<![CDATA[BOL: Related items]]> https://bioinformaticsonline.com/related/26426?offset=460 https://bioinformaticsonline.com/opportunity/view/21242/summer-intern-research-bioinformatics Mon, 16 Feb 2015 12:26:32 -0600 <![CDATA[Summer Intern - Research Bioinformatics]]> Be proficient in LINUX, know perl or python, understand biology and Next Generation Sequencing.
The intern will port Agile Assay Design pipelines into Galaxy.
The intern will also learn to develope his/her own bioinformatics pipelines for PCR or NGS data analysis.

Who you are
You’re someone who wants to influence your own development. You’re looking for a company where you have the opportunity to pursue your interests across functions and geographies. Where a job title is not considered the final definition of who you are, but the starting point.

Qualifications:
Major: Bioinformatcis or biology major who is interested and wants to learn Biocomputing, At least 2 years of college.
Basic knowledge of LINUX and programming, e.g., perl, python, XML.

More at http://www.roche.com/careers/jobs/jobsearch/job.htm?id=E-00437679&locale=en&title=Summer%20Intern%20-%20Research%20Bioinformatics

]]> https://bioinformaticsonline.com/bookmarks/view/39250/darwin-wga-a-co-processor-provides-increased-sensitivity-in-whole-genome-alignments-with-high-speedup Sat, 13 Apr 2019 08:55:31 -0500 https://bioinformaticsonline.com/bookmarks/view/39250/darwin-wga-a-co-processor-provides-increased-sensitivity-in-whole-genome-alignments-with-high-speedup <![CDATA[Darwin-WGA: A Co-processor Provides Increased Sensitivity in Whole Genome Alignments with High Speedup]]> Darwin-WGA, is the first hardware accelerator for whole genome alignment and accelerates the gapped filtering stage. Darwin-WGA also employs GACT-X, a novel algorithm used in the extension stage to align arbitrarily long genome sequences using a small on-chip memory, that provides better quality alignments at 2× improvement in memory and speed over the previously published GACT algorithm. Implemented on an FPGA, Darwin-WGA provides up to 24× improvement (performance/$) in WGA over iso-sensitive software.

https://stanford.edu/~yatisht/pubs/darwin-wga.pdf

Address of the bookmark: https://github.com/gsneha26/Darwin-WGA

]]> Jit https://bioinformaticsonline.com/opportunity/view/21436/jrf-bioinformatics-iisr-kozhikode Tue, 24 Feb 2015 08:44:17 -0600 <![CDATA[JRF Bioinformatics @ IISR, Kozhikode]]> JRF Bioinformatics Jobs recruitment in Indian Institute of Spices Research on temporary basis

Name of the Scheme : Distributed Information Sub Centre – DISC

Qualifications : M.Sc/ B Tech in Bioinformatics with NET/GATE or M Tech in Bioinformatics

Number of posts : One

Emoluments : Rs. 25,000/-

Upper age limit : 35 years for Men & 40 years for Women as on date of Interview
How to apply

Date of Interview : 12-03-2015 at 10.00 AM. All relevant certificates (in original) and bio data, No objection certificate in case he/she is employed elsewhere and experience certificate in original (if any) need to be produced at the time of interview.

More at http://spices.res.in/index.php?option=com_content&view=article&id=263

]]> https://bioinformaticsonline.com/bookmarks/view/40549/mgse-mapping-based-genome-size-estimation Fri, 17 Jan 2020 02:11:43 -0600 https://bioinformaticsonline.com/bookmarks/view/40549/mgse-mapping-based-genome-size-estimation <![CDATA[MGSE: Mapping-based Genome Size Estimation]]> MGSE can harness the power of files generated in genome sequencing projects to predict the genome size. Required are the FASTA file containing a high continuity assembly and a BAM file with all available reads mapped to this assembly. The script construct_cov_file.py (https://doi.org/10.1186/s12864-018-5360-z) allows the generation of a COV file based on the (sorted) BAM file (also possible via MGSE directly). Next, this COV file can be used by MGSE to calculate the coverage in provided reference regions and to calculate the total number of mapped bases. Both values are subjected to the genome size estimation. Providing accurate reference regions is crucial for this genome size estimation.

