Results 41 to 50 of about 99,235 (279)

A Powerful New Quantitative Genetics Platform, Combining Caenorhabditis elegans High-Throughput Fitness Assays with a Large Collection of Recombinant Strains. [PDF]

, 2015
The genetic variants underlying complex traits are often elusive even in powerful model organisms such as Caenorhabditis elegans with controlled genetic backgrounds and environmental conditions.
Andersen, Erik C, Bloom, Joshua S, Crissman, Jonathan R, Gerke, Justin P, Ghosh, Rajarshi, Kruglyak, Leonid, Seidel, Hannah S, Shimko, Tyler C   +7 more
core   +2 more sources

Is It Ordered Correctly? Validating Genome Assemblies by Optical Mapping [PDF]

The Plant Cell, 2017
Long-read single-molecule sequencing, Hi-C sequencing, and improved bioinformatic tools are ushering in an era where complete genome assembly will become common for species with few or no classical genetic resources. There are no guidelines for how to proceed in such cases.
Joshua A. Udall, R. Kelly Dawe
openaire   +2 more sources

Large Chromosomal Rearrangements during a Long-Term Evolution Experiment with Escherichia coli

mBio, 2014
Large-scale rearrangements may be important in evolution because they can alter chromosome organization and gene expression in ways not possible through point mutations.
Colin Raeside, Joël Gaffé, Daniel E. Deatherage, Olivier Tenaillon, Adam M. Briska, Ryan N. Ptashkin, Stéphane Cruveiller, Claudine Médigue, Richard E. Lenski, Jeffrey E. Barrick, Dominique Schneider   +10 more
doaj   +1 more source

Construction of two whole genome radiation hybrid panels for dromedary (Camelus dromedarius): 5000RAD and 15000RAD [PDF]

, 2018
The availability of genomic resources including linkage information for camelids has been very limited. Here, we describe the construction of a set of two radiation hybrid (RH) panels (5000RAD and 15000RAD) for the dromedary (Camelus dromedarius) as a ...
Alshanbari, F, Brooks, S A, Burger, P A, Gaggl, A, Holl, H M, Larkin, D M, Perelman, P L, Periasamy, K, Pichler, R, Raudsepp, T   +9 more
core   +3 more sources

Analysis of Brachypodium genomes with genome-wide optical maps

Genome, 2018
Brachypodium distachyon (n = 5) is a diploid and has been widely used as a genetic model. Brachypodium stacei (n = 10) and B. hybridum (n = 15) are species that are related to B. distachyon, leading to an hypothesis that they are part of a polyploid series based on x = 5. Several lines of evidence suggest that this hypothesis is incorrect and that the
Zhu, Tingting, Hu, Zhaorong, Rodriguez, Juan C., Deal, Karin R., Dvorak, Jan, Vogel, John P, Liu, Zhiyong, Luo, Ming-Cheng   +7 more
openaire   +3 more sources

Pericentromeric heterochromatin is hierarchically organized and spatially contacts H3K9me2 islands in euchromatin. [PDF]

, 2020
Membraneless pericentromeric heterochromatin (PCH) domains play vital roles in chromosome dynamics and genome stability. However, our current understanding of 3D genome organization does not include PCH domains because of technical challenges associated ...
Acevedo, David, Beliveau, Brian, Cavalli, Giacomo, KARPEN, Gary H., Lee, Yuh, Martins, Nuno, Ogiyama, Yuki, Wu, C-Ting   +7 more
core   +3 more sources

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

SOAP3-dp: Fast, Accurate and Sensitive GPU-based Short Read Aligner [PDF]

, 2013
To tackle the exponentially increasing throughput of Next-Generation Sequencing (NGS), most of the existing short-read aligners can be configured to favor speed in trade of accuracy and sensitivity. SOAP3-dp, through leveraging the computational power of
Chang Yu, Chi-Man Liu, David W Cheung, Edward Wu, Haoxiang Lin, Hing-Fung Ting, Jianqiao Zhu, Lap-Kei Lee, Ruibang Luo, Ruiqiang Li, Shaoliang Peng, Siu-Ming Yiu, Tak-Wah Lam, Thomas Wong, Wenjuan Zhu, Xiaoqian Zhu, Yingrui Li   +16 more
core   +6 more sources

Targeted modulation of IGFL2‐AS1 reveals its translational potential in cervical adenocarcinoma

Molecular Oncology, EarlyView.
Cervical adenocarcinoma patients face worse outcomes than squamous cell carcinoma counterparts despite similar treatment. The identification of IGFL2‐AS1's differential expression provides a molecular basis for distinguishing these histotypes, paving the way for personalized therapies and improved survival in vulnerable populations globally.
Ricardo Cesar Cintra, Lucca Paolo Hsu Helmich, Daniel Rodrigues de Bastos, Laura Sichero, Patrícia Savio de Araujo‐Souza, Fabio Passetti, Luisa Lina Villa   +6 more
wiley   +1 more source

Chromosome-scale assembly and annotation of the perennial ryegrass genome

BMC Genomics, 2022
Background The availability of chromosome-scale genome assemblies is fundamentally important to advance genetics and breeding in crops, as well as for evolutionary and comparative genomics.
Istvan Nagy, Elisabeth Veeckman, Chang Liu, Michiel Van Bel, Klaas Vandepoele, Christian Sig Jensen, Tom Ruttink, Torben Asp   +7 more
doaj   +1 more source