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<channel>
	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/20585?offset=1240</link>
	<atom:link href="https://bioinformaticsonline.com/related/20585?offset=1240" rel="self" type="application/rss+xml" />
	<description><![CDATA[]]></description>
	
	
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/42265/doctoral-researcher-phd-in-computational-biology-biostatistics-at-luxembourg-centre-for-systems-biomedicine-lcsb</guid>
  <pubDate>Sun, 25 Oct 2020 22:59:54 -0500</pubDate>
  <link></link>
  <title><![CDATA[Doctoral researcher (PhD) in Computational Biology / Biostatistics at Luxembourg Centre for Systems Biomedicine (LCSB)]]></title>
  <description><![CDATA[
<p>Contract Type: Fixed Term Contract<br />Work Hours: Full Time 40.0 Hours per Week<br />Location: Belval<br />Student and employee status (36 months studies programme, as per university standards) with project funding available for up to 48 months<br />36 months fixed-term contract (renewable depending on thesis progress evaluation)<br />Job Reference: UOL03604<br />Further Information<br />Applications should be submitted online and include:</p>

<p>A detailed Curriculum vitae<br />A motivation letter, including a brief description of past research experience and future interests, as well as the earliest possible starting date<br />Copies of degree certificates and transcripts<br />Name and contact details of at least two referees<br />Early application is highly encouraged, as the applications will be processed upon reception. Please apply ONLINE formally through the HR system. Applications by email will not be considered.</p>

<p>*gn=gender neutral.</p>

<p>More at https://recruitment.uni.lu/en/details.html?id=QMUFK026203F3VBQB7V7VV4S8&amp;nPostingID=54876&amp;nPostingTargetID=74639&amp;mask=karriereseiten&amp;lg=UK</p>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/videolist/watch/4234/ncbi-psi-blast-tutorial</guid>
	<pubDate>Wed, 04 Sep 2013 11:46:06 -0500</pubDate>
	<link>https://bioinformaticsonline.com/videolist/watch/4234/ncbi-psi-blast-tutorial</link>
	<title><![CDATA[NCBI PSI-BLAST Tutorial]]></title>
	<description><![CDATA[<iframe width="" height="" src="https://www.youtube-nocookie.com/embed/T3kHEieyylk" frameborder="0" allowfullscreen></iframe>http:--www.biotechnology.jhu.edu-
Tutorial for PSI-BLAST, an extension of BLAST that uses matrix algebra. BLAST is a cornerstone bioinformatics tool at NCBI. BLAST is the
Basic Local Alignment Search tool and will protein and DNA sequences that
are related to a sequence that the user provides.]]></description>
	
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/42402/two-postdoc-positions-to-study-multiscale-genome-evolution-and-cephalopod-gene-regulation-university-of-vienna-austria</guid>
  <pubDate>Thu, 17 Dec 2020 11:45:16 -0600</pubDate>
  <link></link>
  <title><![CDATA[Two postdoc positions to study multiscale genome evolution and cephalopod gene regulation (University of Vienna, Austria)]]></title>
  <description><![CDATA[
<p>Vienna Biocenter are seeking two postdoctoral researchers to join our team and work on the ERC funded project "METASCALE: Modes of genome evolution during major metazoan transitions". The task of both positions will be to study co-evolutionary trends within animal genomes and their association with the emergence of new gene regulation. Our group employs methods of comparative and regulatory genomics to study the regulatory impact of transitions in animal genome architecture. More recently, we have identified a major genome reorganization in the "smart" coleoid cephalopod molluscs (squid, octopus, cuttlefish) that, together with other genomic changes, potentially comprises a unique path or mode of genome evolution among animals. We are thus interested in quantifying these modes of genome evolution across all available animal genomes and to test whether their shifts are associated with the emergence of novel regulation (e.g., in cephalopods). One of our main model species is the Hawaiian bobtail squid species Euprymna scolopes.  The tasks of the two candidates will be complimentary and highly collaborative with one position focusing on comparative genomics analyses across all metazoans and the other position on regulatory genomics in the squid. A solid background in in bioinformatics and comparative genomics is highly desired for the first position, whereas the second position will benefit from experience in molecular and regulatory genomics methods such as HiC, ATAC-seq, RNA-seq or single cell transcriptomics.</p>

