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group.html
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<!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.1//EN"
"http://www.w3.org/TR/xhtml11/DTD/xhtml11.dtd">
<html xmlns="http://www.w3.org/1999/xhtml" xml:lang="en" >
<head>
<meta http-equiv="content-type" content="text/html; charset=iso-8859-1" />
<meta name="author" content="Lior Pachter" />
<meta name="keywords" content="Computational biology" />
<meta name="description" content="" />
<meta name="robots" content="all" />
<title>Pachter Lab</title>
<style type="text/css" media="all">
@import "style.css";
</style>
<link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/4.7.0/css/font-awesome.min.css">
</head>
<body>
<div id="container">
<div class="Header">
<div id="logos">
<a href="http://www.caltech.edu/"><img src="Caltech_LOGO-WHITE-RGB.png" alt = "Caltech logo" width=150 /></a>
<p><span>Pachter Lab</span></p>
</div>
<div id="Menu">
<ul id="links">
<li><a href="index.html" title="Home">Home</a></li>
<li><a href="group.html" title="Group" class="current-page">Group</a></li>
<li><a href="research.html" title="Research">Research</a></li>
<li><a href="software.html" title="Software">Software</a></li>
<li><a href="positions.html" title="Positions">Positions</a></li>
<li><a href="contact.html" title="Contact">Contact</a></li>
<li><a href="https://scholar.google.com/citations?user=DKfEcuEAAAAJ&hl=en&oi=ao" title="Publications">Publications <i class="fa fa-external-link" style="font-size:10px"></i> </a></li>
<li><a href="http://liorpachter.wordpress.com/" title="Blog">Blog <i class="fa fa-external-link" style="font-size:10px"></i> </a></li>
</ul>
</div>
<!-- end Menu-->
</div>
<!-- end Header-->
<div id="Content">
<dl>
<dt>Principal Investigator</dt>
<dd><a href="biography.html">Lior Pachter</a></dd>
</dl>
<dl>
<dt>Lab Manager</dt>
<dd><a href="https://directory.caltech.edu/personnel/ckim2">Charlene Kim</a></dd>
</dl>
<dl>
<dt> Postdoctoral researchers</dt>
<dd><a href="https://directory.caltech.edu/personnel/dlu2">Lambda Moses</a></dd>
</dl>
<dl>
<dt>Graduate students</dt>
<dd><a href="https://directory.caltech.edu/personnel/mcarilli">Maria Carilli</a></dd>
<dd><a href="https://directory.caltech.edu/personnel/vbeilins">Vera Beilinson</a> (primary advisor <a href="https://www.glowingsquid.org/people_profile_mm.php?id=67">Margaret McFall-Ngai)</a><dd>
<dd><a href="https://directory.caltech.edu/personnel/tchari">Tara Chari</a></dd>
<dd><a href="https://directory.caltech.edu/personnel/tdilanya">Taleen Dilanyan</a></dd>
<dd><a href="https://directory.caltech.edu/personnel/mffang">Meichen Fang</a></dd>
<dd><a href="https://directory.caltech.edu/personnel/cfelce">Catherine Felce</a></dd>
<dd><a href="https://directory.caltech.edu/personnel/kaylajac">Kayla Jackson</a></dd>
<dd><a href="https://directory.caltech.edu/personnel/ykil">Anne Yeokyoung Kil</a></dd>
<dd><a href="https://directory.caltech.edu/personnel/lauralbt">Laura Luebbert</a></dd>
<dd><a href="https://directory.caltech.edu/personnel/rloving">Rebekah Loving</a></dd>
