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	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/28809?offset=1220</link>
	<atom:link href="https://bioinformaticsonline.com/related/28809?offset=1220" rel="self" type="application/rss+xml" />
	<description><![CDATA[]]></description>
	
	
<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/5255/walk-in-interview-indian-agricultural-statistics-research-institute</guid>
  <pubDate>Wed, 02 Oct 2013 15:40:17 -0500</pubDate>
  <link></link>
  <title><![CDATA[Walk-in-Interview @ Indian Agricultural Statistics Research Institute]]></title>
  <description><![CDATA[
<p>Indian Agricultural Statistics Research Institute<br />Library Avenue, Pusa, New Delhi – 110012</p>

<p>Walk-in-Interview</p>

<p>Walk-in-interview will be held on October 5, 2013 at 10:00 A.M. at IASRI, New Delhi for a project “A New Distributed Computing Framework for Data Mining” funded by Department of Electronics and Information Technology, Government of India for the following posts. The appointment will be on contractual basis upto 14th October, 2015 or till the termination of the project whichever is earlier and the incumbent shall not have any claim for regular appointment under ICAR.</p>

<p>Research Associate</p>

<p>    Ph.D. in Bioinformatics/ Agricultural Statistics/ Statistics/ Computer Science/ Computer Application or equivalent or</p>

<p>    Post-Graduation in Bioinformatics/ Agricultural Statistics/ Statistics/ Computer Science/ Computer Application or equivalent with 1st Division and at least two years of research experience</p>

<p>     Knowledge of Statistical Analysis /Bioinformatics tools for computational genomics.</p>

<p>     Knowledge of R/Perl programming language</p>

<p>Research Associate</p>

<p>    Ph.D. in Computer Science/ Computer Application / Bioinformatics/ Agricultural<br />    Statistics/ Statistics or equivalent or</p>

<p>    Post-Graduation in Computer Science/ Computer Application /Bioinformatics/ Agricultural Statistics/ Statistics or equivalent with 1st Division and at least two years of research experience</p>

<p>     Expertise in Java programming.<br />     Knowledge of system administration and networking under Linux environment.<br />     Knowledge of parallel programming and cluster computing.</p>

<p>Emoluments for Research Associate: Consolidated Rs:24000/- per month + HRA (for Ph.D. Degree holders) and Rs:23000/- per month + HRA (for Master’s Degree holders)</p>

<p>Age Limit: Age should be not more than 40 years (5 years relaxation for  SC/ST/women candidates and 3 years for OBC candidates as on date of interview).</p>

<p>Interested candidates are requested to appear for Walk-in-Interview on the date and time as specified above in Room No. 106, Training Cum Administrative Block of the Institute along with their application giving bio-data with attested copies of certificates, degrees, testimonials, etc. and one passport size photograph.</p>

<p>Original certificates/ Degrees are needed to be produced at the time of interview.</p>

<p>No T.A. /D.A. will be paid for appearing in the interview.</p>

<p>Advertisement: http://www.iasri.res.in/employment/employment.htm</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/34620/mash-fast-genome-and-metagenome-distance-estimation-using-minhash</guid>
	<pubDate>Tue, 12 Dec 2017 17:30:12 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/34620/mash-fast-genome-and-metagenome-distance-estimation-using-minhash</link>
	<title><![CDATA[Mash: fast genome and metagenome distance estimation using MinHash]]></title>
	<description><![CDATA[<p>Mash is normally distributed as a dependency-free binary for Linux or OSX (see&nbsp;<a href="https://github.com/marbl/Mash/releases">https://github.com/marbl/Mash/releases</a>). This source distribution is intended for other operating systems or for development. Mash requires c++11 to build, which is available in and GCC &gt;= 4.8 and OSX &gt;= 10.7.</p>
<p>See&nbsp;<a href="http://mash.readthedocs.org/">http://mash.readthedocs.org</a>&nbsp;for more information.</p><p>Address of the bookmark: <a href="https://github.com/marbl/Mash/releases" rel="nofollow">https://github.com/marbl/Mash/releases</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/researchlabs/view/5422/shendure-lab</guid>
  <pubDate>Wed, 09 Oct 2013 14:21:58 -0500</pubDate>
  <link></link>
  <title><![CDATA[Shendure Lab]]></title>
  <description><![CDATA[
<p>The Shendure Lab is part of the Department of Genome Sciences at the University of Washington (Seattle, WA). The mission of the lab is to develop and apply new technologies in genomics and molecular biology. Most projects in the lab exploit new DNA sequencing technologies (Shendure et al., Nature Reviews Genetics 2004; Shendure &amp; Ji, Nature Biotechnology 2008; Shendure &amp; Lieberman Aiden, Nature Biotechnology 2012), and generally fall into one of six areas: 1) next-generation human genetics; 2) genome contiguity &amp; completeness; 3) massively parallel functional analysis; 4) molecular tagging; 5) synthetic biology; 6) translational genomics. Our interests in each of these areas are outlined briefly below, and a full list of publications is available via PubMed. http://www.ncbi.nlm.nih.gov/pubmed?cmd=search&amp;term=shendure<br />More http://krishna.gs.washington.edu/research.html</p>

