BOL: Related items

SRF/JRF Biotechnology NRCPB - Delhi, Delhi

Fri, 13 Nov 2015 02:52:11 -0600

SRF/JRF job position in National Research Centre on Plant Biotechnology (NRCPB)

JRF /1

Qualification : Master’s Degree in Biotechnology / life sciences with four years Bachelor’s Degree (or) Master’s Degree in Biotechnology / life sciences with NET qualification with 1st Division or 60% marks or equivalent overall grade point average . Non NET/ Master’s degree with three years Bachelor’s degree as per DST/DBT norms. Desirable: Working Experience in Molecular Biology Techniques, genome sequence analysis Bioinformatics

Emoluments : Rs.25000

SRF

Qualification : Master’s degree in Biotechnology/Bioinformatics/Life Science with 1st division or 60% marks or equivalent overall grade point average with 4 year of Bachelor’s degree or 5 years integrated Masters degree. Desirable: Working experience in Bioinformatics, genomic analysis

Emoluments : Rs.25000/

Age Limit: 35 years

Walk-in-interview will be held on 20th November 2015 at 10 AM at NRCPB, LBS Building, Pusa Campus, and New Delhi-110012

More at http://www.nrcpb.org/sites/default/files/Adverdisement_0.pdf

LSC: Improving PacBio Long Read Accuracy by Short Read Alignment

Abhimanyu Singh — Thu, 06 Sep 2018 16:27:35 -0500

Added Command line argument support.
Multi-stage execution modes.
Support for parallelization. Now execution proceeds in batches of long reads the size of which can be set by --long_read_batch_size N.
Better compressed intermediate files.
Added utilities folder.
Added support for multiple short read files.
Removed use of configuration file.

Address of the bookmark: https://www.healthcare.uiowa.edu/labs/au/LSC/

Teaching Careers 2015 at Uttaranchal College of Science & Technology

Mon, 02 Nov 2015 04:00:26 -0600

Teaching, Non-teaching Careers 2015
Uttaranchal College of Science & Technology - Dehra Dun, Uttarakhand
Teaching, Non-teaching Careers 2015 at Uttaranchal College of Science and Technology, Dehradun

Below mentioned teaching and non-teaching job vacancies are to be recruited.

Assistant Professors job vacancies in the disciplines of:
Biotechnology
Bioinformatics

Eligibility:
Masters Degree in the Discipline along with Ph.D

How to apply:
Candidates who possess requisite eligibility criteria for all the above mentioned positions required to apply on or before 10 days from the date of vacancy notification.

Candidates required to send copies of all the documents along with application

Contact details:
Uttaranchal College of Science & Technology
Nagal Hatnala, P.O. Kulhan Sahastradhara Road,
Dehradun-248001, Uttarakhand, India

More details can be had at:
Dehradun Classifieds e-paper dated 01.11.2015 at page number 40-41

About Employer

Uttaranchal College of Science and Technology, Dehradun, Uttarakhand is affiliated to HNB Garhwal University, Srinagar, Uttarakhand

Employer: Uttaranchal College of Science & Technology
Address: Uttaranchal College of Science & Technology Nagal Hatnala, P.O. Kulhan Sahastradhara Road, Dehradun-248001, Uttarakhand, India
Email: info@ucstdoon.com
URL: http://www.ucstdoon.com
Phone: 0135-2607011, 607413, 3254785, 09719146701

Project Assistant II Jobs opportunity in National Chemical Laboratory (NCL) on temporary basis

Fri, 06 Nov 2015 01:36:16 -0600

No. Bio/NCIM/3

Project Assistant II Jobs opportunity in National Chemical Laboratory (NCL) on temporary basis

Project Code No. : GAP312626

Title of the Project : Microbial ecology and distribution of geochemical cycling genes in an hot spring ecosystem

No. of Post : 01

Qualifications : M.Sc./B.Tech/M.Tech in Computational biology/ Bioinformatics from recognized university with minimum 60 % marks (aggregate)

Desirable : Good knowledge of computational skills, Linux (command line and GUI) and Unix; Perl / Python / R /C-programming. Practical knowledge of analysis of Next generation sequence datasets (amplicon sequencing, whole metagenome, and complete genome sequencing) with reference to microbes. Analysis and statistical validation of NGS data generated from different chemistry platforms. Some wet-lab experience in microbial system would be an added advantage as project involves some travel.

