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	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/30234?offset=1550</link>
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	<description><![CDATA[]]></description>
	
	<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/37835/variantbam-filtering-and-profiling-of-next-generational-sequencing-data-using-region-specific-rules</guid>
	<pubDate>Thu, 04 Oct 2018 16:30:44 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/37835/variantbam-filtering-and-profiling-of-next-generational-sequencing-data-using-region-specific-rules</link>
	<title><![CDATA[VariantBam: Filtering and profiling of next-generational sequencing data using region-specific rules]]></title>
	<description><![CDATA[<p>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.</p>
<h5>&nbsp;</h5><p>Address of the bookmark: <a href="https://github.com/broadinstitute/VariantBam" rel="nofollow">https://github.com/broadinstitute/VariantBam</a></p>]]></description>
	<dc:creator>Rahul Nayak</dc:creator>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/23672/jrf-in-bioinformatics-rajiv-gandhi-centre-for-biotechnology-rgcb-thiruvananthapuram</guid>
  <pubDate>Sat, 08 Aug 2015 01:22:29 -0500</pubDate>
  <link></link>
  <title><![CDATA[JRF in Bioinformatics @ Rajiv Gandhi Centre for Biotechnology (RGCB), Thiruvananthapuram]]></title>
  <description><![CDATA[
<p>Rajiv Gandhi Centre for Biotechnology (RGCB), Thiruvananthapuram<br />Job Code: 060815(10)Y</p>

<p>Jr Research Fellow Posts At Rajiv Gandhi Centre for Biotechnology<br />Rajiv Gandhi Centre for Biotechnology (RGCB) invites applications to recruit on vacant posts of Junior Research Fellow (JRF). Applications against these Government Jobs can be submitted on or before 15 August 2015.</p>

<p>Rajiv Gandhi Centre for Biotechnology Vacancy 2015 Details<br />Name of the post – Junior Research Fellow (JRF)<br />Total vacancies –</p>

<p>Age Limit: Below 28 years as on 15-08-2015.</p>

<p>Qualification(s): Masters Degree in Life Sciences/Biotechnology/Bioinformatics.</p>

<p>How to Apply: Duly filled-in applications in prescribed application format along with copies of required documents should be reach to: Rajiv Gandhi Centre for Biotechnology Thycaud PO, Poojappura, Thiruvananthapuram – 695014, Kerala. </p>

<p>More at http://rgcb.res.in/temporary-position-available-10/</p>
]]></description>
</item>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/39726/jackalope-a-swift-versatile-phylogenomic-and-high-throughput-sequencing-simulator</guid>
	<pubDate>Fri, 26 Jul 2019 00:58:12 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/39726/jackalope-a-swift-versatile-phylogenomic-and-high-throughput-sequencing-simulator</link>
	<title><![CDATA[jackalope: A swift, versatile phylogenomic and high-throughput sequencing simulator]]></title>
	<description><![CDATA[<p><code>jackalope</code> 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&mdash;the latter of which can include selection, recombination, and demographic fluctuations. <code>jackalope</code> 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.</p>
<p><span>A swift, versatile phylogenomic and high-throughput sequencing simulator </span> <span><a href="https://jackalope.lucasnell.com">https://jackalope.lucasnell.com</a></span></p><p>Address of the bookmark: <a href="https://github.com/lucasnell/jackalope" rel="nofollow">https://github.com/lucasnell/jackalope</a></p>]]></description>
	<dc:creator>Abhimanyu Singh</dc:creator>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/23577/senior-research-fellow-srf-bioinformatics-at-aiims-india</guid>
  <pubDate>Tue, 04 Aug 2015 03:14:32 -0500</pubDate>
  <link></link>
  <title><![CDATA[Senior Research Fellow (SRF) Bioinformatics at AIIMS, India]]></title>
  <description><![CDATA[
<p>DEPARTMENT OF BIOTECHNOLOGY<br />ALL INDIA INSTITUTE OF MEDICAL SCIENCES<br />NEW DELHI-110029</p>

<p>Requirement of Senior Research Fellow Applications are invited for the following vacancy under Research project entitled “Exploiting temporal transcription profile, computational analysis and post-transcriptional gene silencing to identify and intercept interactions between host and dormant and actively replicating Mycobacterium tuberculosis”</p>

<p>Senior Research Fellow One</p>

<p>M.Sc. Degree in Biotechnology/ /Microbiology/Bioinformatics and 2 years research experience in the relevant field NET/GATE Qualification with at least 2 years research experience in M. tuberculosis culture and related techniques as well as transcriptome data generation and analysis.</p>

<p>1 year</p>

<p>1. Age relaxation for SC/ST/OBC/PH Candidates will be as per the government rules.</p>

<p>2. Qualification/degree should be from a reputed Institution/University.</p>

<p>3. Mere fulfilling the essential qualification/experience does not guarantee selection.</p>

