Tip of the Week: Genome Variation Tour II

submitted by: OpenHelix

More information can be found here: http://blog.openhelix.eu/?p=4602 . This week's tip in 2nd part in a 5 part series of tips following one variation in an individual's genome across several databases and resources to find out what information we gather about the clinical association of that variation. This wee we look at dbSNP, VarView and OMIM.

Tip of the Week: The Cancer Genome Workbench

submitted by: OpenHelix

For more information about this resource, see our blog post at http://blog.openhelix.eu/?p=4520. The Cancer Genome Workbench gathers cancer information from a wide variety of projects and presents the cumulative data as high-level summary visualizations. With just a bit of acclimation, researchers can utilize this resource to further their understanding of cancer genomics.

OpenSciNY Open Notebook Science Talk

submitted by: jcbradley
On May 14, 2010 Jean-Claude Bradley presented on Open Notebook Science at the OpenSciNY conference at the New York University Library. He introduced the topic by telling a few stories about how new forms of communication are affecting how we think about concepts like "scientific precedent", "peer review", "scientific publishing" and "scientific scholarship". At the end he spoke about archiving Open Notebook Science projects culminating in the publication of the Reaction Attempts and ONS...

Tip of the Week: WAVe

submitted by: OpenHelix

A quick introduction to WAVe (Web Analysis of the Variome), a great tool that pulls in a wealth of information about human gene variation. For a more high-resolution version of this tip and more information about the resource, visit the OpenHelix blog.

Tip of the Week: Genomicus and genome evolution

submitted by: OpenHelix

A quick introduction to a genome evolution, syteny and gene duplication visualization tool. For a higher-resolution, http://blog.openhelix.eu/?p=3916

Peer Review and Science2.0

submitted by: jcbradley
Jean-Claude Bradley presents on "Peer Review and Science2.0: blogs, wikis and social networking sites" as a guest lecturer for the “Peer Review Culture in Scholarly Publication and Grantmaking” course at Drexel University. The main thrust of the presentation is that peer review alone is not capable of coping with the increasing flood of scientific information being generated and shared. Arguments are made to show that providing sufficient proof for scientific findings does scale and...

UPenn Library Open Notebook Science Talk Jan2010

submitted by: jcbradley
Jean-Claude Bradley presents "Open Notebook Science and other Science2.0 Approaches to Communicate Research" at the University of Pennsylvania Library on January 21, 2010. The introduction covers recent examples of where the sharing of laboratory notebook information in chemistry on the blogosphere has been key to resolving ambiguous results in the traditional literature. Other examples illustrate the inability to assess contradictory data in the literature simply because insufficient...

Cheminfo Retrieval Class 9th FA09

submitted by: jcbradley

A final overview of student assignments for the class, mainly about finding and reporting on sources of molecular properties.

Cheminfo Retrieval Class 8th FA09

submitted by: jcbradley
This is the lecture from the 8th Chemical Information Retrieval class at Drexel University on November 12, 2009. It starts with a demonstration of how to use of ChemSketch and Chemspider to display and manipulate chemical structures, especially those with complicated stereochemistry. Technical issues with using SMILES between the two platforms are addressed, as are optimization of 3D structures and inverting chiral centers. Microsoft Paint is used to process screen captures to images that...

Cheminfo Retrieval Class Six FA09

submitted by: jcbradley
This is the lecture from the sixth Chemical Information Retrieval class at Drexel University on October 29, 2009. It starts with a review of some of the new questions answered by students from the chemistry publishing FAQ, which covers patent information and accessing electronic journals at Drexel. Tony Williams submitted a puzzle to resolve conflicting structures in ChemSpider, which is too difficult to be a regular assignment. It requires re-analyzing spectroscopic data in papers where...