<p>Lab page @ http://krishna.gs.washington.edu/index.html</p>
]]></description>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/researchlabs/view/5661/shankar-lab</guid>
  <pubDate>Wed, 16 Oct 2013 07:02:22 -0500</pubDate>
  <link></link>
  <title><![CDATA[Shankar Lab]]></title>
  <description><![CDATA[
<p>Research Interest:</p>

<p>(A) Regulatory System Analysis with respect to microRNAs</p>

<p>(B) Computational Epigenomics &amp; Regulomics:</p>

<p>(C) Computational issues with Next Generation Sequencing:</p>

<p>Department of Biotechnology, <br />Institute of Himalyan Bioresources Technology<br />CSIR, Palampur(Himachal Pradesh), India.<br />Email: ravishihbt.res.in; ravish9gmail.com</p>

<p>More @ http://scbb.ihbt.res.in/SCBB_dept/Lab_Member.php</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/36218/g-compass-a-comparative-genome-browser</guid>
	<pubDate>Thu, 12 Apr 2018 10:00:27 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/36218/g-compass-a-comparative-genome-browser</link>
	<title><![CDATA[G-compass: a comparative genome browser]]></title>
	<description><![CDATA[<p><span>G-compass (</span><a href="http://www.h-invitational.jp/g-compass/" target="_top">http://www.h-invitational.jp/g-compass/</a><span>) is a comparative genome browser. It visualizes evolutionarily conserved genomic regions between human and other 12 vertebrates based on original genome alignments pursuing higher coverage (1,2). Annotations of human genes/transcripts and their ortholog information were derived from&nbsp;</span><a href="http://www.h-invitational.jp/hinv/ahg-db/index.jsp" target="_top">H-InvDB</a><span>&nbsp;and its subdatabase&nbsp;</span><a href="http://www.h-invitational.jp/evola/" target="_top">Evola</a><span>, respectively. G-compass is available for free of charge. [&nbsp;</span><a href="http://www.h-invitational.jp/g-compass/cgi-bin/gc_main.cgi?species_1=Hg18&amp;species_2=pt2&amp;strand_1=%2B&amp;strand_2=%2B&amp;from_win=main&amp;gen_str=2&amp;chr_1=01&amp;chr_2=01&amp;st_1=103804298&amp;ed_1=104204297&amp;st_2=105235351&amp;ed_2=105635350" target="_top">Sample</a><span>&nbsp;]</span></p><p>Address of the bookmark: <a href="http://www.h-invitational.jp/g-compass/" rel="nofollow">http://www.h-invitational.jp/g-compass/</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/researchlabs/view/5747/dbbrowser-attwood-lab</guid>
  <pubDate>Fri, 18 Oct 2013 10:48:19 -0500</pubDate>
  <link></link>
  <title><![CDATA[DbBrowser: Attwood Lab]]></title>
  <description><![CDATA[
<p>DbBrowser: Attwood Lab research concerns protein sequence analysis, primarily using the method of protein 'fingerprinting'. DbBrowser: Attwood Lab maintain a diagnostic fingerprint database (PRINTS), one of the founding partner of InterPro. We also design software to display sequence and structural data in visually-striking ways (e.g., Ambrosia, CINEMA); DbBrowser: Attwood Lab are building re-usable software components to create semantically integrated bioinformatics applications through UTOPIA, including a 'smart' PDF reader that links bioinformatics databases and tools directly with scientific articles (Utopia Documents); and have developed a number of tools for automatic annotation and text mining (e.g., MINOTAUR, PRECIS, METIS). </p>