<p>The postdocs will join an international group and network of researchers at the University of Vienna studying a diverse range of species and questions in molecular evolution, development, morphology and genomics. Our group is also part of the large evolVienna network of more than 50 evolutionary biology labs in Vienna, across several universities and research institutes. Our Faculty will be relocating to a new campus at the Vienna Biocenter in summer 2021 (https://biologiezentrum.univie.ac.at/en/). Vienna is a vibrant historic European capital with a high QOL. Information about postdoctoral salaries in Austria can be found on this webpage: https://www.fwf.ac.at/en/research-funding/personnel-costs/</p>

<p>Earliest start date will be after July 2021. Initial term of employment is for two years with the possibility of extension. Remote working, at least initially, is a possibility.</p>

<p>Requirements:<br />- PhD degree or equivalent by the start date <br />- Publishing record in peer-reviewed journals or evidence thereof <br />- At least 2 letters of support</p>

<p>Applications including a letter of motivation should be submitted via the Job Center to the University of Vienna (https://personalwesen.univie.ac.at/en/jobs-recruiting/job-center/,<br />job reference number 11615).</p>

<p>Application deadline: January 15th 2021.<br />Application link: https://univis.univie.ac.at/ebewerbung</p>
]]></description>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/4352/jrf-bharathidasan-university</guid>
  <pubDate>Sat, 07 Sep 2013 14:20:03 -0500</pubDate>
  <link></link>
  <title><![CDATA[JRF @ BHARATHIDASAN UNIVERSITY]]></title>
  <description><![CDATA[
<p>Department of Bioinformatics<br />School of Life Sciences<br />BHARATHIDASAN UNIVERSITY,<br />TIRUCHIRAPPALLI-620 024</p>

<p>WALK-IN-INTERVIEW FOR JUNIOR RESEARCH FELLOWSHIP</p>

<p>Project title: Structural and Functional Evolution of Bacterial ADP-ribosylation Superfamily–A Special Emphasis for Engineering Immunotoxins from Binary toxin A Funding Agency: Life Science Research Board, Defence Research and Development Organization, New Delhi</p>

<p>Tenure of the project: Three years or till the end of the project period.</p>

<p>Position: Junior Research Fellow (1 no.)</p>

<p>Essential qualification: First class in M.Sc. in Genomics/Biotechnology/ Microbiology/ Biochemistry/Life Sciences</p>

<p>Desirable qualification: Experience in an area relevant (Molecular Microbiology, Protein engineering and Structural Bioinformatics) to the project.</p>

<p>Fellowship: Rs. 16, 000 per month plus HRA as per University rule.</p>

<p>Upper age limit: 28 years</p>

<p>Date of interview: 16-09-2013</p>

<p>Venue of interview: Department of Bioinformatics, Bharathidasan University, Tiruchirappalli -620 024, Tamil Nadu</p>

<p>The above post is purely temporary and will be terminated with three month notice. The Terms and the condition of the appointment shall be governed according to DRDO, Govt. of India. The eligible candidates will bring their original certificates and documents at the time of interview. No TA/DA will be paid for attending the interview.</p>

<p>Dr. P. CHELLAPANDI<br />Principal Investigator,<br />Department of Bioinformatics,<br />Bharathidasan University,<br />Tiruchirappalli -620 024, Tamil Nadu</p>

