Zobrazeno 1 - 10
of 38
pro vyhledávání: '"Avinash Ramu"'
Publikováno v:
Genome Biology, Vol 25, Iss 1, Pp 1-23 (2024)
Abstract Background Individual cells from isogenic populations often display large cell-to-cell differences in gene expression. This “noise” in expression derives from several sources, including the genomic and cellular environment in which a gen
Externí odkaz:
https://doaj.org/article/fca7dcb5df5c4ddca2e1448f0336fda0
Autor:
Kelsy C. Cotto, Yang-Yang Feng, Avinash Ramu, Megan Richters, Sharon L. Freshour, Zachary L. Skidmore, Huiming Xia, Joshua F. McMichael, Jason Kunisaki, Katie M. Campbell, Timothy Hung-Po Chen, Emily B. Rozycki, Douglas Adkins, Siddhartha Devarakonda, Sumithra Sankararaman, Yiing Lin, William C. Chapman, Christopher A. Maher, Vivek Arora, Gavin P. Dunn, Ravindra Uppaluri, Ramaswamy Govindan, Obi L. Griffith, Malachi Griffith
Publikováno v:
Nature Communications, Vol 14, Iss 1, Pp 1-18 (2023)
Analysing the regulatory consequences of mutations and splice variants at large scale in cancer requires efficient computational tools. Here, the authors develop RegTools, a software package that can identify splice-associated variants from large-sca
Externí odkaz:
https://doaj.org/article/a791b7f280e84d3d8c3cf984f3f564cd
Autor:
Triin Laisk, Ana Luiza G. Soares, Teresa Ferreira, Jodie N. Painter, Jenny C. Censin, Samantha Laber, Jonas Bacelis, Chia-Yen Chen, Maarja Lepamets, Kuang Lin, Siyang Liu, Iona Y. Millwood, Avinash Ramu, Jennifer Southcombe, Marianne S. Andersen, Ling Yang, Christian M. Becker, Anders D. Børglum, Scott D. Gordon, Jonas Bybjerg-Grauholm, Øyvind Helgeland, David M. Hougaard, Xin Jin, Stefan Johansson, Julius Juodakis, Christiana Kartsonaki, Viktorija Kukushkina, Penelope A. Lind, Andres Metspalu, Grant W. Montgomery, Andrew P. Morris, Ole Mors, Preben B. Mortensen, Pål R. Njølstad, Merete Nordentoft, Dale R. Nyholt, Margaret Lippincott, Stephanie Seminara, Andres Salumets, Harold Snieder, Krina Zondervan, Thomas Werge, Zhengming Chen, Donald F. Conrad, Bo Jacobsson, Liming Li, Nicholas G. Martin, Benjamin M. Neale, Rasmus Nielsen, Robin G. Walters, Ingrid Granne, Sarah E. Medland, Reedik Mägi, Deborah A. Lawlor, Cecilia M. Lindgren
Publikováno v:
Nature Communications, Vol 11, Iss 1, Pp 1-12 (2020)
Miscarriage affects around 15% of clinically confirmed pregnancies. Here the authors carry out a large genome-wide association study for sporadic and multiple consecutive miscarriage and suggest links with placental biology.
Externí odkaz:
https://doaj.org/article/bdd3d54f8cfb46f29d8530d41ddbc34a
Autor:
Alex H. Wagner, Siddhartha Devarakonda, Zachary L. Skidmore, Kilannin Krysiak, Avinash Ramu, Lee Trani, Jason Kunisaki, Ashiq Masood, Saiama N. Waqar, Nicholas C. Spies, Daniel Morgensztern, Jason Waligorski, Jennifer Ponce, Robert S. Fulton, Leonard B. Maggi, Jason D. Weber, Mark A. Watson, Christopher J. O’Conor, Jon H. Ritter, Rachelle R. Olsen, Haixia Cheng, Anandaroop Mukhopadhyay, Ismail Can, Melissa H. Cessna, Trudy G. Oliver, Elaine R. Mardis, Richard K. Wilson, Malachi Griffith, Obi L. Griffith, Ramaswamy Govindan
Publikováno v:
Nature Communications, Vol 9, Iss 1, Pp 1-11 (2018)
Small cell lung cancer (SCLC) patients frequently relapse and become resistant to chemotherapy. Here, the authors analyse the genomic and transcriptomic landscape of primary and relapsed SCLC patients as well as in vitro models, and discover that act
Externí odkaz:
https://doaj.org/article/633460ab94c74c7ba9529694b90819e7
Autor:
Malachi Griffith, Obi L Griffith, Scott M Smith, Avinash Ramu, Matthew B Callaway, Anthony M Brummett, Michael J Kiwala, Adam C Coffman, Allison A Regier, Ben J Oberkfell, Gabriel E Sanderson, Thomas P Mooney, Nathaniel G Nutter, Edward A Belter, Feiyu Du, Robert L Long, Travis E Abbott, Ian T Ferguson, David L Morton, Mark M Burnett, James V Weible, Joshua B Peck, Adam Dukes, Joshua F McMichael, Justin T Lolofie, Brian R Derickson, Jasreet Hundal, Zachary L Skidmore, Benjamin J Ainscough, Nathan D Dees, William S Schierding, Cyriac Kandoth, Kyung H Kim, Charles Lu, Christopher C Harris, Nicole Maher, Christopher A Maher, Vincent J Magrini, Benjamin S Abbott, Ken Chen, Eric Clark, Indraniel Das, Xian Fan, Amy E Hawkins, Todd G Hepler, Todd N Wylie, Shawn M Leonard, William E Schroeder, Xiaoqi Shi, Lynn K Carmichael, Matthew R Weil, Richard W Wohlstadter, Gary Stiehr, Michael D McLellan, Craig S Pohl, Christopher A Miller, Daniel C Koboldt, Jason R Walker, James M Eldred, David E Larson, David J Dooling, Li Ding, Elaine R Mardis, Richard K Wilson