<p>4. Canvassing in any form will be a disqualification.</p>

<p>5. No TA/DA will be paid either for attending the interview or joining the post.</p>

<p>Interested candidates are to submit their Curriculum Vitae by 5 PM on 17th August, 2015 to Room No.107, Department of Biotechnology, AIIMS, New Delhi-29.</p>

<p>Only shortlisted candidates will be notified by email for interview</p>

<p>Advertisement:</p>

<p>www.aiims.edu/images/pdf/recruitment/advertisement/advertisement%20of%20SRF_N1306.pdf</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/41009/genomics-public-data-links</guid>
	<pubDate>Thu, 13 Feb 2020 00:20:00 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/41009/genomics-public-data-links</link>
	<title><![CDATA[genomics public data links !]]></title>
	<description><![CDATA[<p>List of publically available databases on google server.</p>
<p>More at <a href="https://software.broadinstitute.org/gatk/download/bundle">https://software.broadinstitute.org/gatk/download/bundle</a></p>
<p><a href="ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606/VCF/GATK/">ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606/VCF/GATK/</a>.</p>
<p><a href="ftp://ftp.broadinstitute.org/bundle/hg38/hg38bundle/">ftp://ftp.broadinstitute.org/bundle/hg38/hg38bundle/</a></p><p>Address of the bookmark: <a href="https://console.cloud.google.com/storage/browser/genomics-public-data/resources/broad/hg38/v0?pli=1" rel="nofollow">https://console.cloud.google.com/storage/browser/genomics-public-data/resources/broad/hg38/v0?pli=1</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/23686/bioinformatics-symposium</guid>
  <pubDate>Tue, 11 Aug 2015 04:02:59 -0500</pubDate>
  <link></link>
  <title><![CDATA[Bioinformatics Symposium]]></title>
  <description><![CDATA[
<p>This 2 day symposium will focus on topics in the below mentioned areas.</p>

<p>Experts from India and Japan in this fields will deliver lectures and contribute in discussions. This will provide an opportunity to the participants to interact and learn.</p>

<p>Topics:</p>

<p>    Algorithms for biomolecular Sequences / Structures<br />    Bioinformatics databases and tools<br />    High performance computing<br />    Large scale data analysis<br />    Protein function<br />    Structure based drug design<br />    Applications to specific diseases</p>

<p>More at http://www.iitm.ac.in/bioinfo/Symposium-2015/index.html</p>
]]></description>
</item>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/36817/kwip-the-k-mer-weighted-inner-product-a-de-novo-estimator-of-genetic-similarity</guid>
	<pubDate>Tue, 29 May 2018 08:37:53 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/36817/kwip-the-k-mer-weighted-inner-product-a-de-novo-estimator-of-genetic-similarity</link>
	<title><![CDATA[kWIP: The k-mer weighted inner product, a de novo estimator of genetic similarity]]></title>
	<description><![CDATA[<p>The k-mer Weighted Inner Product.</p>
<p>This software implements a <em>de novo</em>, <em>alignment free</em> measure of sample genetic dissimilarity which operates upon raw sequencing reads. It is able to calculate the genetic dissimilarity between samples without any reference genome, and without assembling one.</p>
<p> </p>

