BOL: Related items

National Training on Bioinformatics Computational Tools for Microbial Research Nov 19 to 30, 2013

Fri, 27 Sep 2013 10:49:34 -0500

Agricultural research in modern scientific arena is being represented by proper integration among various research fields of biological, chemical and physical sciences, because this field encompasses many more complexities of biology in nature. In the era of fast accumulating biological data coming out from the research on many crop plants, live stocks and microbes and the impact of changing climate, habitat and other interrelations on these biological entities, bioinformatics has come forward across the globe to solve the problems of analysis, prediction, storage, management, pattern recognition, submission, retrieval and storage of the data to find out a fruitful outcome. This area is becoming increasingly important in the context of systems biology approach where a holistic approach is required to understand the biology and chemistry of the biological entities and their behavior during environmental interactions to resolve the harmful impact of biotic or abiotic causes on crop plants, animals, fishes, livestock sector, beneficial insects as well as microbes. The National Training program on ‘Computational Tools for Microbial Research” is an initiative for the capacity building of NARS scientists/researchers in this most emerging area and fast developing area of i.e. agricultural bioinformatics.

Contact The Director, National Bureau of Agriculturally Important Microorganisms, Kusmaur, Maunath Bhanjan-275101 (U.P.); Phone: 0547-2530080, Fax: 0547-2530358, e mail: nbaimicar@gmail.com; website: www.nbaim.org.in OR

Dr. Dhananjaya P. Singh, Senior Scientist & CCPI, NABG project, NBAIM, Maunath Bhanjan, 275101; Mob.- 09415291703; e mail - dpsfarm@rediffmail.com, nabg.nbaim@gmail.com

More at http://www.nbaim.org.in/Announc.aspx?cd=36

Reactome Pathway Database

BioStar — Mon, 31 Dec 2018 02:41:33 -0600

REACTOME is an open-source, open access, manually curated and peer-reviewed pathway database. Our goal is to provide intuitive bioinformatics tools for the visualization, interpretation and analysis of pathway knowledge to support basic and clinical research, genome analysis, modeling, systems biology and education. Founded in 2003, the Reactome project is led by Lincoln Stein of OICR, Peter D’Eustachio of NYULMC, Henning Hermjakob of EMBL-EBI, and Guanming Wu of OHSU.

Address of the bookmark: https://reactome.org/

EMBL Postdoc position in Bacterial Gene Gain Loss

Thu, 20 Aug 2015 14:09:21 -0500

A post-doctoral fellowship is available in the research groups of Nick Goldman (EBI) and John Welch (Genetics Department, Cambridge University) under the EMBL-EBI / Cambridge Computational Biomedical Postdoctoral Fellowship scheme.

The project is on bacterial gene gain and loss and emerging pathogenicity, and is described in full here: https://www.ebi.ac.uk/research/postdocs/ebpods/projects/goldman-welch-2015 . The EMBL-EBI / Cambridge Computational Biomedical Postdoctoral (“EBPOD”)

The closing date for applications is 3 September 2015. Nick Goldman EMBL-European Bioinformatics Institute Nick Goldman

More at https://www.ebi.ac.uk/research/postdocs/ebpods/projects/goldman-welch-2015

New BLAST Core Nucleotide Database (core_nt)

LEGE — Tue, 13 Aug 2024 07:12:53 -0500

The Core Nucleotide Database (core_nt) is now the default nucleotide BLAST database. Core_nt is also available on the command line. You get faster searches & more focused results.

Core_nt contains the same eukaryotic transcript and gene-related sequences as nt. The core_nt database is nt without most eukaryotic chromosome sequences. Most nucleotide BLAST searches with core_nt will be similar to the nt database. However, core_nt is better than nt for accomplishing your most common BLAST search goals, such as identifying gene-related sequences like transcript sequences and complete bacterial chromosomes. This is because, in recent years, nt has acquired more low-relevance, non-annotated, and non-gene content.

Learn more: https://ncbiinsights.ncbi.nlm.nih.gov/2024/07/18/new-blast-core-nucleotide-database/

Mike Ritchie Lab

Wed, 02 Oct 2013 15:25:45 -0500

Mike Ritchie Lab primary research focus is the detection of susceptibility genes for common diseases such as cancer, diabetes, hypertension, and cardiovascular disease, among others. The approaches will involve the development and application of new statistical methods with a focus on the detection of gene-gene interactions associated with human disease.

Gene expression and protein expression patterns between normal and non-normal tissues is a growing area of research that may lead to the identification of candidate genes for understanding the etiology of common, complex diseases.

