Results 111 to 120 of about 28,777,576 (349)

MetaWRAP—a flexible pipeline for genome-resolved metagenomic data analysis

Microbiome, 2018
The study of microbiomes using whole-metagenome shotgun sequencing enables the analysis of uncultivated microbial populations that may have important roles in their environments. Extracting individual draft genomes (bins) facilitates metagenomic analysis
G. Uritskiy, J. DiRuggiero, James Taylor
semanticscholar   +1 more source

Colorectal cancer‐derived FGF19 is a metabolically active serum biomarker that exerts enteroendocrine effects on mouse liver

Molecular Oncology, Volume 20, Issue 6, Page 1494-1512, June 2026.
Meta‐transcriptome analysis identified FGF19 as a peptide enteroendocrine hormone associated with colorectal cancer prognosis. In vivo xenograft models showed release of FGF19 into the blood at levels that correlated with tumor volumes. Tumoral‐FGF19 altered murine liver metabolism through FGFR4, thereby reducing bile acid synthesis and increasing ...
Jordan M. Beardsley, Michael W. Rohr, Joseph A. Goode, Sai Preethi Nakkina, Jignesh G. Parikh, Deborah A. Altomare   +5 more
wiley   +1 more source

Improved Draft Genome Sequence of Microbacterium sp. Strain LKL04, a Bacterial Endophyte Associated with Switchgrass Plants. [PDF]

, 2019
We report here the genome assembly and analysis of Microbacterium strain sp. LKL04, a Gram-positive bacterial endophyte isolated from switchgrass plants (Panicum virgatum) grown on a reclaimed coal-mining site.
Bokros, Norbert, DeBolt, Seth, Kyrpides, Nikos C, Sahib, Mohammad Radhi, Shapiro, Nicole, Woyke, Tanja, Xia, Ye, Yang, Piao   +7 more
core   +1 more source

Statistical analysis of simple repeats in the human genome

, 2005
The human genome contains repetitive DNA at different level of sequence length, number and dispersion. Highly repetitive DNA is particularly rich in homo-- and di--nucleotide repeats, while middle repetitive DNA is rich of families of interspersed ...
Batzer, Bhattacharyya, Bois, Brukner, Chingfer, Coté, Deepali, Deininger, Deininger, Dermitazakis, Dieringer, Englander, Eyre-Walker, Force, Fransz, Fryxell, Glusman, Han, Herzel, Holste, Iyer, Johanning, Kazazian, Lai, Li, Lillo, Lio, Lynch, Lynch, Lynch, Mantegna, Nelson, Roy-Engel, Scott, Umar, Wagner, Wagner, Wassermann, Weiner   +38 more
core   +1 more source

NCBI prokaryotic genome annotation pipeline

Nucleic Acids Research, 2016
Recent technological advances have opened unprecedented opportunities for large-scale sequencing and analysis of populations of pathogenic species in disease outbreaks, as well as for large-scale diversity studies aimed at expanding our knowledge across ...
T. Tatusova, Michael DiCuccio, Azat Badretdin, V. Chetvernin, Eric P. Nawrocki, L. Zaslavsky, A. Lomsadze, K. Pruitt, M. Borodovsky, J. Ostell   +9 more
semanticscholar   +1 more source

Identification of serum protein biomarkers for pre‐cancerous lesions associated with pancreatic ductal adenocarcinoma

Molecular Oncology, Volume 20, Issue 6, Page 1473-1493, June 2026.
This work identified serum proteins associated with pancreatic epithelial neoplasms (PanINs) and early‐stage PDAC. Proteomics screens assessed genetically engineered mice with abundant PanINs, KPC mice (Lox‐STOP‐Lox‐KrasG12D/+ Lox‐STOP‐Lox‐Trp53R172H/+ Pdx1‐Cre) before PDAC development and also early‐stage PDAC patients (n = 31), compared to benign ...
Hannah Mearns, Jaclyn S. Long, Sergio Lilla, Kelly Hodge, Marcus J. G. W. Ladds, Colin Nixon, Paula Fernández‐Palanca, Sara Zanivan, Pilar Acedo, Stephen P. Pereira, Kevin M. Ryan   +10 more
wiley   +1 more source

Galaxy: a platform for interactive large-scale genome analysis.

