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Biorxiv : the Preprint Server for Biology|July 15, 2024
Stochastic Modeling of Biophysical Responses to PerturbationTara Chari, Gennady Gorin, Lior PachterBiorxiv : the Preprint Server for Biology|September 25, 2023
Biophysically Interpretable Inference of Cell Types from Multimodal Sequencing DataTara Chari, Gennady Gorin, Lior PachterBiorxiv : the Preprint Server for Biology|December 3, 2025
The Rayleigh Quotient and Contrastive Principal Component Analysis IMaria Carilli, Kayla Jackson, Lior PachterBioinformatics (Oxford, England)|May 17, 2013
Updating RNA-Seq analyses after re-annotationAdam Roberts, Lorian Schaeffer, Lior PachterJournal of Computational Biology : a Journal of Computational Molecular Cell Biology|August 26, 2003
Picking alignments from (Steiner) treesFumei Lam, Marina Alexandersson, Lior PachterPlos One|April 28, 2017
Zika infection of neural progenitor cells perturbs transcription in neurodevelopmental pathwaysLynn Yi, Harold Pimentel, Lior PachterBiorxiv : the Preprint Server for Biology|April 17, 2026
The Rayleigh Quotient and Contrastive Principal Component Analysis IIKayla Jackson, Maria Carilli, Lior PachterNucleic Acids Research|June 26, 2003
SLAM web server for comparative gene finding and alignmentSimon Cawley, Lior Pachter, Marina AlexanderssonGenome Research|January 17, 2003
AVID: A global alignment programNick Bray, Inna Dubchak, Lior PachterJournal of Computational Biology : a Journal of Computational Molecular Cell Biology|May 23, 2002
Applications of generalized pair hidden Markov models to alignment and gene finding problemsLior Pachter, Marina Alexandersson, Simon CawleyPageof 20