) Swab-Seq: A high-throughput platform for massively scaled up SARS-CoV-2 testing. Medrxiv : the Preprint Server For Health Sciences
Koromila T, Gao F, Iwasaki Y, et al. (2020) Odd-paired is a pioneer-like factor that coordinates with Zelda to control gene expression in embryos. Elife. 9
Mao S, Pachter L, Tse D, et al. (2020) RefShannon: A genome-guided transcriptome assembler using sparse flow decomposition. Plos One. 15: e0232946
Svensson V, Gayoso A, Yosef N, et al. (2020) Interpretable factor models of single-cell RNA-seq via variational autoencoders. Bioinformatics (Oxford, England)
Gorin G, Svensson V, Pachter L. (2020) Protein velocity and acceleration from single-cell multiomics experiments. Genome Biology. 21: 39
Gehring J, Hwee Park J, Chen S, et al. (2019) Highly multiplexed single-cell RNA-seq by DNA oligonucleotide tagging of cellular proteins. Nature Biotechnology
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