<p>More @ http://www.bioinf.manchester.ac.uk/dbbrowser/index.php</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/36635/circlator-automated-circularization-of-genome-assemblies-using-long-sequencing-reads</guid>
	<pubDate>Tue, 15 May 2018 09:42:32 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/36635/circlator-automated-circularization-of-genome-assemblies-using-long-sequencing-reads</link>
	<title><![CDATA[Circlator: automated circularization of genome assemblies using long sequencing reads]]></title>
	<description><![CDATA[A tool to circularize genome assemblies. The algorithm and benchmarks are described in the Genome Biology manuscript. 

Citation: "Circlator: automated circularization of genome assemblies using long sequencing reads", Hunt et al, Genome Biology 2015 Dec 29;16(1):294. doi: 10.1186/s13059-015-0849-0. PMID: 26714481.<p>Address of the bookmark: <a href="http://sanger-pathogens.github.io/circlator/" rel="nofollow">http://sanger-pathogens.github.io/circlator/</a></p>]]></description>
	<dc:creator>Poonam Mahapatra</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/5946/bioinformatics-tata-memorial-centre-navi-mumbai</guid>
  <pubDate>Mon, 28 Oct 2013 10:40:25 -0500</pubDate>
  <link></link>
  <title><![CDATA[Bioinformatics @ TATA MEMORIAL CENTRE, NAVI MUMBAI]]></title>
  <description><![CDATA[
<p>TATA MEMORIAL CENTRE<br />ADVANCED CENTRE FOR TREATMENT, RESEARCH AND EDUCATION IN CANCER<br />KHARGHAR, NAVI MUMBAI – 410210</p>

<p>No. ACTREC/Advt./ 72 /2013</p>

<p>WALK IN INTERVIEW</p>

<p>1. JRF*<br />Genome-wide RNAi screen with human pooled tyrosine kinase shRNA libraries in head and neck squamous call carcinoma (HNSCC) cell lines<br />DBT A/C No. 3071, Dr. Amit Dutt</p>

<p>2. JRF<br />IRB Project ACTREC Funds<br />Dr. Amit Dutt</p>

<p>3. RA<br />Defining the cancer genome of Head and Neck Squamous Cell Carcinoma (HNSCC) with SNP arrays and next generation sequencing technology<br />A/C No. 2895, Dr. Amit Dutt</p>

<p>Duration of the Project: One year from the date of appointment, or as and when project terminates.</p>

<p>Consolidated Salary: RA : Rs. 40,000/- p.m.<br />JRF* (DBT): Rs. 20,800/- p.m.<br />JRF: Rs. 16,000/- p.m.<br />Date &amp; Time: 6th November, 2013, at 10.00 a.m.</p>

<p>Venue: Conference Room</p>

<p>Minimum Qualifications and Experience:</p>

<p>RA: The ideal applicant should have a PhD in a relevant field. He/she should have a strong computational biology background, with demonstrated experience in coding using Perl, Python, Java or C++. He/she should be familiar with working in unix enviromnent, devising computational algorithms for data analysis, statistical data analysis in R and matlab and database programming using MySQL. Hands on experience in analyzing high throughput data would be an added advantage.</p>

<p>JRF* (DBT project): M.Sc. in Life Sciences or M.Tech in Biotechnology with good academic record (Minimum of 60% aggregate). Valid UGC-CSIR/DBT/ICMR JRF qualification and laboratory experience in molecular biology. Previous experience in molecular biology and animal tissue culture with high throughput platforms and ability to work with a large team would be desirable.</p>

<p>JRF (ACTREC project): M.Sc. in Life Sciences or M.Tech in Biotechnology with good academic record (Minimum of 60% aggregate). Minimum 2 yrs experience in molecular biology and animal tissue culture with high throughput platforms and ability to work with a large team is essential.</p>

<p>*M.Sc. degree obtained after a one year course will not be considered.</p>

<p>Candidates fulfilling above requirements should send their application by e-mail to<br />‘careers.duttlab@gmail.com. in the format given below so as to reach on or before<br />4th November, 2013.</p>