Address of the bookmark: https://github.com/bpucker/MGSE

]]> Shruti Paniwala https://bioinformaticsonline.com/bookmarks/view/41330/u-plot-genome-u-plot-sample-implementation Tue, 03 Mar 2020 01:39:12 -0600 https://bioinformaticsonline.com/bookmarks/view/41330/u-plot-genome-u-plot-sample-implementation <![CDATA[U-Plot: Genome U-Plot sample implementation]]> The Genome U-Plot is a JavaScript tool to visualize Chromosomal abnormalities in the Human Genome using a U-shape layout.

image

Address of the bookmark: https://github.com/gaitat/GenomeUPlot

]]> Rahul Nayak https://bioinformaticsonline.com/opportunity/view/21830/research-associate-bioinformatics-job-position-in-indian-agricultural-statistics-research-institute-iasri Tue, 31 Mar 2015 20:45:14 -0500 <![CDATA[Research Associate Bioinformatics job position in Indian Agricultural Statistics Research Institute (IASRI)]]> Research Associate Bioinformatics job position in Indian Agricultural Statistics Research Institute (IASRI)

Qualification : Ph.D. in Bioinformatics/ Agricultural Statistics/ Statistics/ Computer Science/ Computer Application/ Life Science/ Biotechnology/ Agricultural Science or equivalent. Desirable: Knowledge of Statistical and Computational Genomics/ Proteomics/ Bioinformatics OR Post-Graduation in Bioinformatics/ Agricultural Statistics/ Statistics/ Computer Science/ Computer Application/ Life Science/ Biotechnology/ Agricultural Science or equivalent with 1st Division or 60% marks or equivalent with at least two years of research experience. Desirable:Expertise on use of various software/ tool.

No.of Post: 2

Emoluments for RA: Consolidated Rs. 24000/- per month + 30% HRA for Ph.D holders and consolidated Rs. 23000/- per month + 30% HRA for Master Degree.

Age Limit : Age should not be more than 40 years for the post of Research associate (5 years relaxation for SC/ST/ women candidates) and 3 years for OBC candidates as on date of interview.
How to apply

Interested candidates are invited to appear for Walk-In interview at Indian Agricultural Statistics Research Institute, Library Avenue, Pusa, New Delhi -110012, along with filled in application form , all the original certificates from matriculation onwards, Ph.D. or M.Sc. certificate (as the case may be) must be produced at the time of interview in either original or provisional, Bio-Data, attested copies of all experience certificates, testimonials etc., one passport size photograph and one set of the self-attested photocopies of all the required certificates from matriculation onwards and an attested copy of recent passport size photograph pasted onto the application form. Walk-in interview will be held on 16th April, 2015 at 10:30 a.m.

Click Here for Job Details & Application Form http://www.iasri.res.in/employment/employment.htm

]]> https://bioinformaticsonline.com/blog/view/33629/list-of-universities-offering-bachelor-master-or-phd-bioinformatics-degree-in-malaysia Thu, 22 Jun 2017 01:34:02 -0500 https://bioinformaticsonline.com/blog/view/33629/list-of-universities-offering-bachelor-master-or-phd-bioinformatics-degree-in-malaysia <![CDATA[List of universities offering Bachelor, Master or PhD bioinformatics degree in Malaysia]]> Bioinformatics is a newly emerging interdisciplinary research area, which may be defined as the ―interface between biological and computational sciences. Most of the Bioinformatics work that is done can be described as analyzing biological data, although a growing number of projects deal with the organization of biological information. The global Bioinformatics industry has grown at a double-digit growth rate in the past and is expected to follow the same pattern in the next four years. US remains the largest market in the world, but Asia-Pacific countries, particularly India and China, are witnessing the fastest growth and are anticipated to emerge as the dominating forces in future. The Comparison of Bioinformatics Industry between Malaysia, India and other countries are discussed in this http://ijbssnet.com/journals/Vol.%202_No._10;_June_2011/11.pdf paper.

Bioinformatics is full of opportunities. The sector is poised to open new avenues for the other related sectors also. But the biggest opportunity area in the Bioinformatics market will be in the drug discovery sector. Reduction of both the cost and time taken to discover a new drug due to fast development in the Bioinformatics tools and software zone is also making drug discovery an attractive field to venture in. Malaysian bioinformatics growth and future are discuss in this https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2723929/ paper. Keeping all such inportance in mind, following universities in Malaysia offering bioinformatics cources:

3 program(s) at AIMST University, Malaysia

Master of Science in Biotechnology (MSc) - Bioinformatics by Research

Master of Science (M.Sc) in Medical Microbiology (Bioinformatics) by Research

Doctor of Philosophy in Biotechnology (PhD) - Bioinformatics by Research

 

1 program(s) at INTI International University and Colleges, Malaysia

American Degree Transfer Program (Biosciences) in Bioinformatics

 

3 program(s) at Management and Science University (MSU), Malaysia

Master in Bioinformatics (By Research)

PhD in Bioinformatics

Bachelor in Bioinformatics (Hons)

 

1 program(s) at Multimedia University (MMU), Malaysia

Bachelor of Science (Honours) Bioinformatics

 

1 program(s) at Universiti Industri Selangor (UNISEL) Bestari Jaya Campus, Malaysia

Bachelor of Bioinformatics (Hons)

 

2 program(s) at Universiti Malaysia Sabah (UMS), Malaysia

PhD - Doctor of Philosophy in Bioinformatics (By Research)