De novo estimates of genetic relatedness from next-gen sequencing data https://kwip.readthedocs.org<p>Address of the bookmark: <a href="https://github.com/kdmurray91/kwip" rel="nofollow">https://github.com/kdmurray91/kwip</a></p>]]></description>
	<dc:creator>Rahul Nayak</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/fun/view/23959/bioinformatics-jokes</guid>
	<pubDate>Fri, 21 Aug 2015 01:26:54 -0500</pubDate>
	<link>https://bioinformaticsonline.com/fun/view/23959/bioinformatics-jokes</link>
	<title><![CDATA[Bioinformatics Jokes !!]]></title>
	<description><![CDATA[<p>Why was the Bioinformatics fired from his job?</p><p>A: He was getting too Sassy.</p><p>&nbsp;</p><p>What did the bioinformatician say when he found out his team stopped using version control?</p><p>A: Y&rsquo;all better Git!</p><p>&nbsp;</p><p>Why did the computational biologist stay home from work?</p><p>A: He had a code!</p><p>&nbsp;</p><p>Why was the bioinformatician's paper was rejected?</p><p>A: Journal thought it seemed scripted.</p><p>&nbsp;</p><p>How can you tell that a Bioinformatics is working?</p><p>A: You can hear him Grunting!</p><p>&nbsp;</p><p>Why bioinformatician always silence?</p><p>A: Because bioinformatician calmly whisper, &ldquo;SSH&rdquo;</p><p>&nbsp;</p><p>Why was the bioinformatician always so sleepy?</p><p>A: He/She wasn&rsquo;t given any Java.</p><p>&nbsp;</p><p>Why did the program/software hanged?</p><p>A: Because genome float.</p><p>&nbsp;</p><p>Why was the class upset that its parent died?</p><p>A: Because it wouldn&rsquo;t be getting the inheritance!</p><p>&nbsp;</p><p>Why did bioinformatician always works on the command line?</p><p>A: Because they don't want to scare you with huge amount of data!</p><p>&nbsp;</p><p>Why did the bioinformatician attend the gay pride parade?</p><p>A: They supported polymorphism.</p><p>&nbsp;</p><p>Why did bioinformatician prefer awk, PerlOneliner?</p><p>A: Because even computer can't handle to load the data.</p><p>&nbsp;</p><p>Why don&rsquo;t bioinformatician get along with others?</p><p>A: They&rsquo;re too MEAN.</p><p>&nbsp;</p><p>Why computational biologist are cool?</p><p>A: Because they are scripted!!</p><p>&nbsp;</p><p>Why they talk $ unzip; strip; touch; finger; grep; mount; fsck; more; yes; fsck; fsck; umount; clean; sleep;</p><p>A: Ah, Ohhh, dude, these are *NIX commands</p><p>&nbsp;</p><p>Did they really hack genome?</p><p>A: Yes, I guess so.</p>]]></description>
	<dc:creator>Jitendra Prajapati</dc:creator>
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<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/24178/essentials-of-statistics-and-data-analysis-using-r</guid>
  <pubDate>Mon, 31 Aug 2015 01:32:12 -0500</pubDate>
  <link></link>
  <title><![CDATA[Essentials of Statistics and Data Analysis using R]]></title>
  <description><![CDATA[
<p>Clinical Development Services Agency (CDSA) is an extramural unit of Translational Health Science and Technology Institute (THSTI), Department of Biotechnology, Ministry of Science &amp; Technology, Government of India. CDSA has a national mandate of strengthening capacity and capability building in the area of Clinical development and Translational Research.</p>

<p>CDSA is pleased to announce a 4 days hands-on training program on “Essentials of Statistics and Data Analysis using R” at ICGEB, Aruna Asaf Ali Road, New Delhi on December 1 – 4, 2015. This will involve developing and enhancing skills to understand basic principles of statistics for summarizing data and use of appropriate statistical tests as well as providing an understanding of data analysis using R. Didactic lectures with practical sessions will be delivered by experienced faculties from AIIMS and Novartis. Live classroom with power point presentations, case studies, mock exercise, practical sessions on R, group work with time for discussion and Q&amp;A sessions are added advantages of this workshop.</p>

<p>Please contact gayatrivishwakarma.cdsa@thsti.res.in or vineetabaloni.cdsa@thsti.res.in for program and registration details.</p>

<p>Please nominate personage or register yourself on or before November 6, 2015 along with the electronic transfer of registration fee.</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/31278/metapred2cs</guid>
	<pubDate>Fri, 03 Mar 2017 05:15:07 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/31278/metapred2cs</link>
	<title><![CDATA[MetaPred2CS]]></title>
	<description><![CDATA[<p style="text-align: justify;"><strong>MetaPred2CS Web server&nbsp;</strong>is a meta-predictor based on&nbsp;<a href="http://www.ncbi.nlm.nih.gov/pubmed/17160063">Support Vector Machine (SVM)</a>&nbsp;that combines 6 individual sequence based protein-protein interaction prediction methods to predict&nbsp;<strong>prokaryotic two-component system&nbsp;</strong>protein-protein interactions (PPIs). The methods implemented in MetaPred2CS are 2 co-evolutionary methods:&nbsp;<a href="http://www.ncbi.nlm.nih.gov/pubmed/11933068">in-silico two hybrid (i2h)</a>&nbsp;and&nbsp;<a href="http://www.ncbi.nlm.nih.gov/pubmed/11707606">mirror tree (MT)</a>&nbsp;methods and 4 genomics context based methods:&nbsp;<a href="http://www.ncbi.nlm.nih.gov/pubmed/15947018">phylogenetic profiling (PP)</a>,&nbsp;<a href="http://www.ncbi.nlm.nih.gov/pubmed/10573422">gene fusion (GF)</a>,&nbsp;<a href="http://www.ploscompbiol.org/article/info%3Adoi%2F10.1371%2Fjournal.pcbi.0030043">gene neighbourhood (GN)</a>&nbsp;and and&nbsp;<a href="http://www.ploscompbiol.org/article/info%3Adoi%2F10.1371%2Fjournal.pcbi.0030043">gene operon methods (GO)</a>.</p>
<p>&nbsp;http://metapred2cs.ibers.aber.ac.uk/</p><p>Address of the bookmark: <a href="https://github.com/martinjvickers/MetaPred2CS" rel="nofollow">https://github.com/martinjvickers/MetaPred2CS</a></p>]]></description>
	<dc:creator>Manisha Mishra</dc:creator>
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