BOL: Related items

Elastic BLAST !

Abhi — Tue, 06 Sep 2022 18:14:57 -0500

ElasticBLAST is a new way to BLAST large numbers of queries, faster and on the cloud. Here are the top three reasons you should use ElasticBLAST:

1. ElasticBLAST can handle much LARGER queries!

ElasticBLAST can search query sets that have hundreds to millions of sequences and against BLAST databases of all sizes.

2. ElasticBLAST is FASTER

ElasticBLAST distributes your searches across multiple cloud instances to process them simultaneously. The ability to scale resources in this way allows you to process large numbers of queries in a shorter time than you could with BLAST+.

3. ElasticBLAST is EASY to run on the cloud

ElasticBLAST is easy to set up using our step-by-step instructions (Amazon Web Services (AWS), Google Cloud Platform (GCP)) and allows you to leverage the power of the cloud. Once configured, it manages the software and database installation, handles partitioning of the BLAST workload among the various instances, and deallocates cloud resources when the searches are done.

ElasticBLAST also selects the instance (i.e., machine) type for you based on database size. Of course, you can also choose the instance type manually if you prefer.

Address of the bookmark: https://blast.ncbi.nlm.nih.gov/doc/elastic-blast/

Huber Lab

Mon, 09 Sep 2013 21:57:03 -0500

The Huber group develops computational and statistical methods to design and analyse novel experimental approaches in genetics and cell biology.

Future projects and goals

Large-scale systematic maps of gene-gene and gene-environment interactions by automated phenotyping, using image analysis, machine learning, sparse model building and causal inference.
DNA-, RNA- and ChIP-Seq and their applications to gene expression regulation: statistical and computational foundations.
Cancer genomics, genomes as biomarkers, cancer phylogeny.
Image analysis for systems biology: measuring the dynamics of cell cycle and of cell migration of individual cells under normal conditions and many different perturbations (RNAi, drugs).

More @ http://www.embl.de/research/units/genome_biology/huber/index.html

Circoletto: visualizing sequence similarity with Circos

Jit — Fri, 09 Feb 2018 10:23:40 -0600

Circoletto, an online visualization tool based on Circos, which provides a fast, aesthetically pleasing and informative overview of sequence similarity search results.

Online version and downloadable software package for offline use (source code in PERL) freely available at http://bat.ina.certh.gr/tools/circoletto/

Contact:ndarz@certh.gr

Address of the bookmark: http://tools.bat.infspire.org/circoletto/

Asst. PROF IN BIOINFORMATICS at JAIPUR NATIONAL UNIVERSITY

Thu, 12 Sep 2013 07:18:02 -0500

JAIPUR NATIONAL UNIVERSITY, SCHOOL OF LIFE SCIENCES (SIILAS CAMPUS) URGENTLY REQUIRES

Asst. PROF IN BIOINFORMATICS.

QUALIFICATION: AS PER UGC

DESIRABLE: 1 YEAR EXPERIENCE IN ACADEMICS

CONTACT immediately

Prof D.S.Bhatia
Director
9351288070

Last date within 7 days of the publication.

Find more @ http://jnujaipur.ac.in/downloads/AdvtDec2012.jpg

TwinBLAST: When Two Is Better than One

Jit — Sat, 07 Sep 2019 08:50:08 -0500

TwinBLAST is a web-based tool for viewing 2 BLAST reports simultaneouslyside-by-side. It uses ExtJS (www.sencha.com/products/extjs/) to provide 2independently scrollable panels. BioPerl (www.bioperl.org) is used to indexraw BLAST reports and Bio::Graphics is used to draw pictograms of the BLASThits.

https://github.com/IGS/twinblast

https://mra.asm.org/content/8/35/e00842-19

Address of the bookmark: https://github.com/IGS/twinblast

Research Associate@ School of Computational and Integrative Sciences under Jawaharlal Nehru University

