'Ensembl' presentation slideshows

Ensembl

Ensembl. Steve Searle Joint project leader, Ensembl Genebuild team. Outline. Ensembl project overview Core database schema and API Pipeline Genomic annotation Comparative genomics Variation data Ensembl BioMart datamining db Making the data available. What is Ensembl? project aims.

1.43k views • 107 slides

The STRING database

The STRING database. Michael Kuhn EMBL Heidelberg. protein interactions. example. Tryptophan synthase beta chain E. Coli K12. many sources. genomic context. curated knowledge. experimental evidence. T. literature. 373 genomes. (only completely sequenced genomes). 1.5 million genes.

2.26k views • 103 slides

Database mining with biomaRt

Database mining with biomaRt. Steffen Durinck Illumina Inc. Overview. The BioMart software suite biomaRt package biomaRt installation biomaRt example queries to show the variety of different data types/questions that can be retrieved/answered for many organisms. BioMart 0.7.

841 views • 67 slides

Database mining with biomaRt

Database mining with biomaRt. Steffen Durinck Illumina Inc. Overview. The BioMart software suite biomaRt package biomaRt installation biomaRt example queries to show the variety of different data types/questions that can be retrieved/answered for many organisms. BioMart 0.7.

676 views • 67 slides

BioUML

BioUML. Fedor Kolpakov Institute of Systems Biology (spin-off of DevelopmentOnTheEdge.com) Laboratory of Bioinformatics, Design Technological Institute of Digital Techniques Novosibirsk, Russia. Main new features. Graphic Notation Editor SBGN implementation (prototype)

765 views • 57 slides

April 2006

651 views • 53 slides

How to access genomic information using Ensembl

597 views • 46 slides

Browsing Genomic Information with Ensembl Plants

535 views • 38 slides

Visualization of genomic data

Genome browsers. Visualization of genomic data. survey. How many have used a genome browser ? UCSC browser ? Ensembl browser ? Others ?. Genome browsers. Visualization of genomic data. Genome browsers Visualization of a gene. Flat files / tab files. >sequence

597 views • 35 slides

Ensembl

Ensembl. Genome Repository. Main Data Repositories. Ensembl- BLAST or BLAT UCSC - BLAT NCBI (Entrez) - BLAST Ensembl, NCBI, and UCSC use the same human genome assembly that is generated by NCBI. Ensembl. Provide automatic annotation of sequenced genomes Integrate with biological data

149 views • 13 slides

DAS and Ensembl The 7 year itch!

DAS and Ensembl The 7 year itch!. DAS and Ensembl The 7 year itch!. A brief history DAS ist gut Issues Some proposals. DAS & Ensembl a brief history. Ensembl was one of the earliest adopters for the DAS Protocol; Initially just a client;

266 views • 11 slides

Genomic Database - Ensembl

Genomic Database - Ensembl. Ka-Lok Ng Department of Bioinformatics Asia University. Ensembl http://www.ensembl.org/index.html Worked example The human protein single-stranded DNA binding protein 4, SSBP4. How can one find the mouse ortholog at Ensemble, without doing a BLAST search.

130 views • 4 slides