<p>Advertisement: http://www.bdu.ac.in/tender_list.php</p>
]]></description>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/pages/view/42707/bioinformatics-in-africa-part-1</guid>
	<pubDate>Sun, 31 Jan 2021 09:04:01 -0600</pubDate>
	<link>https://bioinformaticsonline.com/pages/view/42707/bioinformatics-in-africa-part-1</link>
	<title><![CDATA[Bioinformatics in Africa:- Part 1]]></title>
	<description><![CDATA[<p>The Institut Pasteur de C&ocirc;te d&rsquo;Ivoire was created by the N&deg;72&shy;511 law of July 27th, 1972 under the Presidency of his Excellency Felix Houphou&euml;t Boigny and Professor Jacques Monod, then Leading of&nbsp;the&nbsp;Pasteur&nbsp;institute&nbsp;of&nbsp;Paris.</p><p>The&nbsp;objectives&nbsp;of&nbsp;the&nbsp;Bioinformatics&nbsp;pole&nbsp;are:</p><p>&bull; Encourage the access to innovations in research and the best exploitation of research data management.</p><p>&bull; Develop&nbsp;the&nbsp;critical&nbsp;spirit&nbsp;of&nbsp;the&nbsp;researchers&nbsp;around&nbsp;their&nbsp;axis&nbsp;of&nbsp;research.</p><p>&bull; Bring an active help to the improvement of the public health while having for constant worries&nbsp;to&nbsp;feed&nbsp;it&nbsp;by&nbsp;research&nbsp;and&nbsp;the&nbsp;innovation.&nbsp;</p><p>&bull; Start&nbsp;training&nbsp;researchers&nbsp;to&nbsp;use&nbsp;bioinformatics&nbsp;as&nbsp;an&nbsp;indispensable&nbsp;tool&nbsp;to&nbsp;research.</p><p>&bull; Encourage interdisciplinary creating a network of scientific information available to the researchers&nbsp;of&nbsp;the&nbsp;institute&nbsp;and&nbsp;partners</p><p>Long&shy;term&nbsp;training&nbsp;activities:</p><p>&bull; To&nbsp;integrate&nbsp;the&nbsp;bioinformatics&nbsp;in&nbsp;the&nbsp;training&nbsp;programs&nbsp;of&nbsp;academic&nbsp;scientists.</p><p>&bull; Development&nbsp;of&nbsp;West&nbsp;Africa&nbsp;Centre&nbsp;training&nbsp;in&nbsp;bioinformatics&nbsp;and&nbsp;genome&nbsp;data&nbsp;analysis.</p><p>Short&shy;term&nbsp;training&nbsp;activities:</p><p>The IPCI will organize in the month of May 2007 a yearly regional course of initiation and using genome data analysis with the participation of the Centre Biotechnologique de Sfax, Tunisia (Pr Ahmed&nbsp;Reba&iuml;,&nbsp;Department&nbsp;of&nbsp;bioinformatics).</p><p>More at&nbsp;https://www.pasteur.ci/</p>]]></description>
	<dc:creator>BioStar</dc:creator>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/file/view/4482/bioinformatics-definitions-and-applications</guid>
	<pubDate>Thu, 12 Sep 2013 15:04:36 -0500</pubDate>
	<link>https://bioinformaticsonline.com/file/view/4482/bioinformatics-definitions-and-applications</link>
	<title><![CDATA[Bioinformatics definitions and applications !!!]]></title>
	<description><![CDATA[<p>There have been long discussion amongst several specialized/expert educator regarding bioinformatics arena, but everyone explain bioinformatics with their own view. I tried to explain it with a cartoon. Hope you all will like it.</p>]]></description>
	<dc:creator>Jit</dc:creator>
	<enclosure url="https://bioinformaticsonline.com/file/download/4482" length="49464" type="image/gif" />
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/4575/hiv-phd-and-msc-research-positions</guid>
  <pubDate>Mon, 16 Sep 2013 18:55:44 -0500</pubDate>
  <link></link>
  <title><![CDATA[HIV PhD and MSc Research Positions]]></title>
  <description><![CDATA[
<p>SANBI are looking to recruit two MSc students and a PhD student who are interested in implementing a computational biology approach to explore HIV’s glycan shield. Successful candidates for the MSc should hold an honours degree in physics, computer science or biological sciences while PhD applicants should hold an honours degree and a MSc in one or more of physics, computer science or biological sciences.</p>

<p>As these positions are funded by the South African National Research Foundation (NRF) priority will be given to South African citizens and permanent residents however exceptional applicants who do not fulfil these criteria may be considered.</p>

<p>Applications including a CV outlining your experience together with a cover letter detailing why you are a suitable candidate should be sent to simon_at_sanbi.ac.za by 30th September 2013.</p>

<p>More @ http://www.sanbi.ac.za/hiv-phd-and-msc-research-positions/</p>
]]></description>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/42953/ra-bioinformatics-at-sir-ganga-ram-hospital-new-delhi</guid>
  <pubDate>Sun, 14 Mar 2021 10:40:18 -0500</pubDate>
  <link></link>
  <title><![CDATA[RA Bioinformatics at Sir Ganga Ram Hospital, New Delhi]]></title>
  <description><![CDATA[
<p>Opportunities available at Institute of Medical Genetics &amp; Genomics, Sir Ganga Ram Hospital, New Delhi.</p>

