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	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/26573?offset=860</link>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/videolist/watch/2791/ncbi-psi-blast-tutorial</guid>
	<pubDate>Fri, 23 Aug 2013 02:25:02 -0500</pubDate>
	<link>https://bioinformaticsonline.com/videolist/watch/2791/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/23782/bioinformatics-openings-at-jnu</guid>
  <pubDate>Sun, 16 Aug 2015 01:03:11 -0500</pubDate>
  <link></link>
  <title><![CDATA[Bioinformatics openings at JNU]]></title>
  <description><![CDATA[
<p>School of Biotechnology<br />JAWAHARLAL NEHRU UNIVERSITY<br />NEW DELHI</p>

<p>Jawaharlal Nehru University has been granted funds by the Department of Biotechnology (DBT), Govt. of India to initiate an Inter-School programme in JNU to strengthen training and research called "DBT-Jawaharlal Nehru University, New Delhi-Interdisciplinary Life Science Programme for Advanced Research and education" with the broad project area entitled "From Molecules to Systems: Exploring biological space using chemical and synthetic biology" cutting across Physical, Chemical and Biological Sciences.</p>

<p>Applications are invited for the following purely temporary posts at various levels in the various Group projects for Research and Technical positions. The project is upto March 2017, but the appointments shall be initially for a period of one year, renewable every year depending on the performance of project staff:</p>

<p>Project Sub-Title: Synthetic Genomics: Making sense out of 'junk' DNA</p>

<p>Senior Research Fellow (SRF) - 01 Post</p>

<p>Qualifications: M.Sc in Bioinformatics, with minimum 2 year research experience, specialization in microRNA, molecular modelling, systems and/or Synthetic biology with publication in the relevant area would be desirable.</p>

<p>Investigator: Prof. Pawan Kumar Dhar</p>

<p>Fellowship: Rs. 14000+30% HRA p.m.</p>

<p>Project Sub-Title: "Structure, function, and dynamics of biomolecules and Molecular engineering"</p>

<p>Postdoctoral Fellow (PDF) - 01 Post</p>

<p>Essential Qualifications: PhD in Science(Bioinformatics/Computational Biology, Physics, Chemistry, Mathematics, &amp; Statistics), specialized in the area of Computational Biology/Structural Bioinformatics/ Quantum Chemistry/Molecular Dynamics &amp; Simulation /Systems Biology , reflected by thesis topics and or publication of papers during PhD and/or Post doctoral experience.</p>

<p>Desirable Qualifications: Computational methods and designing experience in the field of Structure based or ligand based drug design, Chemoinformatics, Programming capabilities as required for developing tools in the computational &amp; systems Biology.</p>

<p>Investigator: Prof. Indira Ghosh, SCIS</p>

<p>Salary: Rs. 22, 000 + 30% HRA</p>

<p>(Note: Revised emoluments shall be payable if Educational Qualifications or Eligibility Criteria as per DST OM No. A.20020/11/97-IFD dated 31-03-2010 are met by the research personnel)</p>

<p>The applications on plain paper indicating name, date of birth/age, address, essential / technical / professional qualifications, experience, research work, should reach the Programme Coordinator on or before 27th August 2015 at the following address:</p>

<p>The Envelop should be marked for the Post applied for. Any clarifications regarding projects may be sought from the respective project investigators as mentioned.</p>

<p>Address for correspondence:<br />Programme Coordinator<br />DBT-JNU BUILDER programme<br />School of Biotechnology<br />Jawaharlal Nehru University<br />New Delhi 110067</p>