<dd><a href="https://directory.caltech.edu/personnel/jmrich">Joseph Rich</a></dd>
<dd><a href="https://directory.caltech.edu/personnel/dksulliv">Delaney Sullivan</a></dd>
<dd><a href="https://directory.caltech.edu/personnel/nswarna">Nikhila Swarna</a></dd>
</dl>
<!-- <dl>
<dt>Graduate rotation students</dt>
</dl> -->
<!--<dl>
<dt>Research Assistant</dt>
<dd><a href="https://www.linkedin.com/in/mayuko-boffelli/">Mayuko Boffelli</a></dd>
</dl> -->
<dl>
<dt>Undergraduates</dt>
<dd><a href="https://www.linkedin.com/in/chi-hoang-ba340417a/">Chi Hoang</a></dd>
<dd>Halle Holzbauer</dd>
</dl>
<dl>
<dt>Visitors</dt>
<dd><a href="https://www.anuna.ie/thorhallur">Thorhallur Helgason</a> (Summer 2022)</dd>
<dd><a href="https://www.linkedin.com/in/lenka-matejovicova-0a145029">Lenka Matejovicova</a> (Spring 2016)</dd>
<dd><a href="https://notendur.hi.is/pmelsted/">Páll Melsted</a> (Spring 2015, Fall 2019)</dd>
<dd><a href="http://www.math.wisc.edu/~mitchell/">Julie Mitchell</a> (Spring 2010)</dd>
<dd><a href="http://satyandevadoss.org">Satyan Devadoss</a> (2009-2010)</dd>
<dd><a href="https://www.linkedin.com/in/anmake">Anna Kedzierska</a> (March-August 2010)</dd>
<dd><a href="https://www.linkedin.com/in/rahul-satija/">Rahul Satija</a> (February-March 2009)</dd>
<dd><a href="https://www.linkedin.com/in/cole-trapnell-ab00162/">Cole Trapnell</a> (2008-2010)</dd>
</dl>
<dl>
<dt>Graduated students (also in the <a href="https://genealogy.math.ndsu.nodak.edu/id.php?id=37005">Mathematics Genealogy Project</a>)</dt>
<dd><a href="https://www.linkedin.com/in/gennadygorin/">Gennady Gorin</a>, Ph.D. (2023) Stochastic Foundations for Single-Cell RNA Sequencing.</dd>
<dd><a href="https://www.linkedin.com/in/lambda-moses-2502b57b/">Lambda Moses</a>, Ph.D. (2023) Computational Foundations for Spatial Transcriptomics.</dd>
<dd><a href="https://www.linkedin.com/in/agalvezm/">Ángel Merchán Gálvez</a>, Ph.D. (2023) Studies of mRNA Expression and Degradation.</dd>
<dd><a href="https://www.linkedin.com/in/kristj%C3%A1n-eldj%C3%A1rn-152aa299/?originalSubdomain=is">Kristján Eldjarn Hjörleifsson</a>, Ph.D. (2022) Graph modeling for genomics and epidemiology.</dd>
<dd><a href="https://www.linkedin.com/in/sinaboo/">Sina Booeshaghi</a>, Ph.D. (2022) Foundations and Applications of Single-Cell RNA Sequencing.</dd>
<dd><a href="https://www.linkedin.com/in/lynn-yi-md-phd-75ba912b/">Lynn Yi</a>, Ph.D. (2019) Statistical Methods for Gene Differential Expression Analysis of RNA-Sequencing.</dd>
<dd><a href="https://www.linkedin.com/in/jase-gehring-805a8013a/">Jase Gehring</a>, Ph.D. (2018) Expanding Single-Cell RNA-Sequencing in Scale and Dimension.</dd>
<dd><a href="https://www.linkedin.com/in/akshay-tambe-074732146/">Akshay Tambe</a>, Ph.D. (2017) Developing experimental and computational tools for sequence-census assays.</dd>
<dd><a href="https://www.linkedin.com/in/robert-tunney-113a2b149/">Robert Tunney</a>, Ph.D. (2017) Regression Modeling and Bias Correction of Ribosome Profiling Data.</dd>
