Genetic Ancestry of Nepalis


One evening, few years back, my grandpa passed down a legacy to me and my cousins – the story of our ancestors. I belong to a Newar community which is one among the indigenous people of Kathmandu Valley. Newars have been living in Kathmandu valley from the prehistoric times. As per my grandpa, our ancestors…

Science in Nepal Needs Neighborly Aid


As the Great King of Nepal, Prithvi Narayan Shah, puts it – “Nepal is a yam between the two big stones”. Certainly this context is even more relevant today. Nepal is a land between the two giants – India and China. Both are emerging superpowers of the world in terms of sociology-economics to the current…

Bioinformatics for personal genome interpretation


Following paper is a very good review on the the current bioinformatics methods applied in Personalize Genomics and the challenges to understand the biological data. Capriotti E, Nehrt NL, Kann MG, Bromberg Y. Bioinformatics for personal genome interpretation.Brief Bioinform. 2012 Jan 13. Abstract: An international consortium released the first draft sequence of the human genome…

Download Sequence from Accession Number using Perl


If you are looking to download batch of sequences from public database such as Genbank using the accession number, the following perl script that I’ve written may be quite handy. This script uses a BioPerl module “Bio::DB::GenBank“. All the accession number must be present within the file accnumber.txt each separated my a comma. And also,…

The BARCODE Data Standards


Following is a presentation byDavid Schindel discussing on the current standards in BARCODE data flag in GenBank and some of the burning issues in Species Name assignment across the database repository systems. It was presented in the recent “Fourth International Barcode of Life Conference” held at The University of  Adelaide, Australia from 28 Nov –…

Front-end processing of DNA Barcoding


Here is a presentation by Michelle Van der Bank discussing on Front-end processing of DNA Barcoding. The presentation roams around Specimen arraying, imaging, sampling. Pre-lab challenges and solutions: individual tracking of collection specimens, avoiding human error when working with large batches of specimens, streamlining front-end processing of large specimen batches and issues regarding the DNA Barcode data…