gencodegenes.wordpress.com
GencodeGenes – GencodeGenes
https://gencodegenes.wordpress.com/author/gencodegenes
We at GencodeGenes manually annotate all evidence-based genes and features on the entire human genome as part of the ENCODE project. Why do human and mouse gene counts change between GENCODE releases? ENCODE 2015: Research Applications and Users Meeting. A new version of the GENCODE gene set for the GRCh38 assembly. J Mudge and J. Harrow review 'The state of play in higher eukaryote gene annotation'. Nature Review Genetics goo.gl/eR7emF. GRC/GIAB workshop pm Oct 18th ow.ly/llWW3054387. September 13, 2016.
pseudogenes.com
psiCube
http://www.pseudogenes.com/psicube
Welcome to psiCube, the site for comparative analysis of pseudogene annotation, activity and evolution across human, worm and fly. Sisu et al. Comparative analysis of pseudogenes across three phyla. PNAS, 111(37):13361-6, 2014. A detailed description of the analysis on human pseudogenes from an earlier GENCODE version (version 7) can be seen in psiDr. Pseudogene annotation in human. At pseudogene loci of human, worm and fly. In multiple organisms including human, macaque, mouse, zebrafish, worm and fly.
biolektures.wordpress.com
Annotate: A Plugin for the Ion Torrent Browser | BioLektures
https://biolektures.wordpress.com/2011/12/29/annotate-a-plugin-for-the-ion-torrent-browser
This blog contains mainly bioinformatics analysis and discussion. Signal Processing – Room for improvements? Are MiSeq miscalls influenced by preceding homopolymers? Annotate: A Plugin for the Ion Torrent Browser. December 29, 2011. Novel versus Common Variants. Stored on the Torrent Server is ordered different to the dbSNP VCF file. From the GATK 1.2 resouce bundle. For this plugin, I have decided to index the VCF file using tabix. And call the variants outside the GATK framework. Functional Impact of N...
pseudogene.org
psiCube
http://pseudogene.org/psicube
Welcome to psiCube, the site for comparative analysis of pseudogene annotation, activity and evolution across human, worm and fly. Sisu et al. Comparative analysis of pseudogenes across three phyla. PNAS, 111(37):13361-6, 2014. A detailed description of the analysis on human pseudogenes from an earlier GENCODE version (version 7) can be seen in psiDr. Pseudogene annotation in human. At pseudogene loci of human, worm and fly. In multiple organisms including human, macaque, mouse, zebrafish, worm and fly.
gencodegenes.wordpress.com
GencodeGenes – Page 2 – a genome is only as good as its annotation
https://gencodegenes.wordpress.com/page/2
We at GencodeGenes manually annotate all evidence-based genes and features on the entire human genome as part of the ENCODE project. Why do human and mouse gene counts change between GENCODE releases? ENCODE 2015: Research Applications and Users Meeting. A new version of the GENCODE gene set for the GRCh38 assembly. J Mudge and J. Harrow review 'The state of play in higher eukaryote gene annotation'. Nature Review Genetics goo.gl/eR7emF. GRC/GIAB workshop pm Oct 18th ow.ly/llWW3054387. May 27, 2015.
vega.sanger.ac.uk
Mus musculus - Vega Genome Browser 65
http://vega.sanger.ac.uk/Mus_musculus/Info/Index
Ensembl search all species. Ensembl search this species. Click on a chromosome to browse:. Indicate the approximate positions of the Idd. Annotated in different strains. Shading indicates the karyotype bands and unannotated regions. M10; Ensembl 85 genebuild. Go to Ensembl Mouse homepage. IDD Regions and Strains. Candidate Insulin dependent diabetes ( Idd. Of these regions in the different strains. Gene set presents updates to annotation outside of the regular release schedule. List of updated genes.
vega.sanger.ac.uk
Homo sapiens - Vega Genome Browser 65
http://vega.sanger.ac.uk/Homo_sapiens/Info/Index
Ensembl search all species. Ensembl search this species. Click on a chromosome to browse:. Shading indicates the karyotype bands. 25; Ensembl 85 genebuild. Complete first pass Manual Annotation. Go to Ensembl Human homepage. Additional MHC and LRC Haplotypes. Available species / haplotypes / strains. Rat, dog, chimpanzee, gorilla, human (ref. plus 7 haplotypes), mouse (ref. plus 2 NOD strains), pig (Duroc and Large White), rat (mixed sex strain), tasmanian devil, wallaby. X: human, mouse and pig.
geuvadiswiki.crg.es
Basic miRNA analyses - Geuvadis MediaWiki
http://geuvadiswiki.crg.es/index.php/Basic_miRNA_analyses
This is a brief description at of the miRNA analyses which can be downloaded from ftp:/ ftp-private.ebi.ac.uk/upload/geuvadis/wp4 rnaseq/main project/analysis data/mirna/. The analyses were performed by the CRG SMARTAR (small RNA transcriptome analyzer) pipeline. To ensure that all sRNA datasets are comparable, datasets with read lengths longer than 36 nts were trimmed using the FASTX suite from the Greg Hannon lab ( http:/ hannonlab.cshl.edu/fastx toolkit/. A custom file with clade-specific miRNAs was g...
gencodegenes.wordpress.com
A new version of the GENCODE gene set for the GRCh38 assembly – GencodeGenes
https://gencodegenes.wordpress.com/2014/08/06/a-new-version-of-the-gencode-gene-set-for-the-grch38-assembly
We at GencodeGenes manually annotate all evidence-based genes and features on the entire human genome as part of the ENCODE project. Why do human and mouse gene counts change between GENCODE releases? ENCODE 2015: Research Applications and Users Meeting. A new version of the GENCODE gene set for the GRCh38 assembly. J Mudge and J. Harrow review 'The state of play in higher eukaryote gene annotation'. Nature Review Genetics goo.gl/eR7emF. GRC/GIAB workshop pm Oct 18th ow.ly/llWW3054387. August 6, 2014.
SOCIAL ENGAGEMENT