<p>1) Senior Research Fellow under ICMR Project: M.Sc. (Life Sciences) with 2 years of experience (preferable in the field of Bioinformatics) or MBBS Degree.</p>

<p>2) Research Associate under ICMR Project: . Ph.D.(Life Science/Biotechnology/Bioinformatics) or equivalent degree or having 3 years of research, teaching and design and development experience after M.Tech with at least one research paper in science Citation Indexed (SCI) Journal.<br />Work experience in the area of Human genomics/Next Generation Sequencing data analysis/Big data genomics would be preferred.<br />Application link:</p>

<p>https://sgrh.com/joblist</p>

<p>Post Code: 2023, 2024</p>
]]></description>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/43341/nigerian-bioinformatics-and-genomics-network-nbgn</guid>
  <pubDate>Tue, 31 Aug 2021 08:29:40 -0500</pubDate>
  <link></link>
  <title><![CDATA[Nigerian Bioinformatics and Genomics Network (NBGN)]]></title>
  <description><![CDATA[
<p>This is to announce the second official conference of the Nigerian Bioinformatics and Genomics Network (NBGN). October 11-13,2021 at Landmark University, Omu-Aran, Kwara State and Zoom ( conference link to be announced soon</p>

<p>#NBGN21</p>

<p>www.nbgn21conference.com</p>
]]></description>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/blog/view/43670/useful-bioinformatics-analysis-tools</guid>
	<pubDate>Thu, 23 Dec 2021 23:10:02 -0600</pubDate>
	<link>https://bioinformaticsonline.com/blog/view/43670/useful-bioinformatics-analysis-tools</link>
	<title><![CDATA[Useful Bioinformatics Analysis Tools !]]></title>
	<description><![CDATA[<h3><a href="http://sun.aei.polsl.pl/REFRESH/index.php?page=projects&amp;project=cometa&amp;subpage=about">CoMeta</a></h3><p><strong>Classificier of reads from metagenomic sequencing experiments.</strong></p><p><span>&bull;&nbsp;&nbsp;Kawulok, J., Deorowicz, S.,&nbsp;</span><em>CoMeta: Classification of Metagenomes Using k-mers</em><span>,&nbsp;</span><a href="http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0121453">PLOS ONE,&nbsp;</a><span>2015; 10(4):1&ndash;23,</span></p><h3><a href="http://sun.aei.polsl.pl/REFRESH/index.php?page=projects&amp;project=CoMSA&amp;subpage=about">CoMSA</a></h3><p><strong>Compressor of multiple sequence alignments of proteins.</strong></p><p><span>&bull;&nbsp;&nbsp;Deorowicz, S., Walczyszyn, J., Debudaj-Grabysz, A.,&nbsp;</span><em>CoMSA: compression of protein multiple sequence alignment files</em><span>,&nbsp;</span><a href="https://doi.org/10.1093/bioinformatics/bty619">Bioinformatics,&nbsp;</a><span>2019; 35(2):22&ndash;234,</span></p><h3><a href="http://sun.aei.polsl.pl/REFRESH/index.php?page=projects&amp;project=dsrc&amp;subpage=about">DSRC</a></h3><p><strong>Compressor of sequencing reads.</strong></p><p><span>&bull;&nbsp;&nbsp;Roguski, L., Deorowicz, S.,&nbsp;</span><em>DSRC 2: Industry-oriented compression of FASTQ files</em><span>,&nbsp;</span><a href="http://bioinformatics.oxfordjournals.org/content/30/15/2213">Bioinformatics,&nbsp;</a><span>2014; 30(15):2213&ndash;2215,</span><br /><span>&bull;&nbsp;&nbsp;Deorowicz, S., Grabowski, Sz.,&nbsp;</span><em>Compression of DNA sequences in FASTQ format</em><span>,&nbsp;</span><a href="http://bioinformatics.oxfordjournals.org/">Bioinformatics,&nbsp;</a><span>2011; 27(6):860&ndash;862,</span></p><h3><a href="http://sun.aei.polsl.pl/REFRESH/index.php?page=projects&amp;project=famsa&amp;subpage=about">FAMSA</a></h3><p><strong>Multiple sequence alignment designed for huge families of proteins (even containing hundreds of thousands of sequences).