<?xml version='1.0'?><rss version="2.0" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:georss="http://www.georss.org/georss" xmlns:atom="http://www.w3.org/2005/Atom" >
<channel>
	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/30002?offset=1270</link>
	<atom:link href="https://bioinformaticsonline.com/related/30002?offset=1270" rel="self" type="application/rss+xml" />
	<description><![CDATA[]]></description>
	
	<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/6300/list-of-bioinformatics-vacancy-jobs-opportunity-websites</guid>
	<pubDate>Tue, 12 Nov 2013 20:04:28 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/6300/list-of-bioinformatics-vacancy-jobs-opportunity-websites</link>
	<title><![CDATA[List of Bioinformatics Vacancy, Jobs, Opportunity websites]]></title>
	<description><![CDATA[<p>Bioinformatics cover wide area of biology, and indulge in almost all sort of science related work. Bioinformatician give strong emphasis on open access to biological information as well as Free and Open Source software!!</p>
<p>There are several jobs opening in bioinformatics all around the world, but many of them do not get proper attention due to lack of advertisements, or social connectivity. This bookmark is created for an academic, non-academic, scientists and budding researchers to help and updates the bioinformatics/computational biology jobs links of all know websites around the world.</p>
<p><strong>I also love to stream the live <strong>bioinformatics or Computational biology jobs</strong> updates using Twitter https://twitter.com/search?q=bioinformatics%20jobs&amp;src=typd</strong></p>
<p>Find out here about exciting job opportunities in the life sciences.</p>
<blockquote>
<p>Please add well known bioinformatics jobs websites below in comment section.</p>
</blockquote><p>Address of the bookmark: <a href="http://www.nature.com/naturejobs/science/jobs?utf8=%E2%9C%93&amp;q=bioinformatics&amp;where=&amp;commit=Find+Jobs" rel="nofollow">http://www.nature.com/naturejobs/science/jobs?utf8=%E2%9C%93&amp;q=bioinformatics&amp;where=&amp;commit=Find+Jobs</a></p>]]></description>
	<dc:creator>Jitendra Narayan</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/38169/amstat-display-statistics-of-large-sequence-files-from-next-generation-sequencing-projects</guid>
	<pubDate>Fri, 09 Nov 2018 13:34:56 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/38169/amstat-display-statistics-of-large-sequence-files-from-next-generation-sequencing-projects</link>
	<title><![CDATA[AMStat: display statistics of large sequence files from next generation sequencing projects]]></title>
	<description><![CDATA[<p><span>SAMStat is an efficient C program to quickly display statistics of large sequence files from next generation sequencing projects. When applied to&nbsp;</span><a href="http://samstat.sourceforge.net/#about">SAM/BAM</a><span>&nbsp;files all statistics are reported for unmapped, poorly and accurately mapped reads separately. This allows for identification of a variety of problems, such as remaining linker and adaptor sequences, causing poor mapping. Apart from this SAMStat can be used to verify individual processing steps in large analysis pipelines.</span></p><p>Address of the bookmark: <a href="http://samstat.sourceforge.net/" rel="nofollow">http://samstat.sourceforge.net/</a></p>]]></description>
	<dc:creator>Neel</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/researchlabs/view/6561/mathomics-lab</guid>
  <pubDate>Tue, 19 Nov 2013 18:17:32 -0600</pubDate>
  <link></link>
  <title><![CDATA[MATHomics Lab]]></title>
  <description><![CDATA[
<p>Mathomics is a collaborative research group of the Center for Mathematical Modeling and the Center for Genome Regulation at University of Chile, created to play a central role in the development of biotechnological projects, providing state of the art bioinformatics and mathematical modeling tools,  allowing to face these problems from the point of view of Systems Biology. </p>

<p>Lab page @ http://www.mathomics.cl/</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/38829/nquire-a-statistical-framework-for-ploidy-estimation-using-ngs-short-read-data</guid>
	<pubDate>Thu, 31 Jan 2019 05:12:19 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/38829/nquire-a-statistical-framework-for-ploidy-estimation-using-ngs-short-read-data</link>
	<title><![CDATA[nQuire: A statistical framework for ploidy estimation using NGS short-read data]]></title>
	<description><![CDATA[<p>nQuire implements a set of commands to estimate ploidy level of individuals from species, where recent polyploidization occurred and intraspecific ploidy variation is observed. Specifically, nQuire uses next-generation sequencing data to distinguish between diploids, triploids and tetraploids, on the basis of frequency distributions at variant sites where only two bases are segregating.</p>
<p>For more background see also the publication at&nbsp;<a href="https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-018-2128-z">BMC Bioinformatics</a>.</p>
<p>https://github.com/clwgg/nQuire</p><p>Address of the bookmark: <a href="https://github.com/clwgg/nQuire" rel="nofollow">https://github.com/clwgg/nQuire</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/6817/research-assistant-university-of-hyderabad</guid>
  <pubDate>Mon, 25 Nov 2013 10:21:26 -0600</pubDate>
  <link></link>
  <title><![CDATA[Research Assistant @ University of Hyderabad]]></title>
  <description><![CDATA[
<p>University of Hyderabad<br />Repository for Tomato Genomic Resources<br />Department of Plant Sciences<br />Bioinformatics Position in Tomato Functional Genomics </p>

