TCGA Pan-Cancer Analysis. Genomic alterations in diverse cell types at different sites in the body give rise to hundreds of different forms of cancer, and the ways in which these changes result in tumors with different biology, pathology and treatment strategies are beginning to be characterized.
The TCGA Research Network has catalogued aberrations in the DNA, chromatin and RNA of the genomes of thousands of tumors relative to matched normal cellular genomes and has analyzed their epigenetic and protein consequences. Here the Pan-Cancer initiative examines the similarities and differences among the genomic and cellular alterations found in the first dozen tumor types to be profiled by TCGA. Cell. English Communication for Scientists. MRC National Institute for Medical Research, London. Chronic Myeloid Leukemia Spotlight : Spotlight : Leukemia. Public Library of Bioinformatics. SEQanswers Home.
Biomarkers and Personalized Medicine. Life Sciences & Mathematics & Physical Sciences. Next-generation sequencing technologies are revolutionising genomics and their effects are becoming increasingly widespread.
Many tools and algorithms relevant to next-generation sequencing applications have been published in Bioinformatics, and so to celebrate this contribution we have gathered these together in this 'Bioinformatics for Next Generation Sequencing' virtual issue. This will be a living resource that we will continually update to include the very latest papers in this area to help researchers keep abreast of the latest developments.
OpenHelix Blog. Home. RHIPE: An Interface Between Hadoop and R for Large and Complex Data Analysis. Ron Fredericks writes: Dr.
Saptarshi Guha created an open-source interface between R and Hadoop called the R and Hadoop Integrated Processing Environment or RHIPE for short. LectureMaker was on the scene filming Saptarshi’s RHIPE presentation to the Bay Area’s useR Group, introduced by Michael E. Driscoll and hosted at Facebook’s Palo Alto office on March 9′th 2010. Special thanks to Jyotsna Paintal for helping me film the event. Saptarshi received his Ph.D from Purdue University in 2010, having been advised by Dr. Hadoop is an open source implementation of both the MapReduce programming model, and the underlying file system Google developed to support web scale data.The MapReduce programming model was designed by Google to enable a clean abstraction between large scale data analysis tasks and the underlying systems challenges involved in ensuring reliable large-scale computation. The RHIPE Video. Computational Biology Center. Web services for bioinformatics, Part 1.
Web services for life sciences The IBM alphaWorks article on web services for life sciences is an example set of web services that offers standard bioinformatics applications and demonstrates the technology (See Resources).
The project is written in Java and mainly acts as a wrapper around existing bioinformatics applications. It allows researchers to search through the web service and obtain output through XML documents and to view intermediate steps throughout the request. TikZ and PGF resources. A growing collection of links to various TikZ and PGF resources.
Various packages that extends or are built on top of TikZ and PGF. Beamer A LaTeX class for creating presentations. Written by the same author as PGF/TikZ. Mathematics part 2 - Getting to grips with LaTeX. By Andrew Roberts This tutorial builds on the basic foundations presented in the previous tutorial.
If you often include a lot of maths in your documents, then you will probably find that you wish to have slightly more control over presentation issues. Some of the topics covered make writing equations more complex - but who said typesetting mathematics was easy?! Adding text to equations I doubt it will be every day that you will need to include some text within an equation. There are two noticeable problems. There are a number of ways that text can be added properly. The text looks better. Formatted text Using the \mbox is fine and gets the basic result.
However, as is the case with LaTeX, there is more than one way to skin a cat! The maths formatting commands can be wrapped around the entire equation, and not just on the textual elements: they only format letters, numbers, and uppercase Greek, and the rest of the maths syntax is ignored. Changing text size of equations Looking better. Bioinformatics Organization - Bioinformatics.Org.
Bioinformatics Projects List. November 10: Provide an outline of your work, as well as a preliminary list of references; Develop your presentation skills.
The format of the projects is quite flexible. .NET Bio. Bioinformatics journal list.
Courses. Kevin Ahern's Wildly Popular Metabolic Melodies. I write the Metabolic Melodies and Verses for the BB100, BB 350, BB 450/550 and BB 451/551 classes I teach at Oregon State University.
You can download full recordings of my songs for free here. If you'd like to watch my lectures featuring these songs, you can select from collections of them HERE, HERE, and HERE. Some recent press the Metabolic Melodies have gotten is HERE and HERE. Note - If you're looking for other DaVinci Press offerings, you'll find them HERE "Biochemistry Free and Easy" is a textbook for the iPad co-written with my wife, Indira Rajagopal. "Kevin and Indira's Guide to Getting Into Medical School" is a book I co-wrote with Indira. "A Limerick a Day For a Year" is a collection of limericks I wrote in 2012 (samples HERE).
I love to hear from fans of all of these efforts. Latest / Greatest Metabolic Melodies Kevin's Sweet SixteenI am sometimes asked about my favorite lyrics. BB 350 Oregon State University. Schedule for BB 350 Ecampus (Note - this is the page for the ECAMPUS version of BB 350.
The CLASSROOM version is different and should not be used by CLASSROOM students, nor should the ECAMPUS version be used by CLASSROOM students) The syllabus is required reading in this course. Download it HERE.
Programming. Source Code for Biology and Medicine. Tools. A question and answer site for bioinformatics. Online Lectures on Bioinformatics. Bioinformatics.ca - Canadian Bioinformatics Workshops (CBW) MCL - a cluster algorithm for graphs.