</strong></p><p><span>&bull;&nbsp;&nbsp;Deorowicz, S., Debudaj-Grabysz, A., Gudys, A.,&nbsp;</span><em>FAMSA: Fast and accurate multiple sequence alignment of huge protein families</em><span>,&nbsp;</span><a href="http://www.nature.com/articles/srep33964">Scientific Reports,&nbsp;</a><span>2016; 6(33964):</span></p><h3><a href="http://sun.aei.polsl.pl/REFRESH/index.php?page=projects&amp;project=fastore&amp;subpage=about">FaStore</a></h3><p><strong>Compressor of FASTQ files.</strong></p><p><span>&bull;&nbsp;&nbsp;Roguski, L., Ochoa, I., Hernaez, M., Deorowicz, S.,&nbsp;</span><em>FaStore - a space-saving solution for raw sequencing data</em><span>,&nbsp;</span><a href="https://doi.org/10.1093/bioinformatics/bty205">Bioinformatics,&nbsp;</a><span>2018; 34(16):2748&ndash;2756,</span></p><h3><a href="http://sun.aei.polsl.pl/REFRESH/index.php?page=projects&amp;project=fqsqueezer&amp;subpage=about">FQSqueezer</a></h3><p><strong>Experimental high-end compressor of FASTQ files.</strong></p><p><span>&bull;&nbsp;&nbsp;Deorowicz, S.,&nbsp;</span><em>FQSqueezer: k-mer-based compression of sequencing data</em><span>,&nbsp;</span><a href="https://www.nature.com/articles/s41598-020-57452-6">Scientific Reports,&nbsp;</a><span>2020; 10(578):</span></p><h3><a href="http://sun.aei.polsl.pl/REFRESH/index.php?page=projects&amp;project=gdc&amp;subpage=about">GDC</a></h3><p><strong>Compressor of collections of genome sequences.</strong></p><p><span>&bull;&nbsp;&nbsp;Deorowicz, S., Danek, A., Niemiec, M.,&nbsp;</span><em>GDC 2: Compression of large collections of genomes</em><span>,&nbsp;</span><a href="http://www.nature.com/srep/2015/150625/srep11565/full/srep11565.html">Scientific Reports,&nbsp;</a><span>2015; 5(11565):1&ndash;12,</span><br /><span>&bull;&nbsp;&nbsp;Deorowicz, S., Grabowski, Sz.,&nbsp;</span><em>Robust relative compression of genomes with random access</em><span>,&nbsp;</span><a href="http://sun.aei.polsl.pl/REFRESH/bioinformatics.oxfordjournals.org/content/27/21/2979.abstract">Bioinformatics,&nbsp;</a><span>2011; 27(21):2979&ndash;2986,</span></p><h3><a href="http://sun.aei.polsl.pl/REFRESH/index.php?page=projects&amp;project=gtc&amp;subpage=about">GTC</a></h3><p><strong>Genotype databases compressor with support for fast queries.</strong></p><p><span>&bull;&nbsp;&nbsp;Danek, A., Deorowicz, S.,&nbsp;</span><em>GTC: how to maintain huge genotype collections in a compressed form</em><span>,&nbsp;</span><a href="https://doi.org/10.1093/bioinformatics/bty023">Bioinformatics,&nbsp;</a><span>2018; 34(11):1834&ndash;1840,</span></p><h3><a href="http://sun.aei.polsl.pl/REFRESH/index.php?page=projects&amp;project=gtshark&amp;subpage=about">GTShark</a></h3><p><strong>Genotypes compressor.</strong></p><p><span>&bull;&nbsp;&nbsp;Deorowicz, S., Danek, A.,&nbsp;</span><em>GTShark: Genotype compression in large projects</em><span>,&nbsp;</span><a href="https://doi.org/10.1093/bioinformatics/btz508">Bioinformatics,&nbsp;</a><span>2019; 35(22):4791&ndash;4793,</span></p><h3><a href="http://sun.aei.polsl.pl/REFRESH/index.php?page=projects&amp;project=kmc&amp;subpage=about">KMC</a></h3><p><strong>Memory frugal&nbsp;<em>k</em>-mer counter.