BOL: Related items

JRF in Bioinformatics @ Tezpur Universityn

Fri, 17 Jul 2015 19:42:22 -0500

Tezpur University: Napaam – 784 028:

Assam Applications are invited for Walk-in-Interview for the following temporary positions in the MHRD sponsored Centre of Excellence under FAST project entitled “Machine Learning Research and Big Data Analysis” under the Principal Investigator Professor D.K. Bhattacharyya, Department of Computer Science & Engineering, Tezpur University.

Position : Senior Research Fellows (SRFs) in the field of (i) Bioinformatics (ii) Natural Language Processing / Speech Processing (iii) Cognitive Radio Networks / Optical Networks (iv) Network Security. No. of Positions : Five (05).

Qualification : First class in ME / M. Tech. in CSE / IT / ECE with research experience in relevant fields of research. Candidates having valid GATE / NET score shall be preferred.

Fellowship : Rs. 18,000/- (Rupees Eighteen Thousand) only per month.

Duration : Two (02) years and may be extended depending on status of the project.

Position : Junior Research Fellows (JRFs) in the field of Bioinformatics

No. of Positions : One (01).

Qualification : First class in B. Tech. in CSE / IT/ ECE or MCA with consistently good academic records. Candidates with M. Tech. in CSE / IT / ECE shall be preferred.

Fellowship : Rs. 12,000/- (Rupees twelve Thousand) only per month.

Duration : Two (02) years and may be extended depending on status of the project.

Interested candidates may send their application on plain paper by post along with his/her educational qualifications, research experience certificates (for Senior Research Fellow), 02 copies of recent passport/stamp size photograph and contact phone number to Prof. D.K. Bhattacharyya, Principal Investigator, Department of Computer Science & Engineering, Tezpur University, Napaam- 784028 or mail it to dkb@tezu.ernet.in (or to smh@tezu.ernet.in) within 15 days of publication of this advertisement.

Advertisement: www.tezu.ernet.in/ProjectWalkin/Advt_CoE_5816-A.pdf

VariantBam: Filtering and profiling of next-generational sequencing data using region-specific rules

Rahul Nayak — Thu, 04 Oct 2018 16:30:44 -0500

VariantBam is a tool to extract/count specific sets of sequencing reads from next-generational sequencing files. To save money, disk space and I/O, one may not want to store an entire BAM on disk. In many cases, it would be more efficient to store only those read-pairs or reads who intersect some region around the variant locations. Alternatively, if your scientific question is focused on only one aspect of the data (e.g. breakpoints), many reads can be removed without losing the information relevant to the problem.

Address of the bookmark: https://github.com/broadinstitute/VariantBam

SRF post in NEHU, Shillong

Sat, 25 Jul 2015 20:09:50 -0500

Dept of Biochemistry
North-Eastern Hill University
Umshing, Shillong- 793 022

Applications are invited for the post of Senior Research Fellow- SRF (one) and Junior Research Fellow- JRF (one) to be appointed in a SERB-funded major research project entitled “Biochemical and functional properties of Synechocystis Glutathione S-transferase(s)” sanctioned to Dr. Timir Tripathi, Molecular and Structural Biophysics Laboratory, Department of Biochemistry, NEHU, Shillong.

Essential Qualifications: For both positions M.Sc. or equivalent with a good academic record is a prerequisite.

For Project-SRF, experience in bioinformatics/computational biology is required, which should be evident by publications.

Students waiting for their last semester result can apply for JRF position.

Stipend: As per SERB norms.

Interested students can email their detailed bio-data including mobile number and recent photograph to msb.biochem@gmail.com, latest by 01.08.15. The hard copy is not required at this stage.

The date of interview will be informed after primary scrutiny of the applications. No TA/DA will be paid if called for interview. P.S: Students applied for the same post as per date 01.06.15, need not to apply again as their application will be considered in this advertisement also.

For details of the research work of the PI’s group kindly visit www.ttripathi.webs.com

Dr. Timir Tripathi Principal Investigator DST-SERB Project Department of Biochemistry NEHU, Shillong

Advertisement: www.nehu.ac.in/Advertisements/BiochemPVAdvtTT_200715.pdf

jackalope: A swift, versatile phylogenomic and high-throughput sequencing simulator

Abhimanyu Singh — Fri, 26 Jul 2019 00:58:12 -0500

jackalope simply and efficiently simulates (i) variants from reference genomes and (ii) reads from both Illumina and Pacific Biosciences (PacBio) platforms. It can either read reference genomes from FASTA files or simulate new ones. Genomic variants can be simulated using summary statistics, phylogenies, Variant Call Format (VCF) files, and coalescent simulations—the latter of which can include selection, recombination, and demographic fluctuations. jackalope can simulate single, paired-end, or mate-pair Illumina reads, as well as reads from Pacific Biosciences These simulations include sequencing errors, mapping qualities, multiplexing, and optical/PCR duplicates. All outputs can be written to standard file formats.

