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	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/31343?offset=850</link>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/41831/merqury-reference-free-quality-and-phasing-assessment-for-genome-assemblies</guid>
	<pubDate>Sat, 06 Jun 2020 05:38:34 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/41831/merqury-reference-free-quality-and-phasing-assessment-for-genome-assemblies</link>
	<title><![CDATA[Merqury: reference-free quality and phasing assessment for genome assemblies]]></title>
	<description><![CDATA[<p><span>Often, genome assembly projects have illumina whole genome sequencing reads available for the assembled individual. The k-mer spectrum of this read set can be used for independently evaluating assembly quality without the need of a high quality reference. Merqury provides a set of tools for this purpose.</span></p>
<p><span><a href="https://github.com/marbl/meryl">https://github.com/marbl/meryl</a></span></p><p>Address of the bookmark: <a href="https://github.com/marbl/merqury" rel="nofollow">https://github.com/marbl/merqury</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</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/38561/hawkeye-an-interactive-visual-analytics-tool-for-genome-assemblies</guid>
	<pubDate>Tue, 01 Jan 2019 11:56:17 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/38561/hawkeye-an-interactive-visual-analytics-tool-for-genome-assemblies</link>
	<title><![CDATA[Hawkeye: an interactive visual analytics tool for genome assemblies]]></title>
	<description><![CDATA[<p><span>Genome sequencing remains an inexact science, and genome sequences can contain significant errors if they are not carefully examined. Hawkeye is our new visual analytics tool for genome assemblies, designed to aid in identifying and correcting assembly errors. Users can analyze all levels of an assembly along with summary statistics and assembly metrics, and are guided by a ranking component towards likely mis-assemblies. Hawkeye is freely available and released as part of the open source AMOS project&nbsp;</span><span><a href="http://amos.sourceforge.net/hawkeye"><span>http://amos.sourceforge.net/hawkeye</span></a></span><span>.</span></p>
<p>https://genomebiology.biomedcentral.com/articles/10.1186/gb-2007-8-3-r34</p><p>Address of the bookmark: <a href="http://amos.sourceforge.net/wiki/index.php?title=Hawkeye" rel="nofollow">http://amos.sourceforge.net/wiki/index.php?title=Hawkeye</a></p>]]></description>
	<dc:creator>Abhimanyu Singh</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/39236/causel-an-epigenome-and-genome-editing-pipeline-for-establishing-function-of-noncoding-gwas-variants</guid>
	<pubDate>Tue, 09 Apr 2019 07:23:37 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/39236/causel-an-epigenome-and-genome-editing-pipeline-for-establishing-function-of-noncoding-gwas-variants</link>
	<title><![CDATA[CAUSEL: an epigenome- and genome-editing pipeline for establishing function of noncoding GWAS variants]]></title>
	<description><![CDATA[<p><span>Validated a widely accessible approach that can be used to establish functional causality for noncoding sequence variants identified by GWASs.</span></p>
<p><a href="https://www.nature.com/articles/nm.3975">https://www.nature.com/articles/nm.3975</a></p><p>Address of the bookmark: <a href="https://www.nature.com/articles/nm.3975" rel="nofollow">https://www.nature.com/articles/nm.3975</a></p>]]></description>
	<dc:creator>BioJoker</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/39903/integrative-meta-assembly-pipeline-imap-chromosome-level-genome-assembler-combining-multiple-de-novo-assemblies</guid>
	<pubDate>Sat, 31 Aug 2019 11:30:41 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/39903/integrative-meta-assembly-pipeline-imap-chromosome-level-genome-assembler-combining-multiple-de-novo-assemblies</link>
	<title><![CDATA[Integrative Meta-Assembly Pipeline (IMAP): Chromosome-level genome assembler combining multiple de novo assemblies]]></title>
	<description><![CDATA[<p><span>Chromosome-level genome assembler combining multiple de novo assemblies</span></p>
<p><span><a href="https://github.com/jkimlab/IMAP">https://github.com/jkimlab/IMAP</a></span></p><p>Address of the bookmark: <a href="https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0221858" rel="nofollow">https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0221858</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>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/researchlabs/view/6233/edwards-lab</guid>
  <pubDate>Sun, 10 Nov 2013 15:07:08 -0600</pubDate>
  <link></link>
  <title><![CDATA[Edwards Lab]]></title>
  <description><![CDATA[
<p>We study the evolutionary biology of birds and relatives, combining field, museum and genomics approaches to understand the basis of avian diversity, evolution and behavior. Our guiding approaches include population genetics, which provides a quantitative framework for studying speciation, geographic variation and genome evolution; systematics, which acknowledges that the focal species of any study has relatives that are behaviorally and ecologically no less interesting; and natural history, which gives meaning to the genes and genomic patterns we study.</p>

<p>Lab page: http://www.oeb.harvard.edu/faculty/edwards/index.html</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/41144/seqmule-automated-human-exomegenome-variants-detection</guid>
	<pubDate>Tue, 18 Feb 2020 03:22:54 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/41144/seqmule-automated-human-exomegenome-variants-detection</link>
	<title><![CDATA[SeqMule: Automated human exome/genome variants detection]]></title>
	<description><![CDATA[<p>SeqMule takes single-end or paird-end FASTQ or BAM files, generates a script consisting of more than 10 popular alignment, analysis tools and runs the script line by line. Users can change the pipeline or fine-tune the parameters by modifying its configuration file.</p><p>Address of the bookmark: <a href="https://doc-openbio.readthedocs.io/projects/seqmule/en/latest/" rel="nofollow">https://doc-openbio.readthedocs.io/projects/seqmule/en/latest/</a></p>]]></description>
	<dc:creator>BioStar</dc:creator>
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