Diversity and dynamics of the Drosophila transcriptome
Brown, James B., Boley, Nathan, Eisman, Robert, May, Gemma E., Stoiber, Marcus H., Duff, Michael O., Booth, Ben W., Wen, Jiayu, Park, Soo, Suzuki, Ana Maria, Wan, Kenneth H., Yu, Charles, Zhang, Dayu, Carlson, Joseph W., Cherbas, Lucy, Eads, Brian D., Miller, David, Mockaitis, Keithanne, Roberts, Johnny, Davis, Carrie A., Frise, Erwin, Hammonds, Ann S., Olson, Sara, Shenker, Sol, Sturgill, David, Samsonova, Anastasia A., Weiszmann, Richard, Robinson, Garret, Hernandez, Juan, Andrews, Justen, Bickel, Peter J., Carninci, Piero, Cherbas, Peter, Gingeras, Thomas R., Hoskins, Roger A., Kaufman, Thomas C., Lai, Eric C., Oliver, Brian, Perrimon, Norbert, Graveley, Brenton R., Celniker, Susan E.
Published in Nature (London) (28.08.2014)
Published in Nature (London) (28.08.2014)
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Journal Article
Early transcriptional response pathways in Daphnia magna are coordinated in networks of crustacean‐specific genes
Orsini, Luisa, Brown, James B., Shams Solari, Omid, Li, Dong, He, Shan, Podicheti, Ram, Stoiber, Marcus H., Spanier, Katina I., Gilbert, Donald, Jansen, Mieke, Rusch, Douglas B., Pfrender, Michael E., Colbourne, John K., Frilander, Mikko J., Kvist, Jouni, Decaestecker, Ellen, De Schamphelaere, Karel A. C., De Meester, Luc
Published in Molecular ecology (01.02.2018)
Published in Molecular ecology (01.02.2018)
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Journal Article
Diverse Hormone Response Networks in 41 Independent Drosophila Cell Lines
Stoiber, Marcus, Celniker, Susan, Cherbas, Lucy, Brown, Ben, Cherbas, Peter
Published in G3 : genes - genomes - genetics (01.03.2016)
Published in G3 : genes - genomes - genetics (01.03.2016)
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Journal Article
Genome-guided transcript assembly by integrative analysis of RNA sequence data
Boley, Nathan, Stoiber, Marcus H, Booth, Benjamin W, Wan, Kenneth H, Hoskins, Roger A, Bickel, Peter J, Celniker, Susan E, Brown, James B
Published in Nature biotechnology (01.04.2014)
Published in Nature biotechnology (01.04.2014)
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Journal Article
Extensive cross-regulation of post-transcriptional regulatory networks in Drosophila
Stoiber, Marcus H, Olson, Sara, May, Gemma E, Duff, Michael O, Manent, Jan, Obar, Robert, Guruharsha, K G, Bickel, Peter J, Artavanis-Tsakonas, Spyros, Brown, James B, Graveley, Brenton R, Celniker, Susan E
Published in Genome research (01.11.2015)
Published in Genome research (01.11.2015)
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Journal Article
Age-related gene expression in luminal epithelial cells is driven by a microenvironment made from myoepithelial cells
Miyano, Masaru, Sayaman, Rosalyn W, Stoiber, Marcus H, Lin, Chun-Han, Stampfer, Martha R, Brown, James B, LaBarge, Mark A
Published in Aging (Albany, NY.) (09.10.2017)
Published in Aging (Albany, NY.) (09.10.2017)
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Journal Article
DCC: A platform to collect, annotate, and explore a large variety of sequencing experiments
Hörtenhuber, Matthias, Mukarram, Abdul K, Stoiber, Marcus H, Brown, James B, Daub, Carsten O
Published in Gigascience (01.03.2020)
Published in Gigascience (01.03.2020)
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Journal Article
Detecting m6A RNA modification from nanopore sequencing using a semisupervised learning framework
Teng, Haotian, Stoiber, Marcus, Bar-Joseph, Ziv, Kingsford, Carl
Published in Genome research (05.11.2024)
Published in Genome research (05.11.2024)
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Journal Article
Detecting m6A RNA modification from nanopore sequencing using a semi-supervised learning framework
Teng, Haotian, Stoiber, Marcus, Bar-Joseph, Ziv, Kingsford, Carl
Published in Genome research (15.10.2024)
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Published in Genome research (15.10.2024)
Journal Article
Abstract A24: Age- and lineage-dependent gene expression is maintained by microenvironment imposed epigenetic states in human mammary epithelial cells
Miyano, Masaru, Stoiber, Marcus, Stampfer, Martha, Brown, Ben, LaBarge, Mark A.
Published in Molecular cancer research (01.02.2016)
Published in Molecular cancer research (01.02.2016)
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Journal Article
Genome-guided transcript assembly from integrative analysis of RNA sequence data
Boley, Nathan, Stoiber, Marcus H., Booth, Benjamin W., Wan, Kenneth H., Hoskins, Roger A., Bickel, Peter J., Celniker, Susan E., Brown, James B.
Published in Nature biotechnology (16.03.2014)
Published in Nature biotechnology (16.03.2014)
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Journal Article
Comparative analysis of the transcriptome across distant species
Gerstein, Mark B., Rozowsky, Joel, Yan, Koon-Kiu, Wang, Daifeng, Cheng, Chao, Brown, James B., Davis, Carrie A., Hillier, LaDeana, Sisu, Cristina, Li, Jingyi Jessica, Pei, Baikang, Harmanci, Arif O., Duff, Michael O., Djebali, Sarah, Alexander, Roger P., Alver, Burak H., Auerbach, Raymond, Bell, Kimberly, Bickel, Peter J., Boeck, Max E., Boley, Nathan P., Booth, Benjamin W., Cherbas, Lucy, Cherbas, Peter, Di, Chao, Dobin, Alex, Drenkow, Jorg, Ewing, Brent, Fang, Gang, Fastuca, Megan, Feingold, Elise A., Frankish, Adam, Gao, Guanjun, Good, Peter J., Guigó, Roderic, Hammonds, Ann, Harrow, Jen, Hoskins, Roger A., Howald, Cédric, Hu, Long, Huang, Haiyan, Hubbard, Tim J. P., Huynh, Chau, Jha, Sonali, Kasper, Dionna, Kato, Masaomi, Kaufman, Thomas C., Kitchen, Robert R., Ladewig, Erik, Lagarde, Julien, Lai, Eric, Leng, Jing, Lu, Zhi, MacCoss, Michael, May, Gemma, McWhirter, Rebecca, Merrihew, Gennifer, Miller, David M., Mortazavi, Ali, Murad, Rabi, Oliver, Brian, Olson, Sara, Park, Peter J., Pazin, Michael J., Perrimon, Norbert, Pervouchine, Dmitri, Reinke, Valerie, Reymond, Alexandre, Robinson, Garrett, Samsonova, Anastasia, Saunders, Gary I., Schlesinger, Felix, Sethi, Anurag, Slack, Frank J., Spencer, William C., Stoiber, Marcus H., Strasbourger, Pnina, Tanzer, Andrea, Thompson, Owen A., Wan, Kenneth H., Wang, Guilin, Wang, Huaien, Watkins, Kathie L., Wen, Jiayu, Wen, Kejia, Xue, Chenghai, Yang, Li, Yip, Kevin, Zaleski, Chris, Zhang, Yan, Zheng, Henry, Brenner, Steven E., Graveley, Brenton R., Celniker, Susan E., Gingeras, Thomas R., Waterston, Robert
Published in Nature (London) (28.08.2014)
Published in Nature (London) (28.08.2014)
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Journal Article