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Krishna Roskin

Research Assistant Professor-Affiliate

Pediatrics | College of Medicine

Education/Credentials
  • Bachelor of Mathematics: University of California
  • Bachelor of Computer Science: University of California
  • Doctor of Computer Science: University of California
Contact Information

Peer Reviewed Publications

Ellebedy, Ali H; Jackson, Katherine J L; Kissick, Haydn T; Nakaya, Helder I; Davis, Carl W; Roskin, Krishna M; McElroy, Anita K; Oshansky, Christine M; Elbein, Rivka; Thomas, Shine; Lyon, George M; Spiropoulou, Christina F; Mehta, Aneesh K; Thomas, Paul G; Boyd, Scott D; Ahmed, Rafi 2016. Defining antigen-specific plasmablast and memory B cell subsets in human blood after viral infection or vaccination. Nature immunology, 17 10, 1226-34

Hoh, Ramona A; Joshi, Shilpa A; Liu, Yi; Wang, Chen; Roskin, Krishna M; Lee, Ji-Yeun; Pham, Tho; Looney, Tim J; Jackson, Katherine J L; Dixit, Vaishali P; King, Jasmine; Lyu, Shu-Chen; Jenks, Jennifer; Hamilton, Robert G; Nadeau, Kari C; Boyd, Scott D 2016. Single B-cell deconvolution of peanut-specific antibody responses in allergic patients. The Journal of allergy and clinical immunology, 137 1, 157-167

Looney, Timothy J; Lee, Ji-Yeun; Roskin, Krishna M; Hoh, Ramona A; King, Jasmine; Glanville, Jacob; Liu, Yi; Pham, Tho D; Dekker, Cornelia L; Davis, Mark M; Boyd, Scott D 2016. Human B-cell isotype switching origins of IgE. The Journal of allergy and clinical immunology, 137 2, 579-586.e7

Collins, Andrew M; Wang, Yan; Roskin, Krishna M; Marquis, Christopher P; Jackson, Katherine J L 2015. The mouse antibody heavy chain repertoire is germline-focused and highly variable between inbred strains. Philosophical transactions of the Royal Society of London. Series B, Biological sciences, 370 1676,

Roskin, Krishna M; Simchoni, Noa; Liu, Yi; Lee, Ji-Yeun; Seo, Katie; Hoh, Ramona A; Pham, Tho; Park, Joon H; Furman, David; Dekker, Cornelia L; Davis, Mark M; James, Judith A; Nadeau, Kari C; Cunningham-Rundles, Charlotte; Boyd, Scott D 2015. IgH sequences in common variable immune deficiency reveal altered B cell development and selection. Science translational medicine, 7 302, 302ra135

Wang, Chen; Liu, Yi; Cavanagh, Mary M; Le Saux, Sabine; Qi, Qian; Roskin, Krishna M; Looney, Timothy J; Lee, Ji-Yeun; Dixit, Vaishali; Dekker, Cornelia L; Swan, Gary E; Goronzy, Jörg J; Boyd, Scott D 2015. B-cell repertoire responses to varicella-zoster vaccination in human identical twins. Proceedings of the National Academy of Sciences of the United States of America, 112 2, 500-5

Wang, Chen; Liu, Yi; Roskin, Krishna M; Jackson, Katherine J L; Boyd, Scott D 2015. Laboratory and Data Analysis Methods for Characterization of Human B Cell Repertoires by High-Throughput DNA Sequencing. Methods in molecular biology (Clifton, N.J.), 1343 , 219-33

Jackson, Katherine J L; Liu, Yi; Roskin, Krishna M; Glanville, Jacob; Hoh, Ramona A; Seo, Katie; Marshall, Eleanor L; Gurley, Thaddeus C; Moody, M Anthony; Haynes, Barton F; Walter, Emmanuel B; Liao, Hua-Xin; Albrecht, Randy A; García-Sastre, Adolfo; Chaparro-Riggers, Javier; Rajpal, Arvind; Pons, Jaume; Simen, Birgitte B; Hanczaruk, Bozena; Dekker, Cornelia L; Laserson, Jonathan; Koller, Daphne; Davis, Mark M; Fire, Andrew Z; Boyd, Scott D 2014. Human responses to influenza vaccination show seroconversion signatures and convergent antibody rearrangements. Cell host & microbe, 16 1, 105-14

