Results 71 to 80 of about 1,556,351 (302)

Adding resolution and dimensionality to comparative genomics: moving from reference genomes to clade genomics

Genome Biology, 2018
The main goal and promise of comparative genomics has been to create a comprehensive catalog of genomic information and function across the phenomenal diversity of living systems.
Jeffrey Rogers
doaj   +1 more source

Genome sequencing of the extinct Eurasian wild aurochs, Bos primigenius, illuminates the phylogeography and evolution of cattle [PDF]

, 2015
Background Domestication of the now-extinct wild aurochs, Bos primigenius, gave rise to the two major domestic extant cattle taxa, B. taurus and B. indicus.
A Achilli, A Achilli, A Esteve-Codina, A Gotherstrom, A Seguin-Orlando, A Vaysse, A Winter, AE Minoche, AJ Amaral, Alison Murphy, Amanda J. Lohan, Andrew T. Chamberlain, AV Zimin, B Grisart, B Grisart, BP Lewis, Brendan J. Loftus, C Gamba, C Glaser, Ceiridwen J. Edwards, CG Elsik, Charles Spillane, CJ Edwards, CJ Edwards, CJ Edwards, CJ Rubin, CJ Stevens, CM Leu, CS Troy, D Reich, Daniel G. Bradley, David A. Magee, David E. MacHugh, DE MacHugh, DG Bradley, DM Larkin, DP Toews, E Palkopoulou, E Svensson, EJ McTavish, EY Durand, H Jonsson, H Jonsson, H Li, H Zhang, HD Daetwyler, J Clutton-Brock, J Diamond, J Kantanen, J Lenstra, J Schibler, JA Guerra-Assuncao, JD Vigne, JE Decker, JK Pickrell, JK Pritchard, JS Pedersen, K Prufer, KA Moutou, Kévin Rue-Albrecht, L Orlando, L Perez-Pardal, LK Matukumalli, M Gautier, M Hofreiter, M Li, M Meyer, M Raghavan, M Rasmussen, M Schubert, MA DePristo, MA Greagg, MA Groenen, Mark T. Donoghue, Martin Braud, Matthew D. Teasdale, MJ Montague, N Murakami, N Patterson, NA Rosenberg, O Smith, Paul A. McGettigan, R Bollongino, R Chen, RA Gibbs, RE Green, RE Green, RH Meadow, RR Hudson, RT Loftus, S Bonfiglio, S Bonfiglio, S Bonfiglio, S Guindon, S Koks, S Paabo, S Qanbari, S Sawyer, Shuaishuai Tai, Stephen D E Park, Steven Schroeder, Tad S. Sonstegard, TH Lee, W McLaren, Y Benjamini, Yuan Liu   +105 more
core   +1 more source

Fetal Brain Tumor Harboring a Unique ROCK1::BRAF Fusion

Pediatric Blood &Cancer, EarlyView.
Marllon Cindra Sant'Ana, Mariana Maschietto, Daniela Paz Leal, Ricardo de Santos de Oliveira, Mayara Ferreira Euzébio, Antonio Carlos dos Santos, Luciano Neder, Carlos Alberto Scrideli, Elvis Terci Valera   +8 more
wiley   +1 more source

In vitro models of cancer‐associated fibroblast heterogeneity uncover subtype‐specific effects of CRISPR perturbations

Molecular Oncology, EarlyView.
Development of therapies targeting cancer‐associated fibroblasts (CAFs) necessitates preclinical model systems that faithfully represent CAF–tumor biology. We established an in vitro coculture system of patient‐derived pancreatic CAFs and tumor cell lines and demonstrated its recapitulation of primary CAF–tumor biology with single‐cell transcriptomics ...
Elysia Saputra, Shamsudheen Karuthedath Vellarikkal, Lixia Li, Hong Sun, Khoa Nguyen, Amber Montano, Suchitra Natarajan, Federica Piccioni, Alex Michael Tamburino, Xin Yu, Aleksandra Katarzyna Olow   +10 more
wiley   +1 more source

novoBreak: local assembly for breakpoint detection in cancer genomes. [PDF]