MSc - Master of Science in Bioinformatics (By Research)

 

6 program(s) at Universiti Putra Malaysia (UPM), Malaysia

MSc - Master of Science in Bioinformatics by Research

Master of Science in Bioinformatics and System Biology by Research

Master of Science (M.Sc) in Bioinformatics and Systems Biology (With Thesis)

PhD - Doctor of Philosophy in Bioinformatics by Research

PhD - Doctor of Philosophy in Bioinformatics and Systems Biology (With Thesis)

PhD - Doctor of Philosophy in Bioinformatics and System Biology by Research

 

1 program(s) at Universiti Selangor (UNISEL), Malaysia

Bachelor of Bioinformatics (Hons)

 

3 program(s) at Universiti Teknologi Malaysia (UTM), Malaysia

M.Sc - Master of Science (Bioscience) in Bioinformatics Research Group (BIRG) By Research

PhD - Doctor of Philosophy (Bioscience) in Bioinformatics Research Group (BIRG) By Research

Bachelor of Computer Science (BioInformatics)

 

4 program(s) at University of Malaya (UM), Malaysia

MSc - Master of Science in Bioinformatics by Research

Master in Bioinformatics by Coursework

PhD - Doctor of Philosophy in Bioinformatics by Research

Bachelor of Science (BSc) in Bioinformatics

 

3 program(s) at Perdana University, Malaysia

Master in Bioinformatics (By Research)

PhD in Bioinformatics

Bachelor in Bioinformatics (Hons)

 

3 program(s) at Monash University, Malaysia

Master in Bioinformatics (By Research)

PhD in Bioinformatics

Bachelor in Bioinformatics (Hons)

 

The real bioinformatics scope lies if there are research labs which work in this field. One has to take account of that. If so then try to get information of those labs and visit them to get a hang of the work they pursue. For detail Bioinformatics in Malaysia: Hope, Initiative, Effort, Reality, and Challenges are discussed in https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2723929/ paper.

]]> sahabuddin https://bioinformaticsonline.com/bookmarks/view/43110/quasimodo-quasispecies-metric-determination-on-omics Sat, 26 Jun 2021 15:22:56 -0500 https://bioinformaticsonline.com/bookmarks/view/43110/quasimodo-quasispecies-metric-determination-on-omics <![CDATA[QuasiModo - Quasispecies Metric Determination on Omics]]> This repository contains the scripts and pipeline that reproduces the results of the HCMV benchmarking study. In this study we evaluated genome assemblers and variant callers on 10 in vitro generated, mixed strain HCMV sequence samples, each consisting of two lab strains in different abundance ratios. This tool can also be used to evaluate assemblies and variant calling results on other similar datasets.

https://academic.oup.com/bib/article/22/3/bbaa123/5868070

Address of the bookmark: https://github.com/hzi-bifo/Quasimodo

]]> Neel https://bioinformaticsonline.com/opportunity/view/21685/uiar-short-term-trainingfinal-year-dissertation-project-in-life-sciencesbioinformaticsbiotech Mon, 16 Mar 2015 23:56:25 -0500 <![CDATA[UIAR Short-Term Training/Final Year Dissertation Project in Life Sciences/Bioinformatics/Biotech]]> Short-term training/Final year dissertation project

Candidates desirous of doing a short-term training / final year dissertation project for MSc (Life Sciences/Bioinformatics/Biotechnology or any science discipline) at UIAR Biophysics and Bioinformatics department may please drop an email atanju@iiar.res.in along with their resume.

Selected candidates will be further intimated. There will be a fees charged for doing the project at UIAR. The projects will be experimental or computational or involve both.

The training scope will be in the following areas but not limited to:

Bioinformatics analysis, Docking and Virtual screening, Molecular Dynamics simulation, Cloning, expression and purification of proteins, Biophysical and Biochemical characterisation of proteins, Crystallization and Structural Studies.

Advertisement: www.iiar.res.in/?q=node/450

]]> https://bioinformaticsonline.com/bookmarks/view/43427/ogdraw-draw-organelle-genome-maps Tue, 05 Oct 2021 03:34:35 -0500 https://bioinformaticsonline.com/bookmarks/view/43427/ogdraw-draw-organelle-genome-maps <![CDATA[OGDRAW - Draw Organelle Genome Maps]]> OrganellarGenomeDRAW converts annotations in the GenBank or EMBL/ENA format into graphical maps. The input has to be a GenBank or EMBL/ENA flat file wherase the output can vary among several types of files. The application is optimized to create detailed high-quality maps of organellar genomes (plastid and mitochondria). Nevertheless, you can upload most database entries.

 

Please take a look at our FAQ section and do not hesitate to report bugs or suggestions for improvements by email.

Address of the bookmark: https://chlorobox.mpimp-golm.mpg.de/OGDraw.html

]]> Abhi