Trama, Ashley M; Moody, M Anthony; Alam, S Munir; Jaeger, Frederick H; Lockwood, Bradley; Parks, Robert; Lloyd, Krissey E; Stolarchuk, Christina; Scearce, Richard; Foulger, Andrew; Marshall, Dawn J; Whitesides, John F; Jeffries, Thomas L; Wiehe, Kevin; Morris, Lynn; Lambson, Bronwen; Soderberg, Kelly; Hwang, Kwan-Ki; Tomaras, Georgia D; Vandergrift, Nathan; Jackson, Katherine J L; Roskin, Krishna M; Boyd, Scott D; Kepler, Thomas B; Liao, Hua-Xin; Haynes, Barton F 2014. HIV-1 envelope gp41 antibodies can originate from terminal ileum B cells that share cross-reactivity with commensal bacteria. Cell host & microbe, 16 2, 215-226

Wang, Chen; Liu, Yi; Xu, Lan T; Jackson, Katherine J L; Roskin, Krishna M; Pham, Tho D; Laserson, Jonathan; Marshall, Eleanor L; Seo, Katie; Lee, Ji-Yeun; Furman, David; Koller, Daphne; Dekker, Cornelia L; Davis, Mark M; Fire, Andrew Z; Boyd, Scott D 2014. Effects of aging, cytomegalovirus infection, and EBV infection on human B cell repertoires. Journal of immunology (Baltimore, Md. : 1950), 192 2, 603-11

Liao, Hua-Xin; Lynch, Rebecca; Zhou, Tongqing; Gao, Feng; Alam, S Munir; Boyd, Scott D; Fire, Andrew Z; Roskin, Krishna M; Schramm, Chaim A; Zhang, Zhenhai; Zhu, Jiang; Shapiro, Lawrence ; Mullikin, James C; Gnanakaran, S; Hraber, Peter; Wiehe, Kevin; Kelsoe, Garnett; Yang, Guang; Xia, Shi-Mao; Montefiori, David C; Parks, Robert; Lloyd, Krissey E; Scearce, Richard M; Soderberg, Kelly A; Cohen, Myron; Kamanga, Gift; Louder, Mark K; Tran, Lillian M; Chen, Yue; Cai, Fangping; Chen, Sheri; Moquin, Stephanie; Du, Xiulian; Joyce, M Gordon; Srivatsan, Sanjay; Zhang, Baoshan; Zheng, Anqi; Shaw, George M; Hahn, Beatrice H; Kepler, Thomas B; Korber, Bette T M; Kwong, Peter D; Mascola, John R; Haynes, Barton F 2013. Co-evolution of a broadly neutralizing HIV-1 antibody and founder virus. Nature, 496 7446, 469-76

Merker, Jason D; Roskin, Krishna M; Ng, Dana; Pan, Cuiping; Fisk, Dianna G; King, Jasmine J; Hoh, Ramona; Stadler, Michael; Okumoto, Lawrence M; Abidi, Parveen; Hewitt, Rhonda; Jones, Carol D; Gojenola, Linda; Clark, Michael J; Zhang, Bing; Cherry, Athena M; George, Tracy I; Snyder, Michael; Boyd, Scott D; Zehnder, James L; Fire, Andrew Z; Gotlib, Jason 2013. Comprehensive whole-genome sequencing of an early-stage primary myelofibrosis patient defines low mutational burden and non-recurrent candidate genes. Haematologica, 98 11, 1689-96

Parameswaran, Poornima; Liu, Yi; Roskin, Krishna M; Jackson, Katherine K L; Dixit, Vaishali P; Lee, Ji-Yeun; Artiles, Karen L; Zompi, Simona; Vargas, Maria José; Simen, Birgitte B; Hanczaruk, Bozena; McGowan, Kim R; Tariq, Muhammad A; Pourmand, Nader; Koller, Daphne; Balmaseda, Angel; Boyd, Scott D; Harris, Eva; Fire, Andrew Z 2013. Convergent antibody signatures in human dengue. Cell host & microbe, 13 6, 691-700

Raney, Brian J; Cline, Melissa S; Rosenbloom, Kate R; Dreszer, Timothy R; Learned, Katrina; Barber, Galt P; Meyer, Laurence R; Sloan, Cricket A; Malladi, Venkat S; Roskin, Krishna M; Suh, Bernard B; Hinrichs, Angie S; Clawson, Hiram; Zweig, Ann S; Kirkup, Vanessa; Fujita, Pauline A; Rhead, Brooke; Smith, Kayla E; Pohl, Andy; Kuhn, Robert M; Karolchik, Donna; Haussler, David; Kent, W James 2011. ENCODE whole-genome data in the UCSC genome browser (2011 update). Nucleic acids research, 39 Database issue, D871-5

Roskin, Krishna M; Paten, Benedict; Haussler, David 2011. Meta-alignment with crumble and prune: partitioning very large alignment problems for performance and parallelization. BMC bioinformatics, 12 , 144