Fri, 22 Nov 2013 19:06:44 -0600

School of Computational and Integrative Sciences under Jawaharlal Nehru University, New Delhi invited applications for filling up 4 posts of Research Associates (RA) and Junior Research Fellow (JRF) (2 posts each) purely on temporary basis, liable to be terminated at any time without prior notice or ceased/withdrawn by the funding agency. The vacancies are for a Department of Biotechnology, Government of India funded project entitled "Computational Core for Plant Metabolomics" (Project ID: 632) being administered by Prof Indira Ghosh. Interested candidates should send their applications till 13 December 2013.
Important Dates
Last Date for receipt of applications: 13 December 2013
Vacancy Details
Total Vacancies: 4 posts
Type of recruitment: Temporary
Sl. No.: 01
Name of the Post: Research Associate
No of Posts: 1 post
Remuneration: Rs. 23000 + 30%
Qualifications: PhD in Bioinformatics / computational biology / Biophysics / Physical Chemistry / Computer Science. Computational experience, proven by paper published, is a necessary qualification.
Sl. No.: 02
Name of the Post: Research Associate
No of Posts: 1 post
Remuneration: Rs. 23000 + 30%
Qualifications: PhD in Computational Biology / Bioinformatics & related subjects. Computational experience, proven by paper published, is a necessary qualification.
Sl. No.: 03
Name of the Post: Junior Research Fellow
No of Posts: 1 post
Remuneration: Rs. 12000 + 30%
Qualifications: M. Sc. / B. Tech. preferably in Computational Biology /Bioinformatics and related fields with experience in Website designing & maintenance of Database.
Sl. No.: 04
Name of the Post: Junior Research Fellow
No of Posts: 1 post
Remuneration: Rs. 12000 + 30%
Qualifications: M. Sc. / MCA / B. Tech. preferably in Computational Biology / Computer science with experience in Programming in Java / Python, C++ etc & designing of Database.
Selection Procedure: Selection will be done on the basis of candidates’ performance in the Interview.
Candidates short-listed / selected for Interview will be informed through email only.
How to Apply: Interested eligible candidates should send their applications, in the prescribed format, along with their current CV by post to “Prof Indira Ghosh, Project Investigator, Hall#6, School of Computational and Integrative Sciences, Jawaharlal Nehru University, New Delhi-110 067” so as to reach the concerned authority by 13 December 2013.
Name of the post applied for’ must be superscripted on the envelope containing the application.
NOTE: For the post of Research Associates, only those candidates who have submitted thesis are eligible to apply. However, salary will be provided as per DBT / DST guidelines (i.e. candidates who have qualified NET /BET / BINC will have higher pay scale).
Candidates interested to register for PhD may not apply for JRF.
More @ http://www.jnu.ac.in/Career/currentjobs.htm

SOWDHAMINI Lab

Sun, 15 Sep 2013 09:19:12 -0500

Genome sequencing projects have enormous potential for benefiting human endeavors. However, just as acquiring a language's vocabulary does not enable one to speak it, databases that list the amino acid composition of proteins do not directly tell us much about these proteins' higher-level structure and function. The most productive way to indirectly exploit these databases has been to start with the small number of proteins that are fully-characterised and to assume that other "similar" proteins will have a related structure and function. Proteins with very similar amino acid sequence are "no-brainers", but the real test, which our group largely focuses on, is to detect the "essential" similarity in proteins whose non-critical sections have experienced random rearrangements during evolution. In such cases functionally similar proteins may have less than 25% sequence overlap.

More @ http://www.ncbs.res.in/sowdhamini/groups_sowdhamini.htm

Human Genome Meeting 2014, Geneva, Switzerland

Fri, 20 Sep 2013 12:36:44 -0500

The spectacular advances of the last few years resulted in the rapid analysis of the genome sequence of each individual. The biomedical world is now faced with the enormous challenges of assigning pathogenicity to each genomic variant, the functional analysis of the genome of each individual, and the accurate and detailed phenotypic characterization. Advances in these challenges are likely to fundamentally change the medical practice in a global scale.

This 2014 HUGO Meeting in Geneva will be a Forum for discussions on innovative approaches, and proposals to tackle the anticipated challenges.

Time : 27 April 2014 - 30 April 2014

For enquiries, please email hugo2014@mci-group.com or visit www.hugo-international.org

More at http://www.hgm2014-geneva.org/

New born babies get ready to know their whole genome soon!!!

Rahul Agarwal — Thu, 05 Sep 2013 07:24:02 -0500

USA launch a pilot projects to examine medical information of newborn baby, which are being funded by the Eunice Kennedy Shriver National Institute of Child Health and Human Development (NICHD) and the National Human Genome Research Institute (NHGRI), both parts of the National Institutes of Health.

Awards of $5 million to four grantees have been made in fiscal year 2013 under the Genomic Sequencing and Newborn Screening Disorders research program. The program will be funded at $25 million over five years, as funds are made available.

"Hundreds of US babies will be pioneers in genomic medicine through a US$25-million programme to sequence their genomes soon after they are born."

Source:

http://blogs.nature.com/news/2013/09/scientists-to-sequence-hundreds-of-newborns-genomes.html

http://www.genome.gov/27554919

Molecular and Computational Biology Research School

Fri, 20 Sep 2013 09:01:18 -0500

The ambition of the Molecular and Computational Biology Research School (MCB) is to create an attractive and stimulating training environment for PhD students in molecular and computational biology, both to better serve the needs for relevant training in the field, and to stimulate crossdiscipline developments in the research of the parties.

http://www.uib.no/rs/mcb