Genome Research, 2005
Accessing and analyzing the exponentially expanding genomic sequence and functional data pose a challenge for biomedical researchers. Here we describe an interactive system, Galaxy, that combines the power of existing genome annotation databases with a ...
B. Giardine, C. Riemer, R. Hardison, Richard Burhans, L. Elnitski, P. Shah, Yi Zhang, Daniel J. Blankenberg, I. Albert, James Taylor, W. Miller, W. Kent, A. Nekrutenko   +12 more
semanticscholar   +1 more source

Subtype‐specific enhancer RNAs define transcriptional regulators and prognosis in breast cancers

Molecular Oncology, EarlyView.
This study employed machine learning methodologies to perform the subtype‐specific classification of RNA‐seq data sets, which are mapped on enhancers from TCGA‐derived breast cancer patients. Their integration with gene expression (referred to as ProxCReAM eRNAs) and chromatin accessibility profiles has the potential to identify lineage‐specific and ...
Aamena Y. Patel, Peyman Zarrineh, Nathnael T. Tuffa, Jigar H. Sheth, Sumitra Mohan, Mudassar Iqbal, Sankari Nagarajan   +6 more
wiley   +1 more source

Epithelial-mesenchymal transition markers screened in a cell-based model and validated in lung adenocarcinoma

BMC Cancer, 2019
Background Re-capture of the differences between tumor and normal tissues observed at the patient level in cell cultures and animal models is critical for applications of these cancer-related differences.
Jing Song, Wenqing Wang, Yingyan Wang, Yongxin Qin, Yingzi Wang, Jian Zhou, Xuelian Wang, Yi Zhang, Qi Wang   +8 more
doaj   +1 more source

Genome-wide study of association and interaction with maternal cytomegalovirus infection suggests new schizophrenia loci. [PDF]

, 2013
Genetic and environmental components as well as their interaction contribute to the risk of schizophrenia, making it highly relevant to include environmental factors in genetic studies of schizophrenia.
A D Børglum, A Hedemand, A Ludwig, A Miyashita, A Terracciano, A Uitterlinden, AC Need, AC Ravanpay, AD Skol, AG Cardno, AR Fisher, AR Morgan, AS Brown, AS Brown, AS Yap, B Janssens, B Nørgaard-Pedersen, B Xu, BH Shirts, BJ Fredette, BM Gumbiner, BM Neale, BM Neale, C B Pedersen, C Ciatto, C Wiuf, CB Pedersen, CE Murcray, CM Nievergelt, D Demontis, D Demontis, D M Hougaard, D Moreno-De-Luca, DB Boivin, GR Abecasis, H Le-Niculescu, H Stefansson, H Stefansson, HA Mansour, HA Mansour, HC So, I Sousa, J Grove, J Lasky-Su, J Majercak, J Novembre, J Pallesen, J Shi, J van Os, J Yang, JA Embil, JE Buizer-Voskamp, JJ Kim, K Wang, K Wulff, K Zhou, KH Baratz, KP Lesch, L Athanasiu, LN Moens, M Didriksen, M M Nöthen, M Mattheisen, M Nordentoft, M Nyegaard, M Nyegaard, M Rietschel, M Rietschel, M Scholz, M Takeichi, M Takeichi, M V Hollegaard, ML Rao, MS Keshavan, MV Hollegaard, N Cermakian, N Patterson, O Mors, O Mors, P B Mortensen, PA Holmans, PB Mortensen, PF Sullivan, R A Ophoff, R H Yolken, R Steinberg, RL Schelonka, S Cichon, S Purcell, S Ripke, S Steinberg, SA Riazuddin, SA Staras, SH Lee, SJ Sanders, SL Buka, SL Buka, SM Purcell, T Miyoshi, T Takeuchi, T Ørntoft, TJ Crow, TL Edwards, V Busby, V Soria, VR Sobrado, X Liang, Y Adachi, Y Li   +108 more
core   +4 more sources