Blanchette, Mathieu; Kent, W James; Riemer, Cathy; Elnitski, Laura; Smit, Arian F A; Roskin, Krishna M; Baertsch, Robert; Rosenbloom, Kate; Clawson, Hiram; Green, Eric D; Haussler, David; Miller, Webb 2004. Aligning multiple genomic sequences with the threaded blockset aligner. Genome research, 14 4, 708-15

Gibbs, Richard A; Weinstock, George M; Metzker, Michael L; Muzny, Donna M; Sodergren, Erica J; Scherer, Steven; Scott, Graham; Steffen, David; Worley, Kim C; Burch, Paula E; Okwuonu, Geoffrey; Hines, Sandra; Lewis, Lora; DeRamo, Christine; Delgado, Oliver; Dugan-Rocha, Shannon; Miner, George; Morgan, Margaret; Hawes, Alicia; Gill, Rachel; Celera, ; Holt, Robert A; Adams, Mark D; Amanatides, Peter G; Baden-Tillson, Holly; Barnstead, Mary; Chin, Soo; Evans, Cheryl A; Ferriera, Steve; Fosler, Carl; Glodek, Anna; Gu, Zhiping; Jennings, Don; Kraft, Cheryl L; Nguyen, Trixie; Pfannkoch, Cynthia M; Sitter, Cynthia; Sutton, Granger G; Venter, J Craig; Woodage, Trevor; Smith, Douglas; Lee, Hong-Mei; Gustafson, Erik; Cahill, Patrick; Kana, Arnold; Doucette-Stamm, Lynn; Weinstock, Keith; Fechtel, Kim; Weiss, Robert B; Dunn, Diane M; Green, Eric D; Blakesley, Robert W; Bouffard, Gerard G; De Jong, Pieter J; Osoegawa, Kazutoyo; Zhu, Baoli; Marra, Marco; Schein, Jacqueline; Bosdet, Ian; Fjell, Chris; Jones, Steven; Krzywinski, Martin; Mathewson, Carrie; Siddiqui, Asim; Wye, Natasja; McPherson, John; Zhao, Shaying; Fraser, Claire M; Shetty, Jyoti; Shatsman, Sofiya; Geer, Keita; Chen, Yixin; Abramzon, Sofyia; Nierman, William C; Havlak, Paul H; Chen, Rui; Durbin, K James; Egan, Amy; Ren, Yanru; Song, Xing-Zhi; Li, Bingshan; Liu, Yue; Qin, Xiang; Cawley, Simon; Worley, Kim C; Cooney, A J; D'Souza, Lisa M; Martin, Kirt; Wu, Jia Qian; Gonzalez-Garay, Manuel L; Jackson, Andrew R; Kalafus, Kenneth J; McLeod, Michael P; Milosavljevic, Aleksandar; Virk, Davinder; Volkov, Andrei; Wheeler, David A; Zhang, Zhengdong; Bailey, Jeffrey A; Eichler, Evan E; Tuzun, Eray; Birney, Ewan; Mongin, Emmanuel; Ureta-Vidal, Abel; Woodwark, Cara; Zdobnov, Evgeny; Bork, Peer; Suyama, Mikita; Torrents, David; Alexandersson, Marina; Trask, Barbara J; Young, Janet M; Huang, Hui; Wang, Huajun; Xing, Heming; Daniels, Sue; Gietzen, Darryl; Schmidt, Jeanette; Stevens, Kristian; Vitt, Ursula; Wingrove, Jim; Camara, Francisco; Mar Albà, M; Abril, Josep F; Guigo, Roderic; Smit, Arian; Dubchak, Inna; Rubin, Edward M; Couronne, Olivier; Poliakov, Alexander; Hübner, Norbert; Ganten, Detlev; Goesele, Claudia; Hummel, Oliver; Kreitler, Thomas; Lee, Young-Ae; Monti, Jan; Schulz, Herbert; Zimdahl, Heike; Himmelbauer, Heinz; Lehrach, Hans; Jacob, Howard J; Bromberg, Susan; Gullings-Handley, Jo; Jensen-Seaman, Michael I; Kwitek, Anne E; Lazar, Jozef; Pasko, Dean; Tonellato, Peter J; Twigger, Simon; Ponting, Chris P; Duarte, Jose M; Rice, Stephen; Goodstadt, Leo; Beatson, Scott A; Emes, Richard D; Winter, Eitan E; Webber, Caleb; Brandt, Petra; Nyakatura, Gerald; Adetobi, Margaret; Chiaromonte, Francesca; Elnitski, Laura; Eswara, Pallavi; Hardison, Ross C; Hou, Minmei; Kolbe, Diana; Makova, Kateryna; Miller, Webb; Nekrutenko, Anton; Riemer, Cathy; Schwartz, Scott; Taylor, James; Yang, Shan; Zhang, Yi; Lindpaintner, Klaus; Andrews, T Dan; Caccamo, Mario; Clamp, Michele; Clarke, Laura; Curwen, Valerie; Durbin, Richard; Eyras, Eduardo; Searle, Stephen M; Cooper, Gregory M; Batzoglou, Serafim; Brudno, Michael; Sidow, Arend; Stone, Eric A; Venter, J Craig; Payseur, Bret A; Bourque, Guillaume; López-Otín, Carlos; Puente, Xose S; Chakrabarti, Kushal; Chatterji, Sourav; Dewey, Colin; Pachter, Lior; Bray, Nicolas; Yap, Von Bing; Caspi, Anat; Tesler, Glenn; Pevzner, Pavel A; Haussler, David; Roskin, Krishna M; Baertsch, Robert; Clawson, Hiram; Furey, Terrence S; Hinrichs, Angie S; Karolchik, Donna; Kent, William J; Rosenbloom, Kate R; Trumbower, Heather; Weirauch, Matt; Cooper, David N; Stenson, Peter D; Ma, Bin; Brent, Michael; Arumugam, Manimozhiyan; Shteynberg, David; Copley, Richard R; Taylor, Martin S; Riethman, Harold; Mudunuri, Uma; Peterson, Jane; Guyer, Mark; Felsenfeld, Adam; Old, Susan; Mockrin, Stephen; Collins, Francis 2004. Genome sequence of the Brown Norway rat yields insights into mammalian evolution. Nature, 428 6982, 493-521