<dd><a href="https://www.linkedin.com/in/brielin-brown-73745878/">Brielin Brown</a>, Ph.D. (2016) Computational approaches to understanding the genetic architecture of complex traits.</dd>
<dd><a href="https://www.linkedin.com/in/lorianschaeffer/">Lorian Schaeffer</a>, Ph.D. (2016) Pseudoalignment for metagenomic and metatranscriptomic read assignment.</dd>
<dd><a href="https://www.linkedin.com/in/icjoseph/">Isaac Joseph</a>, Ph.D. (2016) Sequencing-based computational methods for identifying impactful genomic alterations in cancers.</dd>
<dd><a href="https://www.linkedin.com/in/shateley/">Shannon Hateley</a>, Ph.D. (2016) Detection, Quantification, and Characterization of Diverse RNA Transcript Isoforms.</dd>
<dd><a href="https://www.linkedin.com/in/haroldpimentel/">Harold Pimentel</a>, Ph.D. (2016) Fast and accurate quantification and differential analysis of transcriptomes.</dd>
<dd><a href="https://www.linkedin.com/in/natth">Natth Bejraburnin</a>, Ph.D. (2015) A Study on Correlations between Genes, Functions and Evolutions.</dd>
<dd><a href="https://www.linkedin.com/in/atif-rahman-9a141023">Atif Rahman</a>, Ph.D. (2015) Statistical Models for Genome Assembly and Analysis.</dd>
<dd><a href="">Emily Berger</a>, Ph.D. (2015) Probabilistic Methods for Single Individual Haplotype Reconstruction: HapTree and HapTree-X.</dd>
<dd><a href="https://scholar.google.com/citations?user=9F2LPg4AAAAJ&hl=en">Nicolas Bray</a>, Ph.D. (2014) Methods for Measurement and Interpretation of Gene Expression.</dd>
<dd><a href="https://www.linkedin.com/in/adam-roberts-4b04132a">Adam Roberts</a>, Ph.D. (2013) Ambiguous fragment assignment for high-throughput sequencing experiments.</dd>
<dd><a href="https://www.linkedin.com/in/meromit-singer-013763198/">Meromit Singer</a>, Ph.D. (2012) Statistical algorithms in the study of mammalian DNA methylation.</dd>
<dd><a href="https://www.linkedin.com/in/aaron-kleinman-30296855">Aaron Kleinman</a>, Ph.D. (2012) Combinatorial phylogenetics of reconstruction algorithms.</dd>
<dd><a href="https://www.linkedin.com/in/cole-trapnell-ab00162/">Cole Trapnell</a>, Ph.D. (2010) Transcript Assembly And Abundance Estimation with High-throughput RNA-sequencing.</dd>
<dd><a href="https://scholar.google.com/citations?user=VlggRQoAAAAJ">Anne J. Shiu</a>, Ph.D. (2010) Algebraic methods for biochemical reaction network theory.</dd>
<dd><a href="https://www.linkedin.com/in/peter-huggins-85b84252/">Peter M. Huggins</a>, Ph.D. (2008) Polytopes in Computational Biology.</dd>
<dd><a href="https://www.linkedin.com/in/radu-mihaescu-97a1197">Radu H. Mihaescu</a>, Ph.D. (2008) Distance Methods for Phylogeny Reconstruction.</dd>
<dd><a href="https://www.linkedin.com/in/anat-caspi-phd-8b0a161/">Anat Caspi</a>, Ph.D. (2007) Comparative Genomics of Repeat Elements.</dd>
<dd><a href="https://www.linkedin.com/in/arielschwartz">Ariel S. Schwartz</a>, Ph.D. (2007) Posterior Decoding Methods for Optimization and Accuracy Control of Multiple Alignments.</dd>
<dd><a href="https://www.linkedin.com/in/colin-dewey-969971/">Colin N. Dewey</a>, Ph.D. (2006) Whole-Genome Alignments and Polytopes for Comparative Genomics.</dd>