<p>At the Repository for Tomato Genomics Resources, we are working on Tomato Functional Genomics, using TILLING, Insertional Mutagenesis, proteomics, metabolomics approaches to study fruit ripening in tomato. The current aims of the group include using reverse and forward genetics strategies to isolate tomato mutants delayed in ripening, having high lycopene and folate content in tomato fruits and analysis of light and hormonal signal transduction pathways. For recent publications of the group see (Plant Physiol 161: 2085–2101, Plant Physiol 156: 1424-1438; Molecular Plant 3: 854-869; Plant Methods 6: 3; Plant Methods 5:18; Plant Signaling and Behavior 5:11.).</p>

<p>Currently we have one position available in the projects awarded to Prof. R.P. Sharma funded by Dept of Biotechnology. The qualification for this Position is as follows:</p>

<p>Research Assistant: Applicants should have experience in networking using R language and should be able to develop networks using the transcriptome, proteome and metabolite data sets. M.Tech. in Bioinformatics is required. The selected candidate would be paid Rs. 13,000/-pm- consolidated.</p>

<p>Candidates interested in above positions should send a one page statement clearly explaining how their skills are relevant to the position. The candidates should also enclose detailed CV and the name/email id for three referees. The candidates can send their application by email at rameshwar.sharma@uohyd.ac.in and y.sreelakshmi@uohyd.ac.in on or before December 10th, 2013. The position is purely temporary in nature. Shortlisted candidates would be called for interview. No TA/DA would be provided for attending the interview. We also have openings for CSIR-NET JRF candidates for pursuing PhD in above research areas.</p>

<p>Interested candidates with CSIR-NET JRF can send their CV to the above email<br />addresses.</p>

<p>Advertisement:</p>

<p>http://www.uohyd.ac.in/images/recruitment/tomanet_positions_221113.pdf</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/40546/clincnv-detection-of-copy-number-changes-in-germlinetriosomatic-contexts-in-ngs-data</guid>
	<pubDate>Thu, 16 Jan 2020 23:16:02 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/40546/clincnv-detection-of-copy-number-changes-in-germlinetriosomatic-contexts-in-ngs-data</link>
	<title><![CDATA[ClinCNV: Detection of copy number changes in Germline/Trio/Somatic contexts in NGS data]]></title>
	<description><![CDATA[<p><span>ClinCNV detects CNVs in germline and somatic context in NGS data (targeted and whole-genome). We work in cohorts, so it makes sense to try&nbsp;</span><code>ClinCNV</code><span>&nbsp;if you have more than 10 samples (recommended amount - 40 since we estimate variances from the data). By "cohort" we mean samples sequenced with the same enrichment kit with approximately the same depth (ie 1x WGS and 30x WGS better be analysed in separate runs of ClinCNV). Of course it is better if your samples were sequenced within the same sequencing facility.</span></p><p>Address of the bookmark: <a href="https://github.com/imgag/ClinCNV" rel="nofollow">https://github.com/imgag/ClinCNV</a></p>]]></description>
	<dc:creator>Neel</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/researchlabs/view/7816/boku-lab</guid>
  <pubDate>Wed, 08 Jan 2014 19:33:12 -0600</pubDate>
  <link></link>
  <title><![CDATA[BOKU Lab]]></title>
  <description><![CDATA[
<p>We are interested in the study of complex systems in living organisms. Novel views augmenting the classical gene by gene approaches are required to overcome the engineered redundancies and combinatorial effects prevalent in higher eukaryotes. We therefore combine work to establish improved quantitative experimental assays, such as microarrays or differential in-gel electrophoresis, and development of modern computational methods, such as hierarchical probabilistic models or integration of heterogeneous data sources, focussed by biological studies in our laboratory and collaborations.</p>

<p>Highlights of our research include:</p>

<p>    Optimization of microarray design, probe signal interpretation <br />    Advanced models and tools for expression profiling<br />    State-of-the-art applications and integrated analyses </p>

