STAR: ultrafast universal RNA-seq aligner
Dobin, Alexander, Davis, Carrie A, Schlesinger, Felix, Drenkow, Jorg, Zaleski, Chris, Jha, Sonali, Batut, Philippe, Chaisson, Mark, Gingeras, Thomas R
Published in Bioinformatics (01.01.2013)
Published in Bioinformatics (01.01.2013)
Get full text
Journal Article
Comparison of the transcriptional landscapes between human and mouse tissues
Lin, Shin, Lin, Yiing, Nery, Joseph R., Urich, Mark A., Breschi, Alessandra, Davis, Carrie A., Dobin, Alexander, Zaleski, Christopher, Beer, Michael A., Chapman, William C., Gingeras, Thomas R., Ecker, Joseph R., Snyder, Michael P.
Published in Proceedings of the National Academy of Sciences - PNAS (02.12.2014)
Published in Proceedings of the National Academy of Sciences - PNAS (02.12.2014)
Get full text
Journal Article
Genome-wide antisense transcription drives mRNA processing in bacteria
Lasa, Iñigo, Toledo-Arana, Alejandro, Dobin, Alexander, Villanueva, Maite, de los Mozos, Igor Ruiz, Vergara-Irigaray, Marta, Segura, Víctor, Fagegaltier, Delphine, Penadés, José R, Valle, Jaione, Solano, Cristina, Gingeras, Thomas R
Published in Proceedings of the National Academy of Sciences - PNAS (13.12.2011)
Published in Proceedings of the National Academy of Sciences - PNAS (13.12.2011)
Get full text
Journal Article
The transcriptional diversity of 25 Drosophila cell lines
Cherbas, Lucy, Willingham, Aarron, Zhang, Dayu, Yang, Li, Zou, Yi, Eads, Brian D, Carlson, Joseph W, Landolin, Jane M, Kapranov, Philipp, Dumais, Jacqueline, Samsonova, Anastasia, Choi, Jeong-Hyeon, Roberts, Johnny, Davis, Carrie A, Tang, Haixu, van Baren, Marijke J, Ghosh, Srinka, Dobin, Alexander, Bell, Kim, Lin, Wei, Langton, Laura, Duff, Michael O, Tenney, Aaron E, Zaleski, Chris, Brent, Michael R, Hoskins, Roger A, Kaufman, Thomas C, Andrews, Justen, Graveley, Brenton R, Perrimon, Norbert, Celniker, Susan E, Gingeras, Thomas R, Cherbas, Peter
Published in Genome research (01.02.2011)
Published in Genome research (01.02.2011)
Get full text
Journal Article
Management, Analyses, and Distribution of the MaizeCODE Data on the Cloud
Wang, Liya, Lu, Zhenyuan, delaBastide, Melissa, Van Buren, Peter, Wang, Xiaofei, Ghiban, Cornel, Regulski, Michael, Drenkow, Jorg, Xu, Xiaosa, Ortiz-Ramirez, Carlos, Marco, Cristina F, Goodwin, Sara, Dobin, Alexander, Birnbaum, Kenneth D, Jackson, David P, Martienssen, Robert A, McCombie, William R, Micklos, David A, Schatz, Michael C, Ware, Doreen H, Gingeras, Thomas R
Published in Frontiers in plant science (31.03.2020)
Published in Frontiers in plant science (31.03.2020)
Get full text
Journal Article
Optimizing RNA-Seq Mapping with STAR
Dobin, Alexander, Gingeras, Thomas R
Published in Methods in molecular biology (Clifton, N.J.) (01.01.2016)
Published in Methods in molecular biology (Clifton, N.J.) (01.01.2016)
Get more information
Journal Article
A Simple Model for Transition Width and Cluster Size in Perpendicular Recording
Get full text
Journal Article
Conference Proceeding
Pan-human consensus genome significantly improves the accuracy of RNA-seq analyses
Kaminow, Benjamin, Ballouz, Sara, Gillis, Jesse, Dobin, Alexander
Published in Genome research (01.04.2022)
Published in Genome research (01.04.2022)
Get full text
Journal Article
Comparative cellular analysis of motor cortex in human, marmoset and mouse