<dd><a href="https://www.linkedin.com/in/sourav-chatterji/">Sourav Chatterji</a>, Ph.D. (2006) Computational Analyses of Eukaryotic Gene Evolution.</dd>
<dd><a href="https://www.linkedin.com/in/kevin-chen-baa3021a/">Kevin Chen</a>, Ph.D. (2005) Three Variations on the Theme of Comparative Genomics: Metagenomics, Mitochondrial Gene Rearrangements and MicroRNAs.</dd>
<dd><a href="https://scholar.google.com/citations?user=7slv8OAAAAAJ">Dan Levy</a>, Ph.D. (2005), Applications of Graph Theory to Chromosome Rearrangements and Phylogenetics.</dd>
<dd><a href="https://www.linkedin.com/in/eric-kuo-7b567149">Eric Kuo</a>, Ph.D. (2005), Combinatorics of Viterbi Sequences.</dd>
</dl>
<dl>
<dt>Former postdocs</dt>
<dd><a href="https://directory.caltech.edu/personnel/ggorin">Gennady Gorin (2023)</a></dd>
<dd><a href="https://www.linkedin.com/in/sinaboo/">Sina Booeshaghi (2023)</a></dd>
<dd><a href="https://www.linkedin.com/in/jase-gehring-805a8013a/">Jase Gehring (2020)</a></dd>
<dd><a href="https://www.linkedin.com/in/valentine-svensson-27754b6b/">Valentine Svensson (2020)</a></dd>
<dd><a href="https://www.linkedin.com/in/vasilis-ntranos-35755295/">Vasilis Ntranos</a> (2019)</dd>
<dd><a href="https://www.linkedin.com/in/shannonmccurdy">Shannon McCurdy (2017)</a></dd>
<dd><a href="https://www.linkedin.com/in/bo-li-6b62b028/">Bo Li (2017)</a></dd>
<dd><a href="https://www.linkedin.com/in/sharon-aviran-26497bb/">Sharon Aviran (2013)</a></dd>
<dd><a href="https://www.washington.edu/uaa/2014/04/20/in-memoriam-eliana-hechter/">Eliana Hechter (2013)</a></dd>
<dd><a href="https://www.linkedin.com/in/mathilde-paris-b0666384/">Mathilde Paris (2013)</a></dd>
<dd><a href="https://www.linkedin.com/in/valerie-hower-8a2530242/">Valerie Hower (2011)</a></dd>
<dd><a href="https://www.linkedin.com/in/megan-owen-ba74104/">Megan Owen (2011)</a></dd>
<dd><a href="https://www.linkedin.com/in/alexander-schoenhuth-4072205b/">Alexander Schönhuth (2010)</a></dd>
<dd><a href="https://www.linkedin.com/in/robert-k-bradley/">Robert Bradley (2009)</a></dd>
<dd><a href="https://www.linkedin.com/in/radu-mihaescu-97a1197">Radu H. Mihaescu (2009)</a></dd>
<dd><a href="https://www.linkedin.com/in/trevorbruen/">Trevor Bruen (2009)</a></dd>
<dd><a href="https://scholar.google.com/citations?user=LfMj4s0AAAAJ">Niko Beerenwinkel (2007)</a></dd>
<dd><a href="https://www.linkedin.com/in/sagi-snir-9905341a8/">Sagi Snir (2006)</a></dd>
<dd><a href="https://scholar.google.com/citations?user=CjRMyA4AAAAJ">Mathias Drton (2005)</a></dd>
<dd><a href="https://www.linkedin.com/in/ruriko-yoshida-5589446/">Ruriko Yoshida (2004)</a></dd>
<dd><a href="https://www.linkedin.com/in/luis-david-garcia-puente-36973670/">Luis David Garcia-Puente (2004)</a></dd>
<dd><a href="https://www.linkedin.com/in/von-bing-yap-5b472522/">Von Bing Yap (2003) </a></dd>
<dd><a href="https://www.linkedin.com/in/marina-axelson-fisk-19822152/">Marina Axelson-Fisk (2002) </a></dd>
</dl>
<dt></dt>
</div>
</div>
</body>
</html>