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

Autor Tilgner, Hagen, Raha, Debasish, Habegger, Lukas, Mohiuddin, Mohammed, Gerstein, Mark, Snyder, Michael
Vydáno 2013

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

Autor Du, Jiang, Leng, Jing, Habegger, Lukas, Sboner, Andrea, McDermott, Drew, Gerstein, Mark
Vydáno 2012

RSEQtools: a modular framework to analyze RNA-Seq data using compact, anonymized data summaries

Autor Habegger, Lukas, Sboner, Andrea, Gianoulis, Tara A., Rozowsky, Joel, Agarwal, Ashish, Snyder, Michael, Gerstein, Mark
Vydáno 2011

Determining Structure and Function of Steroid Dehydrogenase Enzymes by Sequence Analysis, Homology Modeling, and Rational Mutational Analysis

Autor DUAX, WILLIAM L., THOMAS, JAMES, PLETNEV, VLADIMIR, ADDLAGATTA, ANTHONY, HUETHER, ROBERT, HABEGGER, LUKAS, WEEKS, CHARLES M.
Vydáno 2005

Defining the human reference protein-coding gene set

Autor Balasubramanian, Suganthi, Habegger, Lukas, Frankish, Adam, MacArthur, Daniel, Harte, Rachel, Tyler-Smith, Chris, Harrow, Jennifer, Gerstein, Mark
Vydáno 2010

Gene inactivation and its implications for annotation in the era of personal genomics

Autor Balasubramanian, Suganthi, Habegger, Lukas, Frankish, Adam, MacArthur, Daniel G., Harte, Rachel, Tyler-Smith, Chris, Harrow, Jennifer, Gerstein, Mark
Vydáno 2011

Analysis of variable retroduplications in human populations suggests coupling of retrotransposition to cell division

Autor Abyzov, Alexej, Iskow, Rebecca, Gokcumen, Omer, Radke, David W., Balasubramanian, Suganthi, Pei, Baikang, Habegger, Lukas, Lee, Charles, Gerstein, Mark
Vydáno 2013

VAT: a computational framework to functionally annotate variants in personal genomes within a cloud-computing environment

Autor Habegger, Lukas, Balasubramanian, Suganthi, Chen, David Z., Khurana, Ekta, Sboner, Andrea, Harmanci, Arif, Rozowsky, Joel, Clarke, Declan, Snyder, Michael, Gerstein, Mark
Vydáno 2012

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

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

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

Autor 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.
Vydáno v Bioinformatics (2016)

Dynamic transcriptomes during neural differentiation of human embryonic stem cells revealed by short, long, and paired-end sequencing

Autor Wu, Jia Qian, Habegger, Lukas, Noisa, Parinya, Szekely, Anna, Qiu, Caihong, Hutchison, Stephen, Raha, Debasish, Egholm, Michael, Lin, Haifan, Weissman, Sherman, Cui, Wei, Gerstein, Mark, Snyder, Michael
Vydáno 2010

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

Autor 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
Vydáno 2010

The GENCODE pseudogene resource

Autor 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
Vydáno 2012

Identification of Neuropsychiatric Copy Number Variants in a Health Care System Population

Autor Martin, Christa Lese, Wain, Karen E., Oetjens, Matthew T., Tolwinski, Kasia, Palen, Emily, Hare-Harris, Abby, Habegger, Lukas, Maxwell, Evan K., Reid, Jeffrey G., Walsh, Lauren Kasparson, Myers, Scott M., Ledbetter, David H.
Vydáno v JAMA Psychiatry (2020)

Performance comparison of whole-genome sequencing platforms

Autor Lam, Hugo Y K, Clark, Michael J, Chen, Rui, Chen, Rong, Natsoulis, Georges, O’Huallachain, Maeve, Dewey, Frederick E, Habegger, Lukas, Ashley, Euan A, Gerstein, Mark B, Butte, Atul J, Ji, Hanlee P, Snyder, Michael
Vydáno 2011

Regulatory element copy number differences shape primate expression profiles

Autor Iskow, Rebecca C., Gokcumen, Omer, Abyzov, Alexej, Malukiewicz, Joanna, Zhu, Qihui, Sukumar, Ann T., Pai, Athma A., Mills, Ryan E., Habegger, Lukas, Cusanovich, Darren A., Rubel, Meagan A., Perry, George H., Gerstein, Mark, Stone, Anne C., Gilad, Yoav, Lee, Charles
Vydáno 2012

Variation in Transcription Factor Binding Among Humans

Autor Kasowski, Maya, Grubert, Fabian, Heffelfinger, Christopher, Hariharan, Manoj, Asabere, Akwasi, Waszak, Sebastian M., Habegger, Lukas, Rozowsky, Joel, Shi, Minyi, Urban, Alexander E., Hong, Mi-Young, Karczewski, Konrad J., Huber, Wolfgang, Weissman, Sherman M., Gerstein, Mark B., Korbel, Jan O., Snyder, Michael
Vydáno 2010

Discovery of non-ETS gene fusions in human prostate cancer using next-generation RNA sequencing

Autor Pflueger, Dorothee, Terry, Stéphane, Sboner, Andrea, Habegger, Lukas, Esgueva, Raquel, Lin, Pei-Chun, Svensson, Maria A., Kitabayashi, Naoki, Moss, Benjamin J., MacDonald, Theresa Y., Cao, Xuhong, Barrette, Terrence, Tewari, Ashutosh K., Chee, Mark S., Chinnaiyan, Arul M., Rickman, David S., Demichelis, Francesca, Gerstein, Mark B., Rubin, Mark A.
Vydáno 2011

Inactivating Variants in ANGPTL4 and Risk of Coronary Artery Disease

Autor Dewey, Frederick E., Gusarova, Viktoria, O’Dushlaine, Colm, Gottesman, Omri, Trejos, Jesus, Hunt, Charleen, Van Hout, Cristopher V., Habegger, Lukas, Buckler, David, Lai, Ka-Man V., Leader, Joseph B., Murray, Michael F., Ritchie, Marylyn D., Kirchner, H. Lester, Ledbetter, David H., Penn, John, Lopez, Alexander, Borecki, Ingrid B., Overton, John D., Reid, Jeffrey G., Carey, David J., Murphy, Andrew J., Yancopoulos, George D., Baras, Aris, Gromada, Jesper, Shuldiner, Alan R.
Vydáno v N Engl J Med (2016)

Profiling and Leveraging Relatedness in a Precision Medicine Cohort of 92,455 Exomes

Autor Staples, Jeffrey, Maxwell, Evan K., Gosalia, Nehal, Gonzaga-Jauregui, Claudia, Snyder, Christopher, Hawes, Alicia, Penn, John, Ulloa, Ricardo, Bai, Xiaodong, Lopez, Alexander E., Van Hout, Cristopher V., O’Dushlaine, Colm, Teslovich, Tanya M., McCarthy, Shane E., Balasubramanian, Suganthi, Kirchner, H. Lester, Leader, Joseph B., Murray, Michael F., Ledbetter, David H., Shuldiner, Alan R., Yancoupolos, George D., Dewey, Frederick E., Carey, David J., Overton, John D., Baras, Aris, Habegger, Lukas, Reid, Jeffrey G.
Vydáno v Am J Hum Genet (2018)