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Genome Biology|June 9, 2021
BUTTERFLY: addressing the pooled amplification paradox with unique molecular identifiers in single-cell RNA-seqJohan Gustafsson, Jonathan Robinson, Jens Nielsen, et al.Bioinformatics (Oxford, England)|March 17, 2020
Interpretable factor models of single-cell RNA-seq via variational autoencodersValentine Svensson, Adam Gayoso, Nir Yosef, et al.Statistical Applications in Genetics and Molecular Biology|October 24, 2012
Determining coding CpG islands by identifying regions significant for pattern statistics on Markov chainsMeromit Singer, Alexander Engström, Alexander Schönhuth, et al.Plos Computational Biology|September 12, 2022
RNA velocity unraveledGennady Gorin, Meichen Fang, Tara Chari, et al.Bioinformatics (Oxford, England)|June 24, 2011
Identification of novel transcripts in annotated genomes using RNA-SeqAdam Roberts, Harold Pimentel, Cole Trapnell, et al.Elife|June 14, 2018
Association mapping from sequencing reads using <i>k</i>-mersAtif Rahman, Ingileif Hallgrímsdóttir, Michael Eisen, et al.Bioinformatics (Oxford, England)|February 28, 2004
Multiple-sequence functional annotation and the generalized hidden Markov phylogenyJon D McAuliffe, Lior Pachter, Michael I JordanProceedings of the National Academy of Sciences of the United States of America|May 25, 2005
Subtree power analysis and species selection for comparative genomicsJon D McAuliffe, Michael I Jordan, Lior PachterDatabase : the Journal of Biological Databases and Curation|November 28, 2020
A curated database reveals trends in single-cell transcriptomicsValentine Svensson, Eduardo da Veiga Beltrame, Lior PachterBiorxiv : the Preprint Server for Biology|September 25, 2023
Universal preprocessing of single-cell genomics dataA Sina Booeshaghi, Delaney K Sullivan, Lior PachterPageof 20