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BMC Evolutionary Biology|April 17, 2007
Analysis of epistatic interactions and fitness landscapes using a new geometric approachNiko Beerenwinkel, Lior Pachter, Bernd Sturmfels, et al.Genome Research|May 9, 2002
rVista for comparative sequence-based discovery of functional transcription factor binding sitesGabriela G Loots, Ivan Ovcharenko, Lior Pachter, et al.Plos Computational Biology|June 23, 2006
Parametric alignment of Drosophila genomesColin N Dewey, Peter M Huggins, Kevin Woods, et al.Current Protocols in Chemical Biology|June 22, 2013
SHAPE-Seq: High-Throughput RNA Structure AnalysisStefanie A Mortimer, Cole Trapnell, Sharon Aviran, et al.Bioinformatics (Oxford, England)|January 7, 2023
Metadata retrieval from sequence databases with ffqÁngel Gálvez-Merchán, Kyung Hoi Joseph Min, Lior Pachter, et al.Genome Biology|May 28, 2016
Fast and accurate single-cell RNA-seq analysis by clustering of transcript-compatibility countsVasilis Ntranos, Govinda M Kamath, Jesse M Zhang, et al.Genome Research|April 3, 2004
Accurate identification of novel human genes through simultaneous gene prediction in human, mouse, and ratColin Dewey, Jia Qian Wu, Simon Cawley, et al.Biorxiv : the Preprint Server for Biology|December 15, 2025
<i>k</i> -spaces: Mixtures of Gaussian latent variable modelsNicholas Markarian, Barbara E Engelhardt, Niles A Pierce, et al.Frontiers in Cell and Developmental Biology|April 13, 2023
Cell-specific occupancy dynamics between the pioneer-like factor Opa/ZIC and Ocelliless/OTX regulate early head development in embryosKelli D Fenelon, Fan Gao, Priyanshi Borad, et al.Scientific Reports|August 29, 2019
Principles of open source bioinstrumentation applied to the poseidon syringe pump systemA Sina Booeshaghi, Eduardo da Veiga Beltrame, Dylan Bannon, et al.Pageof 20