Monthly Archives: May 2014

Tinkering With Semantic Markup

One of the key challenges for bioinformaticians in this age is extracting meaningful findings from abstracts and full text articles. Text mining solutions can only take it so far, and previous comparative studies have shown that Amazon Mechanical Turk solutions and … Continue reading

Posted in Bioinformatics, Cancer Research, Drug Development, Informatics, Science Blogging, Semantic Web | Leave a comment

Advanced PubMed Searching

In previous postings (listed at the bottom of the article), I described some of the advanced features in PubMed that you can use to quickly narrow the field of your search in PubMed.  Recently I started working on some updates … Continue reading

Posted in Bioinformatics, Informatics | Tagged , | Leave a comment

Assessing Credibility Via Reproducibility

In my previous post on Assessing Credibility in Scientific Research, I described several ways that credibility might be tracked with respect to a paper and the methods and materials used. William Gunn at Mendeley, recently pointed me to a project that … Continue reading

Posted in Informatics, Science Blogging | Tagged | Leave a comment

More Chrome Search Engines

In a previous post, I described how you could configure the Google Chrome browser to make searching simple.  For example, if you wanted to search PubMed you would simply type PubMed, press the Tab key, and enter your search query. … Continue reading

Posted in Bioinformatics, Informatics | Tagged , , | Leave a comment

KNIME and Cheminformatics: A Peek Behind The Curtain

Part of what makes user group meetings so interesting is getting the opportunity to peek behind the curtains and see someone else’s operation.  In last night’s, KNIME user group meeting, Brock Luty of Dart NeuroScience gave an interesting perspective on … Continue reading

Posted in Drug Development, Informatics, Science Blogging | Tagged , , | Leave a comment

SwissModel: It’s not what you think

One of the things that I’m always curious about, is the effect of a sequence variation on the conformation of a target.  Recently I wrote about ClinVar and SwissVar, two tools for examining variants and their associations with disease.  Since … Continue reading

Posted in Bioinformatics, Drug Development, Informatics, Science Blogging | Tagged , , , | Leave a comment

Reproducibility and Provenance

One of the key problems with reproducibility in scientific research is understanding and preserving the provenance of the data, and any digital methods used to turn raw data into actionable information. The following paper recently appeared in PLoS Computational Biology … Continue reading

Posted in Bioinformatics, Informatics, Science Blogging | Tagged , , , , | Leave a comment