</strong></p><p><span>&bull;&nbsp;&nbsp;Kokot, M., Długosz, M., Deorowicz, S.,&nbsp;</span><em>KMC 3: counting and manipulating k -mer statistics</em><span>,&nbsp;</span><a href="https://doi.org/10.1093/bioinformatics/btx304">Bioinformatics,&nbsp;</a><span>2017; 33(17):2759&ndash;2761,</span><br /><span>&bull;&nbsp;&nbsp;Deorowicz, S., Kokot, M., Grabowski, Sz., Debudaj-Grabysz, A.,&nbsp;</span><em>KMC 2: Fast and resource-frugal k-mer counting</em><span>,&nbsp;</span><a href="https://doi.org/10.1093/bioinformatics/btv022">Bioinformatics,&nbsp;</a><span>2015; 31(10):1569&ndash;1576,</span><br /><span>&bull;&nbsp;&nbsp;Deorowicz, S., Debudaj-Grabysz, A., Grabowski, Sz.,&nbsp;</span><em>Disk-based k-mer counting on a PC</em><span>,&nbsp;</span><a href="http://www.biomedcentral.com/1471-2105/14/160">BMC Bioinformatics,&nbsp;</a><span>2013; 14():Article no. 160,</span></p><h3><a href="http://sun.aei.polsl.pl/REFRESH/index.php?page=projects&amp;project=kmer-db&amp;subpage=about">Kmer-db</a></h3><p><strong>Tool for estimation of evolutionary distances in a collection of genomes.</strong></p><p><span>&bull;&nbsp;&nbsp;Deorowicz, S., Gudys, A., Dlugosz, M., Kokot, M., Danek, A.,&nbsp;</span><em>Kmer-db: instant evolutionary distance estimation</em><span>,&nbsp;</span><a href="https://doi.org/10.1093/bioinformatics/bty610">Bioinformatics,&nbsp;</a><span>2019; 35(1):133&ndash;136,</span></p><h3><a href="http://sun.aei.polsl.pl/REFRESH/index.php?page=projects&amp;project=mugi&amp;subpage=about">MuGI</a></h3><p><strong>Index allowing queries for a collection of multiple genome sequences.</strong></p><p><span>&bull;&nbsp;&nbsp;Danek, A., Deorowicz, S., Grabowski, Sz.,&nbsp;</span><em>Indexes of Large Genome Collections on a PC</em><span>,&nbsp;</span><a href="http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0109384">PLOS ONE,&nbsp;</a><span>2014; 9(10):e109384,</span></p><h3><a href="http://sun.aei.polsl.pl/REFRESH/index.php?page=projects&amp;project=orcom&amp;subpage=about">ORCOM</a></h3><p><strong>Experimental compressor of sequencing reads.</strong></p><p><span>&bull;&nbsp;&nbsp;Grabowski, Sz., Deorowicz, S., Roguski, L.,&nbsp;</span><em>Disk-based compression of data from genome sequencing</em><span>,&nbsp;</span><a href="http://bioinformatics.oxfordjournals.org/content/early/2014/12/22/bioinformatics.btu844.abstract">Bioinformatics,&nbsp;</a><span>2014; 31(9):1389&ndash;1395,</span></p><h3><a href="http://sun.aei.polsl.pl/REFRESH/index.php?page=projects&amp;project=pgsa&amp;subpage=about">PgSA</a></h3><p><strong>Index allowing queries for a collection of sequencing reads.</strong></p><p><span>&bull;&nbsp;&nbsp;Kowalski, T., Grabowski, Sz., Deorowicz, S.,&nbsp;</span><em>Indexing arbitrary-length k-mers in sequencing reads</em><span>,&nbsp;</span><a href="http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0133198">PLOS ONE,&nbsp;</a><span>2015; 10(7):1&ndash;16,</span></p><h3><a href="http://sun.aei.polsl.pl/REFRESH/index.php?page=projects&amp;project=quickprobs&amp;subpage=about">QuickProbs</a></h3><p><strong>Multiple sequence alignment designed especially for GPU.