Tagged: bioinformatics

Nature’s reproducibility effort: when to get data specialists on board - Code for life

Grant Jacobs Apr 27, 2013

Scientific magazine Nature has announced an initiative to aimed at aiding the reproducibility of biological research papers. They’re planning to expand the methods section to cater for this, introducing a checklist and offering a Protocol Exchange site. I’d like to draw attention to one point ArsTechnica’s coverage of this development noted that has wider … Read More

Epigenetic dynamics – free - Code for life

Grant Jacobs Mar 15, 2013

Those with interests in epigenetics and genome structure may want to check out Nature Structural and Molecular Biology’s focus on epigenetic dynamics. (This gives me an opportunity to briefly sound off on a favourite topic…) One fascinating development over the past few years has been explorations of the three-dimensional nature of genomes, how they are … Read More

Structured procrastination, 2 Dec 2012 - Code for life

Grant Jacobs Dec 03, 2012

Another edition of my irregular structured procrastination reading lists - have fun exploring these. (Geekier ones nearer the end.) Sci-fi movie Geneticist Ricki Lewis offers a review of Jim, which she says is more compelling than GATTACA. The movie can be viewed on-line. (If you watch it, let me know what you think.) … Read More

Sea stars and mosaics - Code for life

Grant Jacobs Nov 29, 2012

At first you wonder if this sea star is real. It looks more like a kid’s geometric doodle from a distracted afternoon at school than an animal.[1] [caption id="attachment_10195" align="aligncenter" width="640"] Click on image for source; Creative Commons Attribution-Noncommercial-Share Alike 3.0 license[/caption] The World Asteriodea Database indicates Iconaster longimanus was first described in 1859. (The … Read More

All together now: high-throughput sequence mapping tool compendium - Code for life

Grant Jacobs Oct 16, 2012

Biologists and bioinformatics people interested in high-throughput (HTS) mapping may find this this one-page summary of all currently-available HTS mapping tools useful. The comparison table of the different features of each mapping tools will certainly beat having to dig this information out of the papers or on-line documentation. There’s also a timeline of when the methods first appeared. DNA, RNA, miRNA … Read More

One example of why all those genomes from different species are useful to biologists - Code for life

Grant Jacobs Oct 14, 2012

In this video scientists give an example of how knowing the genomes and biology of many species can be put to use. It also gives some idea why biologists do a lot of work on so-called ‘model’ organisms - species that particular functions can be studied closely. The scientists in the video wanted to locate genes that … Read More

New Zealand high performance computing on the road - Code for life

Grant Jacobs Sep 03, 2012

The New Zealand eScience Infrastructure (NeSI) is about to hit the road, touring a National High Performance Computing Roadshow through the country in September. NeSi ties together the major high-performance computing available for research in New Zealand and the expertise and services needed to best utilise them. Details of … Read More