Publikováno v:
PLoS Computational Biology, Vol 11, Iss 7, p e1004274 (2015)
In this work, we present the Genome Modeling System (GMS), an analysis information management system capable of executing automated genome analysis pipelines at a massive scale. The GMS framework provides detailed tracking of samples and data coupled
Externí odkaz:
https://doaj.org/article/8bd43ecac4d44f7cbb8d1a284c28cdab
Autor:
Alexandra M Lopes, Kenneth I Aston, Emma Thompson, Filipa Carvalho, João Gonçalves, Ni Huang, Rune Matthiesen, Michiel J Noordam, Inés Quintela, Avinash Ramu, Catarina Seabra, Amy B Wilfert, Juncheng Dai, Jonathan M Downie, Susana Fernandes, Xuejiang Guo, Jiahao Sha, António Amorim, Alberto Barros, Angel Carracedo, Zhibin Hu, Matthew E Hurles, Sergey Moskovtsev, Carole Ober, Darius A Paduch, Joshua D Schiffman, Peter N Schlegel, Mário Sousa, Douglas T Carrell, Donald F Conrad
Publikováno v:
PLoS Genetics, Vol 9, Iss 3, p e1003349 (2013)
Gonadal failure, along with early pregnancy loss and perinatal death, may be an important filter that limits the propagation of harmful mutations in the human population. We hypothesized that men with spermatogenic impairment, a disease with unknown
Externí odkaz:
https://doaj.org/article/5383f18dc378453d957ccd91be808516
Autor:
Nicole B. Rockweiler, Avinash Ramu, Liina Nagirnaja, Wing H. Wong, Michiel J. Noordam, Casey W. Drubin, Ni Huang, Brian Miller, Ellen Z. Todres, Katinka A. Vigh-Conrad, Antonino Zito, Kerrin S. Small, Kristin G. Ardlie, Barak A. Cohen, Donald F. Conrad
Publikováno v:
Science. 380
Postzygotic mutations (PZMs) begin to accrue in the human genome immediately after fertilization, but how and when PZMs affect development and lifetime health remain unclear. To study the origins and functional consequences of PZMs, we generated a mu
Autor:
Matthew J. Ellis, Craig Lockhart, Elaine Mardis, Jing Han, Jeremy Hoog, Zhanfang Guo, Shana Thomas, Gayathri Nagaraj, Timothy Pluard, Lee Trani, Avinash Ramu, Nicholas C. Spies, Zachary L. Skidmore, Obi L. Griffith, Malachi Griffith, Rama Suresh, Foluso Ademuyiwa, Michael Naughton, Jingqin Luo, Cynthia X. Ma
Supplementary Fig. S2. Mutations in selected genes observed in this trial in contrast to that in COSMIC data
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::008137b9a94cccb34021fc5076d641dc
https://doi.org/10.1158/1078-0432.22458336.v1
https://doi.org/10.1158/1078-0432.22458336.v1
Autor:
Matthew J. Ellis, Craig Lockhart, Elaine Mardis, Jing Han, Jeremy Hoog, Zhanfang Guo, Shana Thomas, Gayathri Nagaraj, Timothy Pluard, Lee Trani, Avinash Ramu, Nicholas C. Spies, Zachary L. Skidmore, Obi L. Griffith, Malachi Griffith, Rama Suresh, Foluso Ademuyiwa, Michael Naughton, Jingqin Luo, Cynthia X. Ma
Supplementary Table S3. All observed coding mutations with detailed annotations
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::63a5e2093cf00cebc7f95b5be81b1416
https://doi.org/10.1158/1078-0432.22458327
https://doi.org/10.1158/1078-0432.22458327
Autor:
Matthew J. Ellis, Craig Lockhart, Elaine Mardis, Jing Han, Jeremy Hoog, Zhanfang Guo, Shana Thomas, Gayathri Nagaraj, Timothy Pluard, Lee Trani, Avinash Ramu, Nicholas C. Spies, Zachary L. Skidmore, Obi L. Griffith, Malachi Griffith, Rama Suresh, Foluso Ademuyiwa, Michael Naughton, Jingqin Luo, Cynthia X. Ma
Purpose: This trial was conducted to determine the maximum tolerated dose (MTD) and preliminary efficacy of buparlisib, an oral pan-class I PI3K inhibitor, plus fulvestrant in postmenopausal women with metastatic estrogen receptor positive (ER+) brea
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::1e05566e904a1cab873870852a1c7c3e
https://doi.org/10.1158/1078-0432.c.6523908
https://doi.org/10.1158/1078-0432.c.6523908