<p>More at http://www.jnu.ac.in/career/currentjobs.htm</p>
]]></description>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/news/view/44370/ncbiblast-2141-now-available</guid>
	<pubDate>Wed, 30 Aug 2023 02:36:13 -0500</pubDate>
	<link>https://bioinformaticsonline.com/news/view/44370/ncbiblast-2141-now-available</link>
	<title><![CDATA[NCBIBLAST+ 2.14.1 now available]]></title>
	<description><![CDATA[<p><a href="https://www.linkedin.com/feed/hashtag/?keywords=ncbiblast&amp;highlightedUpdateUrns=urn%3Ali%3Aactivity%3A7101231946264924160">#NCBIBLAST</a><span>+ 2.14.1 now available with improved documentation, faster and more reliable database downloads, and some bug fixes.&nbsp;</span></p><p>Check out the changes they made.</p><p>They added the&nbsp;<code><span>cleanup-blastdb-volumes.py</span></code>&nbsp;script to remove unused BLAST database volumes. Read the documentation&nbsp;<a href="https://www.ncbi.nlm.nih.gov/books/NBK592857/">here</a>.</p><p>They also switched the protocol from&nbsp;<code><span>ftp</span></code>&nbsp;to&nbsp;<code><span>https</span></code>&nbsp;to access BLAST databases for increased performance and reliability when downloading data from the NCBI with the&nbsp;<code><span>update_blastdb.pl</span></code>&nbsp;script.</p><p>And fixed a few bugs related to downloading data from the NCBI, and&nbsp;<code><span>mt_mode</span></code>&nbsp;crashing&nbsp;<code><span>blastn</span></code>&nbsp;and&nbsp;<code><span>blastx</span></code>.</p><p>Check out the&nbsp;<a href="https://www.ncbi.nlm.nih.gov/books/NBK131777/">release notes</a>.</p><p>Download&nbsp;<a href="https://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/2.14.1/">BLAST+ 2.14.1</a></p><p>Questions or comments? Please write the&nbsp;<a href="https://support.nlm.nih.gov/support/create-case/">BLAST help desk</a>.</p><p><span><span>More info and download:</span>&nbsp;https://blast.ncbi.nlm.nih.gov/doc/blast-news/2023-BLAST-News.html</span></p>]]></description>
	<dc:creator>Neel</dc:creator>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/24462/icar-project-ra-position-institute-of-bioinformatics-iob-bangalore</guid>
  <pubDate>Tue, 22 Sep 2015 23:41:31 -0500</pubDate>
  <link></link>
  <title><![CDATA[ICAR project RA position @ Institute of Bioinformatics (IOB) Bangalore]]></title>
  <description><![CDATA[
<p>Applications are invited for the post of Research Associate (RA) in the ICAR project on "Lactation stress associated postpartum anestrus SNP array in buffaloes". We are looking for a motivated candidate for handling Next Generation sequencing data analysis with a strong background in bioinformatics and programming.</p>

<p>The position is open for immediate appointment and available for two years and then extendable for additional one year. The applicant will be appointed as Research Associate based on qualifications as detailed below:</p>

<p>Research Associate:</p>

<p>-Master’s degree with bioinformatics with at least 2 years of research experience in Next Generation sequencing data analysis as evidence from Fellowship/ Associateship / Training / other engagements.</p>

<p>-Familiarity with bioinformatics tools, database development, programming skills</p>

<p>-Minimum 1 publication in any peer reviewed journal</p>

<p>Salary will be as per ICAR rules and guidelines. Application will be shortlisted based on CV, reference letters from mentors and telephonic interview. Candidates will be called for a personal interview at Bangalore before appointment. No travel expense will be provided for attending interview at Bangalore.</p>

<p>Interested candidates may send a Letter of Interest and CV by email to: keshav@ibioinformatics.org before September 29, 2015.</p>
]]></description>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/36026/mmseqs20-ultra-fast-and-sensitive-protein-search-and-clustering-suite</guid>
	<pubDate>Thu, 22 Mar 2018 10:40:51 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/36026/mmseqs20-ultra-fast-and-sensitive-protein-search-and-clustering-suite</link>
	<title><![CDATA[MMseqs2.0: ultra fast and sensitive protein search and clustering suite]]></title>
	<description><![CDATA[<p>MMseqs2 (Many-against-Many sequence searching) is a software suite to search and cluster huge protein sequence sets. MMseqs2 is open source GPL-licensed software implemented in C++ for Linux, MacOS, and (as beta version, via cygwin) Windows. The software is designed to run on multiple cores and servers and exhibits very good scalability. MMseqs2 can run 10000 times faster than BLAST. At 100 times its speed it achieves almost the same sensitivity. It can perform profile searches with the same sensitivity as PSI-BLAST at over 400 times its speed.</p>
<p>The MMseqs2 user guide is available as&nbsp;<a href="https://github.com/soedinglab/mmseqs2/wiki">Github Wiki</a>&nbsp;or as&nbsp;<a href="https://mmseqs.com/latest/userguide.pdf">PDF file</a>&nbsp;(Thanks to&nbsp;<a href="https://github.com/jgm/pandoc">pandoc</a>!)</p>
<p>Please cite:&nbsp;<a href="https://www.nature.com/nbt/journal/vaop/ncurrent/full/nbt.3988.html">Steinegger M and Soeding J. MMseqs2 enables sensitive protein sequence searching for the analysis of massive data sets. Nature Biotechnology, doi: 10.1038/nbt.3988 (2017)</a>.</p><p>Address of the bookmark: <a href="https://github.com/soedinglab/MMseqs2" rel="nofollow">https://github.com/soedinglab/MMseqs2</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/24258/postdoctoral-fellowship-at-department-of-psychiatry-warneford-hospital-oxford</guid>
  <pubDate>Tue, 01 Sep 2015 05:24:49 -0500</pubDate>
  <link></link>
  <title><![CDATA[Postdoctoral Fellowship at Department of Psychiatry, Warneford Hospital, Oxford]]></title>
  <description><![CDATA[
<p>Applications are invited for a postdoctoral research assistant to work in the Translational Neuroscience and Dementia Research Group (TNDRG) on a project using informatics approaches to understand and prevent dementia, specifically on the role of the immune system in Alzheimer’s. The post is for a fixed-term duration of 1 year.</p>