Emoluments : Rs. 16,000/-

Age Limit : 28 years
How to apply

The application with the above information duly signed together with photo-copies of relevant certificates/testimonials should be addressed to : The Head, NCIM Resource Centre (Attn Dr. M.S. DHARNE), National Chemical Laboratory, Pune 411 008, so as to reach on or before 16th November 2015.

More at http://www.ncl-india.org/files/JoinUs/JobVacancies/TemporaryJobs.aspx?menuid=ql6&childmenustripid=divSubQL6

Basics of BLAST Programs !

BioStar — Fri, 26 Jul 2024 06:04:26 -0500

The Basic Local Alignment Search Tool (BLAST) is a powerful bioinformatics program used to compare an input sequence (such as DNA, RNA, or protein sequences) against a database of sequences to find regions of similarity. Developed by the National Center for Biotechnology Information (NCBI), BLAST is widely used for identifying species, finding functional and evolutionary relationships between sequences, and predicting the function of novel sequences.

Key Features of BLAST:
1. Sequence Comparison: BLAST searches for local alignments between the query sequence and sequences in a database. It identifies regions of similarity, which can help infer functional and evolutionary relationships.

2. Speed and Efficiency: BLAST uses heuristic algorithms, making it faster than exhaustive search methods, suitable for large-scale database searches.

3. Versatility: There are several versions of BLAST for different types of sequence comparisons:
- blastn: Compares a nucleotide query sequence against a nucleotide sequence database.
- blastp: Compares a protein query sequence against a protein sequence database.
- blastx: Compares a nucleotide query sequence translated in all reading frames against a protein sequence database.
- tblastn: Compares a protein query sequence against a nucleotide sequence database translated in all reading frames.
- tblastx: Compares the six-frame translations of a nucleotide query sequence against the six-frame translations of a nucleotide sequence database.

4. Scoring and E-value: BLAST results are scored based on the quality and length of the alignments. The E-value (expect value) indicates the number of alignments one can expect to find by chance, with lower E-values representing more significant matches.

5. Output Formats: BLAST provides results in various formats, including plain text, HTML, XML, and JSON, making it adaptable for different types of analyses and integrations with other tools.

Applications of BLAST:
- Genomic Research: Identifying genes, understanding genetic diversity, and mapping genome sequences.
- Protein Function Prediction: Inferring the function of unknown proteins by comparing them to known protein sequences.
- Evolutionary Studies: Exploring evolutionary relationships between organisms by comparing their genetic material.
- Medical Research: Identifying pathogens, understanding disease mechanisms, and developing treatments by comparing sequences of interest.

Overall, BLAST is an essential tool in bioinformatics, offering a reliable and efficient way to analyze and interpret biological sequence data.

Postdoctoral positions are available at inStem

Tue, 24 Nov 2015 23:24:28 -0600

A position for a Postdoctoral fellow is available in the area of bioinformatics and genomics. The Institute for Stem Cell Biology and Regenerative Medicine (inStem) is a highly collaborative environment and we are seeking an individual who can interface with both wet and dry lab scientists to use profiling technologies to advance our understanding of tissue regeneration and repair. Consequently, the selected candidate for this position can expect world-class training in integrating the fields of cell biology, molecular biology, animal models, and genomics/proteomics.

We are seeking an individual with expertise in analyzing next generation sequencing data, mutation calling in exome seq data, network inference, data integration, and modeling. Competitive candidates would also have programming experience in scripting languages with perl, C, C++, and R programming. This position requires a PhD in Computational Biology, Bioinformatics, Biostatistics or related fields, and evidence of scientific productivity through publications in international journals. Motivation to gain an in-depth understanding of biological phenomena is required! Applications should include a current CV and names of at least three references. Application packages and inquiries regarding this position can be sent to Dr. Dasaradhi Palakodeti ( dasaradhip@instem.res.in ) or Dr. Colin Jamora ( colinj@instem.res.in). Screening of applications will commence immediately and the position will remain open until filled.

