linkstream2 microblog

This is the URL for ccle with WGS data:

https://cghub.ucsc.edu/datasets/ccle.html

They have an XML describe all the datasets and there are WGS as well. (This should be publicly available WGS.)

QT:{{”

The Cancer Cell Line Encyclopedia (CCLE) project is a collaboration between the Broad Institute, the Novartis Institutes for Biomedical Research, and the Genomics Institute of the Novartis Research Foundation. CCLE will conduct a detailed genetic and pharmacologic characterization of a large panel of human cancer models, develop an integrated computational analyses that link distinct pharmacologic vulnerabilities to genomic patterns and translate cell line
integrative genomics into cancer patient stratification. The CCLE provides public access to genomic data, analysis and visualization for about 1000 cell lines.

NOTE: these data sets do NOT require any special access or authorization status. However, you will need to use the public access token/key URL, or your secure key file that you may have downloaded for projects like TCGA that use a secure key file.

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http://tcga.github.io/
http://tcga.github.io/Roadmap

http://www.software.ac.uk/blog/2013-09-02-encouraging-citation-software-introducing-citation-files

Comprehensive list

http://www.sciencemag.org/site/feature/data/compsci/machine_learning.xhtml

I list below a number of courses that I think should be
included/excluded from the undergrad bioinformatics program. This is based on a discussion with a student who did an undergraduate double major in CS and Biology.

The courses that I think essential for the program are:

– Algorithms, Data structures, Cell & Molecular biology, and Genetics

The courses that I think should be included in the program are:

– Discrete mathematics, Algorithms on strings, Computational complexity, Statistics, Data mining and Databases, Machine Learning, Biochemistry, Unix/Linux operating system, Scripting Languages (Perl and/or Python), and Scientific writing

The courses that I think might less important are:

– Computer architecture, Compiler theory, Circuit design, Inorganic chemistry, and Chemical engineering

Curious to get people’s thoughts on this. Feel free to comment or email me (http://contact.gerstein.info).

I list below a number of courses that I think should be
included/excluded from the undergrad bioinformatics program. This is based on a discussion with a student who did an undergraduate double major in CS and Biology.

The courses that I think essential for the program are:

-Algorithms, Data structure, Cell and Molecular biology, and Genetics

The courses that I think should be included in the program are:

-Discrete mathematics, Algorithms on strings, Computational
complexity, Statistics, Data mining and Databases, Machine Learning, Biochemistry, Unix/Linux operating system, Scripting Languages (Perl and/or Python), and Scientific wirtting

The courses that I think might less important are:

-Computer architecture, Compiler theory, Circuit design, Inorganic chemistry, and Chemical engineering

Curious to get people’s thoughts on this. Feel free to comment or email me.

https://gsbs.uth.edu/current-students/academics/course-requirements/program-course-requirements/biomathematics-and-biostatistics also, for a general requirement:
https://gsbs.uth.edu/current-students/academics/course-requirements/area-course-requirements

IBIOS Bioinformatics and Genomics Program – PhD in bioinformatics at PSU http://www.huck.psu.edu/education/bioinformatics-and-genomics

undergrad program in bioinformatics
http://www.vit.ac.in/sbst/btech_bioinfo.asp
Vellore undergrad program in bioinformatics

http://www.1000genomes.org/faq/there-any-gene-expression-data-available-1000-genomes-project-samples