<p>Lab page @ http://bioinf.boku.ac.at/</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/41146/lofreq-a-sequence-quality-aware-ultra-sensitive-variant-caller-for-ngs-data</guid>
	<pubDate>Tue, 18 Feb 2020 03:24:22 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/41146/lofreq-a-sequence-quality-aware-ultra-sensitive-variant-caller-for-ngs-data</link>
	<title><![CDATA[LoFreq*: A sequence-quality aware, ultra-sensitive variant caller for NGS data]]></title>
	<description><![CDATA[<p>LoFreq* (i.e. LoFreq version 2) is a fast and sensitive variant-caller for inferring SNVs and indels from next-generation sequencing data. It makes full use of base-call qualities and other sources of errors inherent in sequencing (e.g. mapping or base/indel alignment uncertainty), which are usually ignored by other methods or only used for filtering.</p>
<p>https://github.com/CSB5/lofreq</p>
<p>http://csb5.github.io/lofreq/installation/</p>
<p>https://github.com/CSB5/lofreq/tree/master/dist</p><p>Address of the bookmark: <a href="http://csb5.github.io/lofreq/" rel="nofollow">http://csb5.github.io/lofreq/</a></p>]]></description>
	<dc:creator>BioStar</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/7213/postdoctoral-position-bioinformaticscomputational-biology</guid>
  <pubDate>Thu, 12 Dec 2013 17:58:00 -0600</pubDate>
  <link></link>
  <title><![CDATA[Postdoctoral Position (Bioinformatics/Computational Biology)]]></title>
  <description><![CDATA[
<p>University College Cork<br />LAPTI<br />Cork-Co Cork-Ireland</p>

<p>Postdoctoral position is available for three years to work on development of Bioinformatics resources for the analysis and visualization of ribosome profiling data. Ribosome profiling (ribo-seq) is a technology that allows mapping positions of the ribosomes on the whole transcriptome level with a nucleotide precision. The technology allows obtaining high resolution digital snapshots of gene expression in cells. The position is available starting on the 1st of October, 2013.</p>

<p>Candidate is expected to have Ph.D. in Bioinformatics or Computational Biology. Candidates with the degree in non-Biological disciplines such as Computer Science, Statistics, Applied Mathematics, Physics or Electrical Engineering will also be considered.</p>

<p>The position is available at LAPTI (http://lapti.ucc.ie) that is located in the Western Gate Building (http://www.stwarchitects.com/project-information.php?c=1&amp;p=09993) at University College Cork. Western Gate Building Research Complex hosts several UCC departments and provides ideal environment for interdisciplinary research. Cork (sometimes referenced as “Venice of Ireland”) is the second most populous city in the Republic. It has friendly cosmopolitan atmosphere and vibrant culture. A number of American industrial giants such as Apple , EMC and Pfizer have chosen Cork as a home for their European headquarters.</p>

<p>The details of the application process are given at http://lapti.ucc.ie/jobs.html. To ensure prompt processing of your application use the subject line: ‘Postdoc computational’. All applications received prior to August the 1st are guaranteed equal consideration. However, applications at the later dates will also be considered until the position is filled.</p>

<p>For more info visit http://lapti.ucc.ie</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/42917/fings-filters-for-next-generation-sequencing</guid>
	<pubDate>Sat, 27 Feb 2021 01:18:35 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/42917/fings-filters-for-next-generation-sequencing</link>
	<title><![CDATA[FiNGS: Filters for Next Generation Sequencing]]></title>
	<description><![CDATA[<h2>Key features</h2>
<ul>
<li><strong>Filters SNVs from any variant caller to remove false positives</strong></li>
<li><strong>Calculates metrics based on BAM files and provides filtering not possible with other tools</strong></li>
<li><strong>Fully user-configurable filtering (including which filters to use and their thresholds)</strong></li>
<li><strong>Option to use filters identical to ICGC recommendations</strong></li>
</ul>
<p>FiNGS provides researchers with a tool to reproducibly filter somatic variants that is simple to both deploy and use, with filters and thresholds that are fully configurable by the user. It ingests and emits standard variant call format (VCF) files and will slot into existing sequencing pipelines. It allows users to develop and implement their own filtering strategies and simple sharing of these with others.</p>
<p>FiNGS reliably improves upon the precision of default variant caller outputs and performs better than other tools designed for the same task.</p><p>Address of the bookmark: <a href="https://github.com/cpwardell/FiNGS" rel="nofollow">https://github.com/cpwardell/FiNGS</a></p>]]></description>
	<dc:creator>Neel</dc:creator>
</item>

</channel>
</rss>