<p>Advertisement:</p>

<p>http://www.actrec.gov.in/data%20files/2013/AD-RA-JR-TECHN-6-NOV.pdf</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/36935/assemblytics-delta-file-to-analyze-alignments-of-an-assembly-to-another-assembly-or-a-reference-genome</guid>
	<pubDate>Thu, 14 Jun 2018 07:31:00 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/36935/assemblytics-delta-file-to-analyze-alignments-of-an-assembly-to-another-assembly-or-a-reference-genome</link>
	<title><![CDATA[assemblytics: delta file to analyze alignments of an assembly to another assembly or a reference genome]]></title>
	<description><![CDATA[Download and install MUMmer
Align your assembly to a reference genome using nucmer (from MUMmer package)
$ nucmer -maxmatch -l 100 -c 500 REFERENCE.fa ASSEMBLY.fa -prefix OUT
Consult the MUMmer manual if you encounter problems

Optional: Gzip the delta file to speed up upload (usually 2-4X faster)
$ gzip OUT.delta
Then use the OUT.delta.gz file for upload.
Upload the .delta or delta.gz file (view example) to Assemblytics
Important: Use only contigs rather than scaffolds from the assembly. This will prevent false positives when the number of Ns in the scaffolded sequence does not match perfectly to the distance in the reference.

The unique sequence length required represents an anchor for determining if a sequence is unique enough to safely call variants from, which is an alternative to the mapping quality filter for read alignment.

http://assemblytics.com/<p>Address of the bookmark: <a href="http://assemblytics.com/" rel="nofollow">http://assemblytics.com/</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/6012/project-junior-research-fellow-ccmb</guid>
  <pubDate>Fri, 01 Nov 2013 10:38:22 -0500</pubDate>
  <link></link>
  <title><![CDATA[Project Junior Research Fellow @ CCMB]]></title>
  <description><![CDATA[
<p>Temporary Project positions available purely on temporary basis - Oct/2013</p>

<p>1. Project Junior Research Fellow / Project Assistant</p>

<p>Last Date: 11th Nov 2013</p>

<p>Qualification B.Tech (Comp. Sci.), B.Tech/M.Tech (Bioinformatics), MCA,  M.Sc. (Mathematics/Statistics)</p>

<p>Desirable Qualifications: Programming in FORTRAN/ C /PERL, Web application technologies</p>

<p>Upper Age limit 28</p>

<p>Rs.12000 / Rs.16000 (as sanctioned by the funding agency)</p>

<p>General terms and conditions:</p>

<p>    Positions are purely temporary and co-terminus with the project.</p>

<p>    HRDG (CSIR) prevailing guidelines are applicable these positions.</p>

<p>    All categories of applicants are required to submit online application.</p>

<p>    Enhancement of stipend to Project JRF to Project SRF will be with the due recommendation of Principal Investigator and approval of the Director on the evaluation of the 3 member Standing Committee consisting of Chairperson at the level of Chief Scientist, Coordinator of the JRFs/RAs/PDFs and the Principal Investigator of the Project.</p>

<p>    The age relaxation as per HRDG (CSIR) norms: SC/ST/OBC/Women/Physically Handicapped persons – five years.</p>

<p>    The Stipend normally be fixed at Rs.22000/- for Research Associates/Post Doc. Fellows. However, a selected RA/PDF may be placed in the higher start of stipend if there is ample justification and such recommendation is made by the Selection Committee. Based on the recommendation with justification by the PI and approval of the Director, person getting stipend at lower rate may be elevated to higher rate subject to availability of the funds in the project.</p>

<p>    Recruitment will be based on initial screening based on qualifications and experience criteria and also based on suitability of the candidates to the nature of research project. This screening will be followed by written test followed / interview. After completing this process, candidates will be shortlisted and appointed in specific project subjects as and when appropriate positions become available. The pool of selected candidates will be valid for six months.</p>

<p>    Remunerations indicate are maximum admissible and will depend upon the availability of funds and subject to conditions applicable to projects from different funding agencies at the time of recruitment.</p>

<p>Apply : http://www.ccmb.res.in/positions/projects/temp_positions.php</p>

<p>Form download : http://www.ccmb.res.in/positions/projects/oct-2013/pdf_download.php</p>
]]></description>
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