</strong></p><p><span>&bull;&nbsp;&nbsp;Gudys, A., Deorowicz, S.,&nbsp;</span><em>QuickProbs 2: towards rapid construction of high-quality alignments of large protein families</em><span>,&nbsp;</span><a href="http://www.nature.com/articles/srep41553">Scientific Reports,&nbsp;</a><span>2017; 7(41553):</span><br /><span>&bull;&nbsp;&nbsp;Gudys, A., Deorowicz, S.,&nbsp;</span><em>QuickProbs &ndash; A Fast Multiple Sequence Alignment Algorithm Designed for Graphics Processors</em><span>,&nbsp;</span><a href="http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0088901">PLOS ONE,&nbsp;</a><span>2014; 9(2):e88901,</span></p><h3><a href="http://sun.aei.polsl.pl/REFRESH/index.php?page=projects&amp;project=reckoner&amp;subpage=about">RECKONER</a></h3><p><strong>Read error corrector.</strong></p><p><span>&bull;&nbsp;&nbsp;Maciej Długosz, M., Deorowicz, S.,&nbsp;</span><em>RECKONER: read error corrector based on KMC</em><span>,&nbsp;</span><a href="https://academic.oup.com/bioinformatics/article-abstract/33/7/1086/2843893/RECKONER-read-error-corrector-based-on-KMC">Bioinformatics,&nbsp;</a><span>2017; 33(7):1086&ndash;1089,</span></p><h3><a href="http://sun.aei.polsl.pl/REFRESH/index.php?page=projects&amp;project=tgc&amp;subpage=about">TGC</a></h3><p><strong>Compressor of collections of genomes given in Variant Call Format (VCF) files.</strong></p><p><span>&bull;&nbsp;&nbsp;Deorowicz, S., Danek, A., Grabowski, Sz.,&nbsp;</span><em>Genome compression: a novel approach for large collections</em><span>,&nbsp;</span><a href="http://bioinformatics.oxfordjournals.org/content/early/2013/08/29/bioinformatics.btt460">Bioinformatics,&nbsp;</a><span>2013; 29(20):2572&ndash;2578,</span></p><h3><a href="http://sun.aei.polsl.pl/REFRESH/index.php?page=projects&amp;project=vcfshark&amp;subpage=about">VCFShark</a></h3><p><strong>Compressor of VCF files.</strong></p><p><span>&bull;&nbsp;&nbsp;Deorowicz, S., Danek, A.,&nbsp;</span><em>GTShark: Genotype compression in large projects</em><span>,&nbsp;</span><a href="https://www.biorxiv.org/content/10.1101/2020.12.18.423437v1">biorxiv.org,&nbsp;</a><span>2020; ():</span></p><h3><a href="http://sun.aei.polsl.pl/REFRESH/index.php?page=projects&amp;project=whisper&amp;subpage=about">Whisper</a></h3><p><strong>Experimental mapper of whole genome sequencing data.</strong></p><p><span>&bull;&nbsp;&nbsp;Deorowicz, S., Gudys, A.,&nbsp;</span><em>Whisper 2: indel-sensitive short read mapping</em><span>,&nbsp;</span><a href="https://doi.org/10.1101/2019.12.18.881292">bioRxiv.org,&nbsp;</a><span>2019; :</span><br /><span>&bull;&nbsp;&nbsp;Deorowicz, S., Debudaj-Grabysz, A., Gudys, A., Grabowski, Sz.,&nbsp;</span><em>Whisper: read sorting allows robust robust mapping of DNA sequencing data</em><span>,&nbsp;</span><a href="https://doi.org/10.1093/bioinformatics/bty927">Bioinformatics,&nbsp;</a><span>2019; 35(12):2043&ndash;2050,</span><br /><span>&bull;&nbsp;&nbsp;Deorowicz, S., Debudaj-Grabysz, A., Gudys, A., Grabowski, Sz.,&nbsp;</span><em>Robust mapping of whole genome sequencing data</em><span>,&nbsp;</span><a href="https://meetings.cshl.edu/abstracts.aspx?meet=GENOME&amp;year=17">Poster at The Biology of Genomes Conference,&nbsp;</a><span>2017;</span></p>]]></description>
	<dc:creator>Neel</dc:creator>
</item>

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