Jensen-Seaman, Michael I; Furey, Terrence S; Payseur, Bret A; Lu, Yontao; Roskin, Krishna M; Chen, Chin-Fu; Thomas, Michael A; Haussler, David; Jacob, Howard J 2004. Comparative recombination rates in the rat, mouse, and human genomes. Genome research, 14 4, 528-38

Karolchik, Donna; Hinrichs, Angela S; Furey, Terrence S; Roskin, Krishna M; Sugnet, Charles W; Haussler, David; Kent, W James 2004. The UCSC Table Browser data retrieval tool. Nucleic acids research, 32 Database issue, D493-6

Roskin, Krishna M; Diekhans, Mark; Haussler, David 2004. Score functions for determining regional conservation in two-species local alignments. Journal of computational biology : a journal of computational molecular cell biology, 11 2-3, 395-411

Yang, Shan; Smit, Arian F; Schwartz, Scott; Chiaromonte, Francesca; Roskin, Krishna M; Haussler, David; Miller, Webb; Hardison, Ross C 2004. Patterns of insertions and their covariation with substitutions in the rat, mouse, and human genomes. Genome research, 14 4, 517-27

Hardison, Ross C; Roskin, Krishna M; Yang, Shan; Diekhans, Mark; Kent, W James; Weber, Ryan; Elnitski, Laura; Li, Jia; O'Connor, Michael; Kolbe, Diana; Schwartz, Scott; Furey, Terrence S; Whelan, Simon; Goldman, Nick; Smit, Arian; Miller, Webb; Chiaromonte, Francesca; Haussler, David 2003. Covariation in frequencies of substitution, deletion, transposition, and recombination during eutherian evolution. Genome research, 13 1, 13-26

