Posts Tagged ‘NCBI’

Becoming a PubMed Expert

 :: Posted by American Biotechnologist on 06-14-2012

PubMed is probably the most important database used by scientists across the globe. Most researchers will routinely do a PubMed search to look for relevant literature on a monthly, if not weekly, basis. But how many of us really know how to use PubMed to its fullest extent? How much more efficient would our literature searches be if we just knew how to make the most out of PubMed? Luckily, NCBI, has put together a YouTube channel with detailed explanations on how to use many of their advanced products. Here is a video demonstrating how to use the PubMed Advanced Search Builder. Be sure to checkout the NCBI YouTube page for more great videos.

From proteins to biosystems

 :: Posted by American Biotechnologist on 03-08-2011

There have been so many incredible tools added to NCBI over the last several years (Reactome, BioSystems, Pathway interaction database) that it can be overwhelming to try and keep up with the latest and greatest NCBI technology.

Less than a year ago, NCBI released FLink (frequency weighted links) which is a tool that enables users to traverse from a group of records in a source database to a ranked list of associated records in a destination database. I found FLink useful for cross-referencing my favorite gene (ETAR) against the BioSystems in which it appears. FLink’s is extremely easy to navigate and in combination with NCBI BioSystems helps to simplify complex processes.

Although FLink is pretty easy to use and self-explanatory, the OpenHelix blog has posted a video tutorial of FLink on SciVee which is a good place to start for anybody wishing to learn more about the tool before actually diving in.

How often have you used FLink? What is your favorite NCBI tool and how are you using it in your research?

NCBI Blast Using an iPhone and RFID Technology

 :: Posted by American Biotechnologist on 06-30-2010

The iPhone has a ton of great apps for the high-tech, molecular biologist. Here’s a clip I found on youtube demonstrating how to couple the iPhone with RFID technology. The user downloaded a nucleotide sequence from an RFID tagged tree and pasted it into NCBI BLAST. The BLAST result appeared on the screen of the iPhone. Unfortunately, the iPhone does not have an RFID reader incorporated in the unit so the user had to use an intermediate device (in this case a Nokia 6131 cell phone) to get the sequence from the tag to the iPhone. Fortunately, since this clip was posted last summer, new technology has become available that allows iPhone users to turn their device into an RFID reader as well.

We’re on the lookout for more iphone apps for the molecular biologist. Which useful apps have you come across?