A swift, versatile phylogenomic and high-throughput sequencing simulator https://jackalope.lucasnell.com

Address of the bookmark: https://github.com/lucasnell/jackalope

RA Bioinformatics at Alagappa University

Sat, 08 Aug 2015 01:36:35 -0500

RA Bioinformatics

Eligibility : MSc(Bio-Chemistry, Bio-Informatics, Bio-Tech)

Location : Chennai

Last Date : 20 Aug 2015

Hiring Process : Walk - In
Alagappa University - Job Details

RA Bioinformatics Job position in Alagappa University

Qualification: M.Sc., in Bioinformatics/Biotechnology/Biophysics/Biochemistry/ Life Sciences

No.of Post: One

Salary : Rs. 11000
How to apply

A walk-in Interview will be held at the Department of Biotechnology, Alagappa University, Science Campus, Karaikudi 630 004 on 20.08.2015 (Thursday) at 10.30 AM.

Interested candidates are encouraged to send their Curriculum Vitae by email in advance. On the day of interview, the candidates must produce original certificates in proof of their educational qualification and experience and a recommendation letter from the Head of the Department/Institution where last studied/worked. Candidates who have already passed the required Degree alone are eligible to appear for interview.

Click Here for more http://alagappauniversity.ac.in/files/news_files/Notification.pdf

genomics public data links !

Jit — Thu, 13 Feb 2020 00:20:00 -0600

List of publically available databases on google server.

More at https://software.broadinstitute.org/gatk/download/bundle

ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606/VCF/GATK/.

ftp://ftp.broadinstitute.org/bundle/hg38/hg38bundle/

Address of the bookmark: https://console.cloud.google.com/storage/browser/genomics-public-data/resources/broad/hg38/v0?pli=1

Bioinformatics Made Easy Search: Bioinformatics tools and run genomic analysis in the cloud

Rahul Nayak — Thu, 20 Aug 2015 02:21:20 -0500

InsideDNA makes hundreds of bioinformatics tools immediately available to run via an easy-to-use web interface and allows an accurate search across all functions, tools and pipelines.

With InsideDNA, you can upload and store your own genomic/genetic datasets in a limitless cloud space, and instantly analyze it with a powerful compute instance, without any tool installation or set up hassle.

More at https://insidedna.me/

Address of the bookmark: https://insidedna.me/

GPOPSIM: a simulation tool for whole-genome genetic data

Jit — Wed, 17 Jan 2018 03:47:46 -0600

GPOPSIM is a simulation tool for pedigree, phenotypes, and genomic data, with a variety of population and genome structures and trait genetic architectures. It provides flexible parameter settings for a wide discipline of users, especially can simulate multiple genetically correlated traits with desired genetic parameters and underlying genetic architectures.

Address of the bookmark: https://github.com/SCAU-AnimalGenetics/GPOPSIM

JRF Position – International Institute of Information Technology, Hyderabad

Mon, 24 Aug 2015 22:44:46 -0500

International Institute of Information Technology, Hyderabad

Center for Computational Natural Sciences and Bioinformatics

Junior Research Fellowship Position

Applications are invited for one JRF position in the following DAE sponsored project.

Title of the project: Insight into the Structure–Function Relationships of Chemically Modified Nucleic Acids: A Molecular Dynamics Simulations Study.

The above project involves theoretical modelling and simulations on chemically modified nucleic acids to investigate their structures, dynamics and thermodynamic stabilities.

Desired qualification: M.Sc. in Chemistry/ Bioinformatics; GATE/UGC-CSIR NET qualification.

To apply: Send detailed curriculum vitae by e-mail to the following address on or before 31 August 2015: Prof. U. Deva Priyakumar (devalab@iiit.ac.in), CCNSB, IIIT-H, Gachibowli, Hyderabad 500 032.

Cancer research database

Neel — Tue, 01 Sep 2015 17:36:31 -0500

Researchers in Andhra Pradesh have developed a database to identify genes that are common in tumours to provide their colleagues with easy access to insights into the genetic alterations in cancer.

The database, hosted at the Sri Venkateswara University (SVU) in Tirupati, will integrate information on cancer genes and markers with experimental data.

The Cancer Gene Markers Database (CGMD) is meant to help scientists better understand tumour genes and markers at a molecular level by combining data with literature on treatment regimen and recent advances in cancer therapy.

The database is free to access, and already includes 309 genes and 206 markers that correspond to 40 different human cancers. Accompanying literature comes from databases such as the United States’ National Center for Biotechnology Information and the Kyoto Encyclopedia of Genes and Genomes. It also includes experimental data from PubMed.

In a paper published last month in Nature Scientific Reports, the researchers from SVU’s department of animal biotechnology, describes the need for a database for different genes and markers along with their molecular characteristics and pathway associations.