IQSeq: Integrated Isoform Quantification Analysis Based on Next-Generation Sequencing

by Du, Jiang, Leng, Jing, Habegger, Lukas, Sboner, Andrea, McDermott, Drew, Gerstein, Mark
Published 2012

Accurate Identification and Analysis of Human mRNA Isoforms Using Deep Long Read Sequencing

by Tilgner, Hagen, Raha, Debasish, Habegger, Lukas, Mohiuddin, Mohammed, Gerstein, Mark, Snyder, Michael
Published 2013

Comparison and calibration of transcriptome data from RNA-Seq and tiling arrays

by Agarwal, Ashish, Koppstein, David, Rozowsky, Joel, Sboner, Andrea, Habegger, Lukas, Hillier, LaDeana W, Sasidharan, Rajkumar, Reinke, Valerie, Waterston, Robert H, Gerstein, Mark
Published 2010

CLAMMS: a scalable algorithm for calling common and rare copy number variants from exome sequencing data

by Packer, Jonathan S., Maxwell, Evan K., O’Dushlaine, Colm, Lopez, Alexander E., Dewey, Frederick E., Chernomorsky, Rostislav, Baras, Aris, Overton, John D., Habegger, Lukas, Reid, Jeffrey G.
Published 2016

FusionSeq: a modular framework for finding gene fusions by analyzing paired-end RNA-sequencing data

by Sboner, Andrea, Habegger, Lukas, Pflueger, Dorothee, Terry, Stephane, Chen, David Z, Rozowsky, Joel S, Tewari, Ashutosh K, Kitabayashi, Naoki, Moss, Benjamin J, Chee, Mark S, Demichelis, Francesca, Rubin, Mark A, Gerstein, Mark B
Published 2010

The GENCODE pseudogene resource

by Pei, Baikang, Sisu, Cristina, Frankish, Adam, Howald, Cédric, Habegger, Lukas, Mu, Xinmeng Jasmine, Harte, Rachel, Balasubramanian, Suganthi, Tanzer, Andrea, Diekhans, Mark, Reymond, Alexandre, Hubbard, Tim J, Harrow, Jennifer, Gerstein, Mark B
Published 2012

The genomic complexity of primary human prostate cancer

by Berger, Michael F., Lawrence, Michael S., Demichelis, Francesca, Drier, Yotam, Cibulskis, Kristian, Sivachenko, Andrey Y., Sboner, Andrea, Esgueva, Raquel, Pflueger, Dorothee, Sougnez, Carrie, Onofrio, Robert, Carter, Scott L., Park, Kyung, Habegger, Lukas, Ambrogio, Lauren, Fennell, Timothy, Parkin, Melissa, Saksena, Gordon, Voet, Douglas, Ramos, Alex H., Pugh, Trevor J., Wilkinson, Jane, Fisher, Sheila, Winckler, Wendy, Mahan, Scott, Ardlie, Kristin, Baldwin, Jennifer, Simons, Jonathan W., Kitabayashi, Naoki, MacDonald, Theresa Y., Kantoff, Philip W., Chin, Lynda, Gabriel, Stacey B., Gerstein, Mark B., Golub, Todd R., Meyerson, Matthew, Tewari, Ashutosh, Lander, Eric S., Getz, Gad, Rubin, Mark A., Garraway, Levi A.
Published 2011