Bakken, Trygve E., Jorstad, Nikolas L., Hu, Qiwen, Lake, Blue B., Tian, Wei, Kalmbach, Brian E., Crow, Megan, Hodge, Rebecca D., Krienen, Fenna M., Sorensen, Staci A., Eggermont, Jeroen, Yao, Zizhen, Aevermann, Brian D., Aldridge, Andrew I., Bartlett, Anna, Bertagnolli, Darren, Casper, Tamara, Crichton, Kirsten, Daigle, Tanya L., Dalley, Rachel, Dembrow, Nikolai, Diep, Dinh, Ding, Song-Lin, Fang, Rongxin, Fischer, Stephan, Goldman, Melissa, Goldy, Jeff, Graybuck, Lucas T., Herb, Brian R., Hou, Xiaomeng, Kancherla, Jayaram, Kroll, Matthew, Lathia, Kanan, Li, Yang Eric, Liu, Christine S., Lucero, Jacinta D., Mahurkar, Anup, McMillen, Delissa, Miller, Jeremy A., Moussa, Marmar, Nery, Joseph R., Nicovich, Philip R., Niu, Sheng-Yong, Orvis, Joshua, Osteen, Julia K., Owen, Scott, Palmer, Carter R., Pham, Thanh, Plongthongkum, Nongluk, Poirion, Olivier, Reed, Nora M., Rimorin, Christine, Rivkin, Angeline, Romanow, William J., Sedeño-Cortés, Adriana E., Siletti, Kimberly, Somasundaram, Saroja, Sulc, Josef, Tieu, Michael, Torkelson, Amy, Tung, Herman, Wang, Xinxin, Xie, Fangming, Yanny, Anna Marie, Zhang, Renee, Ament, Seth A., Behrens, M. Margarita, Bravo, Hector Corrada, Chun, Jerold, Dobin, Alexander, Gillis, Jesse, Hertzano, Ronna, Hof, Patrick R., Höllt, Thomas, Horwitz, Gregory D., Keene, C. Dirk, Kharchenko, Peter V., Lelieveldt, Boudewijn P., Luo, Chongyuan, Mukamel, Eran A., Pinto-Duarte, António, Preissl, Sebastian, Regev, Aviv, Ren, Bing, Scheuermann, Richard H., Smith, Kimberly, Spain, William J., White, Owen R., Koch, Christof, Hawrylycz, Michael, Tasic, Bosiljka, Macosko, Evan Z., McCarroll, Steven A., Ting, Jonathan T., Zeng, Hongkui, Zhang, Kun, Feng, Guoping, Ecker, Joseph R., Linnarsson, Sten, Lein, Ed S.
Published in Nature (London) (07.10.2021)
Published in Nature (London) (07.10.2021)
Get full text
Journal Article
A benchmark for RNA-seq quantification pipelines
Teng, Mingxiang, Love, Michael I, Davis, Carrie A, Djebali, Sarah, Dobin, Alexander, Graveley, Brenton R, Li, Sheng, Mason, Christopher E, Olson, Sara, Pervouchine, Dmitri, Sloan, Cricket A, Wei, Xintao, Zhan, Lijun, Irizarry, Rafael A
Published in Genome Biology (23.04.2016)
Published in Genome Biology (23.04.2016)
Get full text
Journal Article
The fractured landscape of RNA-seq alignment: the default in our STARs
Ballouz, Sara, Dobin, Alexander, Gingeras, Thomas R, Gillis, Jesse
Published in Nucleic acids research (01.06.2018)
Published in Nucleic acids research (01.06.2018)
Get full text
Journal Article
The long noncoding RNA ROCKI regulates inflammatory gene expression
Zhang, Qiong, Chao, Ti‐Chun, Patil, Veena S, Qin, Yue, Tiwari, Shashi Kant, Chiou, Joshua, Dobin, Alexander, Tsai, Chih‐Ming, Li, Zhonghan, Dang, Jason, Gupta, Shagun, Urdahl, Kevin, Nizet, Victor, Gingeras, Thomas R, Gaulton, Kyle J, Rana, Tariq M
Published in The EMBO journal (15.04.2019)
Published in The EMBO journal (15.04.2019)
Get full text
Journal Article
Identification of glioblastoma stem cell-associated lncRNAs using single-cell RNA sequencing datasets
Hazra, Rasmani, Utama, Raditya, Naik, Payal, Dobin, Alexander, Spector, David L.
Published in Stem cell reports (14.11.2023)
Published in Stem cell reports (14.11.2023)
Get full text
Journal Article
Systematic evaluation of spliced alignment programs for RNA-seq data
Engström, Pär G, Steijger, Tamara, Sipos, Botond, Grant, Gregory R, Kahles, André, Rätsch, Gunnar, Goldman, Nick, Hubbard, Tim J, Harrow, Jennifer, Guigó, Roderic, Bertone, Paul
Published in Nature methods (01.12.2013)
Published in Nature methods (01.12.2013)
Get full text
Journal Article
A mucus production programme promotes classical pancreatic ductal adenocarcinoma
Tonelli, Claudia, Yordanov, Georgi N, Hao, Yuan, Deschênes, Astrid, Hinds, Juliene, Belleau, Pascal, Klingbeil, Olaf, Brosnan, Erin, Doshi, Abhishek, Park, Youngkyu, Hruban, Ralph H, Vakoc, Christopher R, Dobin, Alexander, Preall, Jonathan, Tuveson, David A
Published in Gut (01.06.2024)
Published in Gut (01.06.2024)
Get full text
Journal Article