, ; Waterston, Robert H; Lindblad-Toh, Kerstin; Birney, Ewan; Rogers, Jane; Abril, Josep F; Agarwal, Pankaj; Agarwala, Richa; Ainscough, Rachel; Alexandersson, Marina; An, Peter; Antonarakis, Stylianos E; Attwood, John; Baertsch, Robert; Bailey, Jonathon; Barlow, Karen; Beck, Stephan; Berry, Eric; Birren, Bruce; Bloom, Toby; Bork, Peer; Botcherby, Marc; Bray, Nicolas; Brent, Michael R; Brown, Daniel G; Brown, Stephen D; Bult, Carol; Burton, John; Butler, Jonathan; Campbell, Robert D; Carninci, Piero; Cawley, Simon; Chiaromonte, Francesca; Chinwalla, Asif T; Church, Deanna M; Clamp, Michele; Clee, Christopher; Collins, Francis S; Cook, Lisa L; Copley, Richard R; Coulson, Alan; Couronne, Olivier; Cuff, James; Curwen, Val; Cutts, Tim; Daly, Mark; David, Robert; Davies, Joy; Delehaunty, Kimberly D; Deri, Justin; Dermitzakis, Emmanouil T; Dewey, Colin; Dickens, Nicholas J; Diekhans, Mark; Dodge, Sheila; Dubchak, Inna; Dunn, Diane M; Eddy, Sean R; Elnitski, Laura; Emes, Richard D; Eswara, Pallavi; Eyras, Eduardo; Felsenfeld, Adam; Fewell, Ginger A; Flicek, Paul; Foley, Karen; Frankel, Wayne N; Fulton, Lucinda A; Fulton, Robert S; Furey, Terrence S; Gage, Diane; Gibbs, Richard A; Glusman, Gustavo; Gnerre, Sante; Goldman, Nick; Goodstadt, Leo; Grafham, Darren; Graves, Tina A; Green, Eric D; Gregory, Simon; Guigó, Roderic; Guyer, Mark; Hardison, Ross C; Haussler, David; Hayashizaki, Yoshihide; Hillier, LaDeana W; Hinrichs, Angela; Hlavina, Wratko; Holzer, Timothy; Hsu, Fan; Hua, Axin; Hubbard, Tim; Hunt, Adrienne; Jackson, Ian; Jaffe, David B; Johnson, L Steven; Jones, Matthew; Jones, Thomas A; Joy, Ann; Kamal, Michael; Karlsson, Elinor K; Karolchik, Donna; Kasprzyk, Arkadiusz; Kawai, Jun; Keibler, Evan; Kells, Cristyn; Kent, W James; Kirby, Andrew; Kolbe, Diana L; Korf, Ian; Kucherlapati, Raju S; Kulbokas, Edward J; Kulp, David; Landers, Tom; Leger, J P; Leonard, Steven; Letunic, Ivica; Levine, Rosie; Li, Jia; Li, Ming; Lloyd, Christine; Lucas, Susan; Ma, Bin; Maglott, Donna R; Mardis, Elaine R; Matthews, Lucy; Mauceli, Evan; Mayer, John H; McCarthy, Megan; McCombie, W Richard; McLaren, Stuart; McLay, Kirsten; McPherson, John D; Meldrim, Jim; Meredith, Beverley; Mesirov, Jill P; Miller, Webb; Miner, Tracie L; Mongin, Emmanuel; Montgomery, Kate T; Morgan, Michael; Mott, Richard; Mullikin, James C; Muzny, Donna M; Nash, William E; Nelson, Joanne O; Nhan, Michael N; Nicol, Robert; Ning, Zemin; Nusbaum, Chad; O'Connor, Michael J; Okazaki, Yasushi; Oliver, Karen; Overton-Larty, Emma; Pachter, Lior; Parra, Genís; Pepin, Kymberlie H; Peterson, Jane; Pevzner, Pavel; Plumb, Robert; Pohl, Craig S; Poliakov, Alex; Ponce, Tracy C; Ponting, Chris P; Potter, Simon; Quail, Michael; Reymond, Alexandre; Roe, Bruce A; Roskin, Krishna M; Rubin, Edward M; Rust, Alistair G; Santos, Ralph; Sapojnikov, Victor; Schultz, Brian; Schultz, Jörg; Schwartz, Matthias S; Schwartz, Scott; Scott, Carol; Seaman, Steven; Searle, Steve; Sharpe, Ted; Sheridan, Andrew; Shownkeen, Ratna; Sims, Sarah; Singer, Jonathan B; Slater, Guy; Smit, Arian; Smith, Douglas R; Spencer, Brian; Stabenau, Arne; Stange-Thomann, Nicole; Sugnet, Charles; Suyama, Mikita; Tesler, Glenn; Thompson, Johanna; Torrents, David; Trevaskis, Evanne; Tromp, John; Ucla, Catherine; Ureta-Vidal, Abel; Vinson, Jade P; Von Niederhausern, Andrew C; Wade, Claire M; Wall, Melanie; Weber, Ryan J; Weiss, Robert B; Wendl, Michael C; West, Anthony P; Wetterstrand, Kris; Wheeler, Raymond; Whelan, Simon; Wierzbowski, Jamey; Willey, David; Williams, Sophie; Wilson, Richard K; Winter, Eitan; Worley, Kim C; Wyman, Dudley; Yang, Shan; Yang, Shiaw-Pyng; Zdobnov, Evgeny M; Zody, Michael C; Lander, Eric S 2002. Initial sequencing and comparative analysis of the mouse genome. Nature, 420 6915, 520-62

Kent, W James; Sugnet, Charles W; Furey, Terrence S; Roskin, Krishna M; Pringle, Tom H; Zahler, Alan M; Haussler, David 2002. The human genome browser at UCSC. Genome research, 12 6, 996-1006