OpenSciInfo

Welcome to the Gene Wiki portal. This portal is dedicated to the goal of applying community intelligence to the annotation of gene and protein function. The Gene Wiki is an informal collection of pages on human genes and proteins, and this effort to develop these pages is tightly coordinated with the Molecular and Cellular Biology Wikiproject. Our specific aims are summarized as follows: * To provide a well written and informative Wikipedia article for every notable human gene * To invite participation by interested lay editors, students, professionals, and academics from around the world * To integrate Gene Wiki articles with existing Wikipedia content through the use of internal wiki links increasing the value of both Please browse around the Gene Wiki, make an edit to your favorite gene page, and feel free to ask questions!

Welcome to the NIH WikiProject, a collaboration area and group of editors dedicated to improving Wikipedia's coverage of National Institutes of Health. This is a new WikiProject, so please join!! (For more information on WikiProjects, please see Wikipedia:WikiProject and the Guide to WikiProjects). Goals * Improve Wikipedia's current coverage of the NIH and deepen the coverage with more pages. Scope * Cover all of the Institutes all the way down to individual laboratories/units.

Our community guide allows you to set up your own MPI (Message Passing Interface) based supercomputer cluster with the Playstation 3. This guide was co-written by Gaurav Khanna, based on his previous work on the Gravity Grid and is a current run-time environment for the research of co-author (Chris Poulin), based on his current work in distributed pattern recognition. As such, we currently utilize the Fedora Core for this infrastructure and illustrate a "how-to" below. NOTE: We focus on the Fedora 8 distribution, due to prevalence of Fedora and its Cell SDK (3.0) compatibility. Finally, this content should be considered open source, and here is the license.

We build here a repository of assembled transcript sequences from the contigation (Expressed Sequence Tag (known as EST) & mRNA) in order to discover new genes from already existing data. Publicly available EST & mRNA sequences are clusterised and then contigated with specific bioinformatic tools (see technology).

The presentation provides an overview of some of the challenges the publishers face moving forward, how they are responding to it, how InChI is an enabling technology, how quality is important.

These Web Services can be used to create applications on Molecules and their Properties. Details of the Web Services can be found here. If you are new to using these Web Services, please take a few minutes to read the instructions here.

This package contains code for use with Short Read DNA Sequencing technologies, and includes packages for ChIP-Seq, Whole Transcriptome Shotgun Sequencing, Whole Genome Shotgun Sequencing, SNP Detection, Transcript expression and file conversion.

This package of tools encompasses many of the common pieces of software required for the analysis of short read sequences produced by the Second Generation DNA sequencing machines. (eg. Illumina/Solexa sequencers, ABI SOLiD and 454). The focus of this project is on post-alignment analysis, thus the input for this process should be the files produced by sequence aligners such as MAQ, Eland or Exonerate. The output should be provided in several formats, including BED and WIG files which are readable by the UCSC Genome Browser.

To establish a method of measuring the solubility of some compounds in organic solvents. For a justification of this project see here.

The BioInfoBank Meta Server offers a gateway to well-benchmarked protein structure and function prediction methods. Structural models collected from the prediction servers are assessed using the powerful 3D-jury consensus approach.

With the following three steps, you can set up a Disco cluster in the Amazon's Elastic Computing Cloud. This will cost you a few dollars (or more, depending on your needs) but requires no resources on your side besides a single machine that you use to setup the cluster. In this setup Disco master and nodes run on EC2. Your Disco client can run either on the master node on EC2 or on a local machine.

This blog exposes and debunks the lies of young earth creationism and their false beliefs on dinosaurs.

A Knoppix / Debian variant tailored to numerical and quantitative analysis.

This semantic wiki at OpenResearch.org aims at making the world of science more visible and accessible. Everybody can add his favorite events (e.g. conferences and workshops), co-workers, tools / datasets, community fora or journals. Pooled together these pieces of information constitute a vast knowledge base about who and what moves science forward.

I was one of the lucky few who was given access to a dump of "social" statistics for PLoS One (my term). The data were given to us to analyze as we please, to glean from them what we may (I don't really know who all the others were).

WikiGenes is the first wiki system to combine the collaborative and largely altruistic possibilities of wikis with explicit authorship. In view of the extraordinary success of Wikipedia there remains no doubt about the potential of collaborative publishing, yet its adoption in science has been limited. Here I discuss a dynamic collaborative knowledge base for the life sciences that provides authors with due credit and that can evolve via continual revision and traditional peer review into a rigorous scientific

his meeting was about "Making the Web Work for Science and the Impact of e-Science and the Cyberinfrastructure." I provided an overview of how access to information has changed over the past 20 years for me. I talked about the challenges for publishers serving the chemistry community and how their business models are being challenged and how I empathize with the struggle to figure out how to deal with it. I talked about quality and how care must be taken when using information online. We are ALL challenged with errors - whether you consider PubChem, ChemSpider, Wikipedia or any of the other online databases they all have errors - how do you find them? Some of them are obvious and I pointed to obvious examples in the talk. I hoped to educate the attendees in regards to the value of InChI which, while not a perfect fit yet, is a great start to structure-based communication of chemistry. I publicly blessed the efforts of publishers such as the RSC and Nature Publishing group for the efforts they are making to support InChI and improve the quality of document presentation online. I blessed CAS as a treasure trove of information and the gold standard of curated chemistry. We need them all to be successful for the sake of our science. The challenge is how to fit into the ongoing proliferation of free access to information without modifying the business models.

FindPeaks 3.1: a tool for identifying areas of enrichment from massively parallel short-read sequencing technology