More at https://www.instem.res.in/open-positions

Quota synteny alignment

Jit — Mon, 31 Jul 2017 04:11:57 -0500

Typically in comparative genomics, we can identify anchors, chain them into syntenic blocks and interpret these blocks as derived from a common descent. However, when comparing two genomes undergone ancient genome duplications (plant genomes in particular), we have large number of blocks that are not orthologous, but are paralogous. This has forced us sometimes to use ad-hoc rules to screen these blocks. So the question is: given the expected depth (quota) along both x- and y-axis, select a subset of the anchors with maximized total score.

Address of the bookmark: https://github.com/tanghaibao/quota-alignment

Research & Development - Informatics Officer

Sun, 29 Nov 2015 03:47:34 -0600

Research & Development - Informatics Officer
Centre for Innovative and Applied Bioprocessing - Mohali, Punjab
(Area Coverage: Database and Research Analysis, Documentation, Research Reference, Document & Domain Knowledge Library, Application Programs)
Rs. 15600-39100 (PB-3) + Rs. 6600 (Grade Pay)
(Higher start within the scale is possible for a deserving case)
One Position (Unreserved)
Age limit: 45 Years

Essential Qualifications:
First class M. Tech or M.E. in computer science or information technology or bioinformatics with 4 years of R&D experience (after Master’s Degree) in an R&D organization with work profile of large data assembly, analysis, and/or customer/user-based software programming and/or, program implementation, database development evidenced by patents and/or publications, credible scale of R&D related data/data sets submission to public database for expanded use etc. Company Info.
Centre for Innovative and Applied Bioprocessing

CENTER OF INNOVATIVE AND APPLIED BIOPROCESSING (A National Institute under Dept. of Biotechnology, Ministry of Science & Technology, Govt. of India) 2nd Floor, C-127, Phase VIII, Industrial Area, S.A.S. Nagar, Mohali-160071(Pb). Additional Information States & U.T State & Union Territories Punjab How To Apply Apply Details
Apply directly.. Web/Notification URL http://ciab.res.in/vacancies/CIAB-Rollin g%20Advt-2015.pdf

Project Fellow Positions at CSIR-IHBT Palampur

Tue, 01 Dec 2015 05:45:58 -0600

Walk-in-Interview is scheduled to be held on the date as mentioned below for selection of Suitable candidates in the following areas under the different Sponsored/CSIR Networked Projects on purely temporary basis for the duration of the project(s) or till completion of projects whichever is earlier:

Sponsored/CSIR Networked Project:
(i) Genomics and Informatics Solutions for Integrating Biology (GENESIS)" [BSC-0121] (up to March, 2017).
(ii) Profiling and characterization of early phase differential mi-RNA (s) responsible for downstream developmen of insulin resistance in hMSC derived adipocytes. (GAP-0188) [up to 31.03.2018].

Position: Project Fellow (2 position)
Age : 28 years as on 18.12.15
Salary : Rs.12,000/- P.M.
Rs.14,000/- P.M.
as per the funds provisions in the respective projects.
Eligibility Criteria : 1st Class B. Tech. in Bioinformatics/ Computational Biology
OR
M.Sc. in Bioinformatics/ Computational Biology with 55% marks
OR
M.Tech. in Bioinformatics/ Computational Biology with 55% marks
OR
M.Sc. in any field of Life Science with Diploma in Bioinformatics

Selection Procedure : Walk In Interview

Date : 18 Dec , 2015
Time : 10:00 A.M.
Venue : CSIR-IHBT Palampur (H.P.)

HISAT2: a fast and sensitive alignment program for mapping next-generation sequencing reads

Rahul Nayak — Tue, 08 May 2018 04:27:22 -0500

HISAT2 is a fast and sensitive alignment program for mapping next-generation sequencing reads (both DNA and RNA) to a population of human genomes (as well as to a single reference genome). Based on an extension of BWT for graphs [Sirén et al. 2014], we designed and implemented a graph FM index (GFM), an original approach and its first implementation to the best of our knowledge. In addition to using one global GFM index that represents a population of human genomes, HISAT2 uses a large set of small GFM indexes that collectively cover the whole genome (each index representing a genomic region of 56 Kbp, with 55,000 indexes needed to cover the human population). These small indexes (called local indexes), combined with several alignment strategies, enable rapid and accurate alignment of sequencing reads. This new indexing scheme is called a Hierarchical Graph FM index (HGFM).

more at https://ccb.jhu.edu/software/hisat2/index.shtml

Address of the bookmark: https://github.com/infphilo/hisat2