BioGPS: an extensible and customizable portal for querying and organizing gene annotation resources.
Chunlei Wu,Camilo Orozco,Jason Boyer,Marc Leglise,James Goodale,Serge Batalov,Christopher L Hodge,James Haase,Jeff Janes,Jon W. Huss,Andrew I. Su +10 more
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TLDR
BioGPS http://biogps.gnf.org is introduced, a centralized gene portal for aggregating distributed gene annotation resources, and embraces the principle of community intelligence, enabling any user to easily and directly contribute to the BioGPS platform.Abstract:
Online gene annotation resources are indispensable for analysis of genomics data. However, the landscape of these online resources is highly fragmented, and scientists often visit dozens of these sites for each gene in a candidate gene list. Here, we introduce BioGPS http://biogps.gnf.org, a centralized gene portal for aggregating distributed gene annotation resources. Moreover, BioGPS embraces the principle of community intelligence, enabling any user to easily and directly contribute to the BioGPS platform.read more
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Myostatin in relation to physical activity and dysglycaemia and its effect on energy metabolism in human skeletal muscle cells.
Marit Hjorth,Shirin Pourteymour,Sven W. Görgens,Torgrim Mikal Langleite,Torgrim Mikal Langleite,Sindre Lee,Torgeir Holen,Hanne L. Gulseth,Kåre I. Birkeland,Jørgen Arendt Jensen,Christian A. Drevon,Frode Norheim +11 more
TL;DR: The expression of myostatin in relation to exercise and dysglycaemia in skeletal muscle, adipose tissue and plasma is studied and some effects of hisostatin on energy metabolism in primary human muscle cells and Simpson–Golabi–Behmel syndrome (SGBS) adipocytes are examined.
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Survival kinase genes present prognostic significance in glioblastoma
TL;DR: Genes in the PI3K/AKT pathway showed a significantly strong correlation with recurrence rate, further highlighting the pivotal role of PIK3CB in the disease progression, and 17 SKGs together presented a novel GBM prognostic signature.
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Systems Genetic Analysis of Osteoblast-Lineage Cells
Gina M. Calabrese,Brian J. Bennett,Luz D. Orozco,Hyun Min Kang,Eleazar Eskin,Carlos Dombret,Olivier De Backer,Aldons J. Lusis,Charles R. Farber +8 more
TL;DR: A physiologically relevant gene network is identified and used to discover novel genes and regulatory mechanisms involved in the function of osteoblast-lineage cells through the reconstruction of a bone co-expression network using microarray profiles collected on 96 Hybrid Mouse Diversity Panel (HMDP) inbred strains.
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Characterization and functional study of a cluster of four highly conserved orphan adhesion-GPCR in mouse.
Simone Prömel,Simone Prömel,Helen Waller-Evans,John Dixon,Dirk Zahn,William H. Colledge,Joanne Doran,Mark B. L. Carlton,Johannes Grosse,Torsten Schöneberg,Andreas Russ,Tobias Langenhan,Tobias Langenhan +12 more
TL;DR: The genomic loci of these four receptors are clustered tightly together in mouse and human genomes and that this cluster likely derives from a single common ancestor gene, developing from one common ancestor in vertebrates.
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Impaired angiogenesis and tumor development by inhibition of the mitotic kinesin Eg5
Prisca Exertier,Sophie Javerzat,Baigang Wang,Mélanie Franco,John Herbert,Natalia Platonova,Marie Winandy,Nadège Pujol,Olivier Nivelles,Sandra Ormenese,Virginie Godard,Jürgen C. Becker,Roy Bicknell,Raphael Pineau,Jörg Wilting,Andreas Bikfalvi,Martin Hagedorn +16 more
TL;DR: Induction of Eg5 and four other mitotic kinesins including KIF20A/Mklp2 upon stimulation of in vivo angiogenesis with vascular endothelial growth factor-A (VEGF-A) and expression analyses indicate up-regulation of several kinesin-encoding genes predominantly in lymphoblasts and endothelial cells.
References
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TL;DR: An anatomically comprehensive digital atlas containing the expression patterns of ∼20,000 genes in the adult mouse brain is described, providing an open, primary data resource for a wide variety of further studies concerning brain organization and function.
Journal ArticleDOI
A gene atlas of the mouse and human protein-encoding transcriptomes
Andrew I. Su,Tim Wiltshire,Serge Batalov,Hilmar Lapp,Keith A. Ching,David Block,Jie Zhang,Richard Soden,Mimi Hayakawa,Gabriel Kreiman,Gabriel Kreiman,Michael P. Cooke,John R. Walker,John B. Hogenesch,John B. Hogenesch +14 more
TL;DR: In this paper, high-density oligonucleotide arrays offer the opportunity to examine patterns of gene expression on a genome scale, and the authors have designed custom arrays that interrogate the expression of the vast majority of proteinencoding human and mouse genes and have used them to profile a panel of 79 human and 61 mouse tissues.
Journal ArticleDOI
STRING 8—a global view on proteins and their functional interactions in 630 organisms
Lars Juhl Jensen,Michael Kuhn,Manuel Stark,Samuel Chaffron,Christopher J. Creevey,Jean Muller,T. Doerks,Philippe Julien,Alexander Roth,Milan Simonovic,Peer Bork,Christian von Mering +11 more
TL;DR: The most important new developments in STRING 8 over previous releases include a URL-based programming interface, improved interaction prediction via genomic neighborhood in prokaryotes, and the inclusion of protein structures.
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