<p>Working with other members of the TNDRG you will analyse complex genomic and epidemiological datasets, evaluating which computational tools are most suitable. You will contribute to the generation of innovative tools for linking epidemiological and multilevel omics datasets, ensuring that computer programs are written in a form that other collaborators can use and expand.</p>

<p>You will have or be close to completion of a PhD in either: bioinformatics; neuroscience; machine learning; statistics; epidemiology; neurology; or other relevant field. You will have experience programming on either R, Matlab, Python, C++, Java or any other imperative, object oriented or functional language.</p>

<p>Please direct Informal enquiries to Dr Alejo Nevado-Holgado (alejo.nevado-holgado@psych.ox.ac.uk).</p>

<p>You will be required to upload a supporting statement explaining how you meet the selection criteria for the post, a CV, and details of two referees as part of your online application.</p>

<p>The closing date for applications is 12.00 midday on 2 September 2015. Interviews will be held on Tuesday 15 September 2015. </p>

<p>https://www.recruit.ox.ac.uk/pls/hrisliverecruit/erq_jobspec_version_4.jobspec?p_id=118696</p>
]]></description>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/43439/mmseqs2-ultra-fast-and-sensitive-sequence-search-and-clustering-suite</guid>
	<pubDate>Wed, 06 Oct 2021 07:01:14 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/43439/mmseqs2-ultra-fast-and-sensitive-sequence-search-and-clustering-suite</link>
	<title><![CDATA[MMseqs2: ultra fast and sensitive sequence search and clustering suite]]></title>
	<description><![CDATA[<p><span>MMseqs2 (Many-against-Many sequence searching) is a software suite to search and cluster huge protein and nucleotide sequence sets. MMseqs2 is open source GPL-licensed software implemented in C++ for Linux, MacOS, and (as beta version, via cygwin) Windows. The software is designed to run on multiple cores and servers and exhibits very good scalability. MMseqs2 can run 10000 times faster than BLAST. At 100 times its speed it achieves almost the same sensitivity. It can perform profile searches with the same sensitivity as PSI-BLAST at over 400 times its speed.</span></p><p>Address of the bookmark: <a href="https://github.com/soedinglab/MMseqs2" rel="nofollow">https://github.com/soedinglab/MMseqs2</a></p>]]></description>
	<dc:creator>Abhi</dc:creator>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/24328/walk-in-interview-for-srf-jrf-posts-at-junagadh-agricultural-university</guid>
  <pubDate>Tue, 08 Sep 2015 11:58:09 -0500</pubDate>
  <link></link>
  <title><![CDATA[Walk-in-interview for SRF, JRF posts at Junagadh Agricultural University]]></title>
  <description><![CDATA[
<p>Job Description: Walk-in-interview for SRF, JRF posts at Junagadh Agricultural University</p>

<p>Junagadh Agricultural University has given a recruitment notification to fill the posts of Senior, Junior Research Fellows in the establishment.</p>

<p>Name &amp; No: of Posts:</p>

<p>1. Senior Research Fellow: 05<br />2. Junior Research Fellow: 05</p>

<p>Title of the Projects under Senior Research Fellow:</p>

<p>1. Molecular mapping of important traits and their transfer through marker assisted selection in Groundnut and cotton<br />2. Aflatoxin and its management in groundnut at Saurashtra region of Gujarat.<br />3. Improvement in Agricultural Production through nanotechnological inventions at Junagadh.<br />4. Synthesis and Characterisation of chitosan based NPK-Nano fertilizers</p>

<p>Title of the Projects under Junior Research Fellow:</p>

<p>1. Improvement in Agricultural Production Through Nanotechnological Inventions at Junagadh.<br />2. Synthesis and Characterisation of chitosan based NPK-Nano fertilizers</p>