, 2017
We present novoBreak, a genome-wide local assembly algorithm that discovers somatic and germline structural variation breakpoints in whole-genome sequencing data.
Boutros, Paul, Chen, Junjie, Chen, Ken, Chen, Tenghui, Chong, Zechen, Ding, Li, Fan, Xian, Gao, Min, Lee, Anna Y, Ruan, Jue, Zhou, Wanding   +10 more
core  

Transcriptional network analysis of PTEN‐protein‐deficient prostate tumors reveals robust stromal reprogramming and signs of senescent paracrine communication

Molecular Oncology, EarlyView.
Combining PTEN protein assessment and transcriptomic profiling of prostate tumors, we uncovered a network enriched in senescence and extracellular matrix (ECM) programs associated with PTEN loss and conserved in a mouse model. We show that PTEN‐deficient cells trigger paracrine remodeling of the surrounding stroma and this information could help ...
Ivana Rondon‐Lorefice, Jose I. Lopez, Aitziber Ugalde‐Olano, Maite Zufiaurre, Ianire Astobiza, Natalia Martin‐Martin, Laura Bozal‐Basterra, Saioa Garcia‐Longarte, Amaia Zabala‐Letona, Sofia Rey, Aida Santos‐Martin, Miguel Unda, Ana Loizaga‐Iriarte, Mariona Graupera, Paolo Nuciforo, Arkaitz Carracedo, Isabel Mendizabal   +16 more
wiley   +1 more source

Genetic sex validation for sample tracking in next-generation sequencing clinical testing

BMC Research Notes
Objective Data from DNA genotyping via a 96-SNP panel in a study of 25,015 clinical samples were utilized for quality control and tracking of sample identity in a clinical sequencing network.
Jianhong Hu, Viktoriya Korchina, Hana Zouk, Maegan V. Harden, David Murdock, Alyssa Macbeth, Steven M. Harrison, Niall Lennon, Christie Kovar, Adithya Balasubramanian, Lan Zhang, Gauthami Chandanavelli, Divya Pasham, Robb Rowley, Ken Wiley, Maureen E. Smith, Adam Gordon, Gail P. Jarvik, Patrick Sleiman, Melissa A. Kelly, Harris T. Bland, Mullai Murugan, Eric Venner, Eric Boerwinkle, the eMERGE III consortium, Cynthia Prows, Lisa Mahanta, Heidi L. Rehm, Richard A. Gibbs, Donna M. Muzny   +29 more
doaj   +1 more source

Sequence-Based Mapping and Genome Editing Reveal Mutations in Stickleback Hps5 Cause Oculocutaneous Albinism and the casper Phenotype. [PDF]

, 2017
Here, we present and characterize the spontaneous X-linked recessive mutation casper, which causes oculocutaneous albinism in threespine sticklebacks (Gasterosteus aculeatus).
Hart, James C, Miller, Craig T
core   +2 more sources

Single cell genome sequencing [PDF]

Current Opinion in Biotechnology, 2012
Whole genome amplification and next-generation sequencing of single cells have become a powerful approach for studying uncultivated microorganisms that represent 90-99% of all environmental microbes. Single cell sequencing enables not only the identification of microbes but also linking of functions to species, a feat not achievable by metagenomic ...
Suzan, Yilmaz, Anup K, Singh
openaire   +2 more sources

PARP inhibition and pharmacological ascorbate demonstrate synergy in castration‐resistant prostate cancer

Molecular Oncology, EarlyView.
Pharmacologic ascorbate (vitamin C) increases ROS, disrupts cellular metabolism, and induces DNA damage in CRPC cells. These effects sensitize tumors to PARP inhibition, producing synergistic growth suppression with olaparib in vitro and significantly delayed tumor progression in vivo. Pyruvate rescue confirms ROS‐dependent activity.
Nicolas Gordon, Peter T. Gallagher, Orly I. Richter, Neermala Poudel Neupane, Amy C. Mandigo, Jennifer J. McCann, Emanuela Dylgjeri, Irina Vasilevskaya, Christopher McNair, Channing J. Paller, Wm. Kevin Kelly, Karen E. Knudsen, Matthew J. Schiewer, Ayesha A. Shafi   +13 more
wiley   +1 more source