Lab homepage @ http://ritchielab.psu.edu/ritchielab/

HTTDB - Horizontally transferred transposable elements database

Rahul Nayak — Tue, 23 Jan 2018 12:07:31 -0600

Transposons or Transposable elements (TEs) are "mobile genes" capable of mobilization from one genomic location to another through non-homologous recombination. As this movement is mediated by its own proteins and does not contribute to the survival of the host that it inhabits, they are known as selfish genomic parasites. Despite their capacity for transposition inside genomes, they can frequently transpose the species boundaries and consequently migrate from one species to another. Such phenomenon is called Horizontal Transposons Transfer. HTT was first discovered by Daniels et al. (1984) when analysing a P element that was transferred from Drosophila willistoni to D. melanogaster. Since then, many more cases have been documented in the literature. Moreover, in the last years, such discoveries have been boosted by the unprecedented amount of new genomes available. Despite the recognition of HTT as a common phenomenon in recent years, it is still difficult to draw major conclusions about HTT patterns, such as where in the tree of life these cases are more frequently found. This is mainly due to the historical bias and lack of studies in many taxa. To date, there has been no easy way to visualise each TE or host species, and should be further analysed in order to provide a more comprehensive view of such phenomena. Based on these concerns, we developed the HTT database to keep an updated repository of HTT events in all eukaryotes, allowing not only TE specialists to add new events and search the database, but also non-specialists. Moreover, we expanded the database to include Horizontal-Virus Transfer also known as endogenization events which is characterized by the stable integration a viral genomic fragment into the host genome.

https://www.ncbi.nlm.nih.gov/pubmed/29315358

Address of the bookmark: http://lpa.saogabriel.unipampa.edu.br:8080/httdatabase/

Research Associate @ ICGEB, New Delhi.

Wed, 09 Oct 2013 13:49:20 -0500

Applications are invited for Research Associate position in the DBT Sponsored Bioinformatics Infrastructure Facility at ICGEB, New Delhi.

Essential requirements: Experience of using bioinformatics tools.

Experience of working in Linux. Basic knowledge of computer network administration.

Desirable: Knowledge of Linux installation/administration and proficiency in either of the following:

Shell/PERL/Java/Python/VB/Oracle/MySQL/C/CUDA.

Qualification: PhD. or First class M.Sc degree in Bioinformatics or Biotechnology/life science with specialization in Bioinformatics.

Fellowships: Rs 22,000/- with HRA for PhD qualified, Rs 16000/- with HRA for NET/BET/BINC/GATE qualified and 12000/- with HRA for non NET qualified applicants.

Interested candidates may send their complete biodata along with a write-up of their experience and suitability for the position to Dr. Dinesh Gupta by email only to dinesh@icgeb.res.in within 15 days of publication of this advertisement. Kindly mark the email with subject “Application for BIF-RA-2013”

Closing date for applications: 18 October 2013

Only short listed candidates will be invited for an interview at ICGEB.

No TA/DA will be paid for attending the interview.

Advertisement: http://www.icgeb.org/tl_files/Vacancies/BIF-RA-Advt.pdf

Biological databases !

BioStar — Wed, 12 Feb 2020 01:16:29 -0600

Now a days there are a lots of genomics databases available around the world. This bookmark is created to provide all links in one place ...

ftp://ftp.ncbi.nih.gov/genomes/

https://hgdownload.soe.ucsc.edu/downloads.html

Address of the bookmark: ftp://ftp.ncbi.nih.gov/genomes/

SRF/JRF/RA @ UNIVERSITY OF HYDERABAD

Mon, 14 Oct 2013 07:49:11 -0500

SCHOOL OF CHEMISTRY, UNIVERSITY OF HYDERABAD

Applications on plain paper along with details of CV (relevant photocopies of their
qualifications/experience and reprints of published work to be attached) are invited from qualified candidates for Research Fellowship in CSIR- sponsored research project.

JRF/SRF/RA (one vacancy)

CSIR sponsored “In silico design, identification and in vitro validation of lead molecule inhibitors to Bcr-Abl kinase”

JRF: M.Sc in Chemistry/ Bioinformatics/ Biotechnology with I division and NET or GATE qualified

SRF: M.Sc in chemistry/ Bioinformatics/ Biotechnology with at least two years of post- M.Sc research experience as evidenced from published papers in standard refereed journals in relevant area

RA: PhD in chemistry/ Bioinformatics/ Biotechnology with research experience in
relevant area.

As per CSIR guidelines

Notes:
1) You may visit the University of Hyderabad website www.uohyd.ernet.in to learn more about the University of Hyderabad.
2) Applicants should note that the appointment to be made is purely temporary and there is no right for claiming for any regular appointment in the University.
3) No TA/DA will be paid for attending the interview or at the time of joining the post, if selected.
4) The application should be submitted by post/courier/in-person to the address given below on or before November 1st 2013.

Prof. Lalitha Guruprasad
W-103, Gurbakhsh Singh Building
School of Chemistry
University of Hyderabad
Hyderabad- 500 046
5) Short-listed candidates will be called for interview at a short notice.

Advertisement: http://www.uohyd.ac.in/images/recruitment/chemisry_advt_101013.pdf

DEG 5.0: a database of essential genes in both prokaryotes and eukaryotes

Rahul Nayak — Tue, 30 Mar 2021 11:47:29 -0500

Essential genes are those indispensable for the survival of an organism, and their functions are therefore considered a foundation of life. Determination of a minimal gene set needed to sustain a life form, a fundamental question in biology, plays a key role in the emerging field, synthetic biology.

DEG is freely available at the website http://tubic.tju.edu.cn/deg or http://www.essentialgene.org.

Address of the bookmark: http://www.essentialgene.org/