<p>Required Eligibility Criteria:</p>

<p>1. Senior Research Fellow:</p>

<p>Age Limit: Candidates age must be maximum 35 years<br />Educational Qualification: M.Sc in Nanotechnology/Biotechnology/Bioinformatics<br />Salary: Rs. 16,000/- + HRA for first and second year, Rs. 18,000/- + HRA during third year</p>

<p>2. Junior Research Fellow:</p>

<p>Age Limit: Candidates age must be maximum 30 years<br />Educational Qualification: B.Sc or M.Sc degree in the field of Nanotechnology/Biotechnology<br />Salary: Rs. 9,600/- , Rs. 14,400/- p.m</p>

<p>Eligible candidates may attend the walk-in-interview on 10-09-2015 with necessary certificates of testimonials</p>

<p>Click Here for Detailed Recruitment Notification<br />http://www.jau.in/attachments/Advt/BiotechSRFJRF.pdf</p>
]]></description>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/24463/project-fellow-at-indian-institute-of-chemical-biology-iicb</guid>
  <pubDate>Tue, 22 Sep 2015 23:47:35 -0500</pubDate>
  <link></link>
  <title><![CDATA[Project Fellow at Indian Institute of Chemical Biology (IICB)]]></title>
  <description><![CDATA[
<p>Advertisement No. : R&amp;C/CD/427/2015  ,Vacancy Code: 4271501    </p>

<p>Project Fellow Bioinformatics recruitment in Indian Institute of Chemical Biology (IICB) purely temporary </p>

<p>Name of the Project:  "Genomics and Informatics Solutions for Integrating Biology(Genesis)".     </p>

<p>No. of Vacancies: 1     </p>

<p>Qualification required : M.Sc in Bioinformatics with 55% Marks. </p>

<p>Experience (Desirable): Candidate should be well versed with sequencing data analysis,assembly and annotation of whole genome sequence. Experience in transcriptional data analysis is also preferred.</p>

<p>Age Limit : 28 Years   <br />  <br />Stipend : Rs.16000<br />How to apply<br />Interested candidates may appear for the walk-in-interview to be held on 28.09.2015 from 11.00 a.m. in the Red Carpet Room with the following documents self attested copy - (1) Matriculation Certificate in support of your date of birth, (2) Degree/Diploma Certificate, (3) Original reprints of all testimonials regarding educational qualification, (4) No Objection Certificate from the employer if employed, (5) Final Mark Sheet of M.Sc. Examination, (6) One Passport size photograph.</p>

<p>http://www.career.iicb.res.in/Recruitment%20Notice.php</p>
]]></description>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/24704/2-positions-on-the-evolutionary-analysis-of-biological-sequences-in-montpellier-france</guid>
  <pubDate>Mon, 28 Sep 2015 08:25:48 -0500</pubDate>
  <link></link>
  <title><![CDATA[2 positions on the evolutionary analysis of biological sequences in Montpellier - France]]></title>
  <description><![CDATA[
<p>The Methods and Algorithms for Bioinformatics (MAB) team at the LIRMM (computer science, robotics and microelectronics laboratory at the CNRS &amp; University of Montpellier, France) is looking for talented individuals to fill two postdoctoral positions.  We are seeking candidates with a strong background in computational evolutionary biology. The positions will start by the end of 2015.<br /> <br />The first of the positions (duration: 18-24 months), associated with the European VIROGENESIS project (http://www.kuleuven.be/english/research/EU/p/horizon2020/sc/sc1/Virogenesis), concerns the evolutionary analysis of viral sequences.  Topics include -- but are not limited to -- phylogenetic classification of metagenomic reads and the recombination history of viruses.<br /> <br />The second position (duration: 1 year), associated with the Institute for Computational Biology (IBC, http://www.ibc-montpellier.fr), concerns evolutionary analyses of large-scale genomic data -- including the inference of very large phylogenies, gene/species tree reconciliation, comparative genomics, phylogenetic network inference and verification, phylogeography, the use of phylogenies to study the evolution of characters.<br /> <br />A one thousand year old city, Montpellier is a thriving research community with a multitude of biology and biomedical research centers.  It is the fastest growing city in France where approximately one third of the population are students, and a wonderful location for outdoor activities (kite/wind surfing, sailing, river/sea kayaking, hiking and rock climbing).  The LIRMM is one of the most visible computer science laboratories in France.</p>
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