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	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/44734?offset=420</link>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/blog/view/41804/useful-links-to-therapy-disease-drug-and-drug-target-network-data</guid>
	<pubDate>Mon, 01 Jun 2020 11:47:51 -0500</pubDate>
	<link>https://bioinformaticsonline.com/blog/view/41804/useful-links-to-therapy-disease-drug-and-drug-target-network-data</link>
	<title><![CDATA[Useful links to therapy, disease, drug and drug-target network data:]]></title>
	<description><![CDATA[<p>Useful links to therapy, disease, drug and drug-target network data:</p><p><strong>DrugBank:</strong></p><p>a bioinformatics- cheminformatics resource combining detailed drug data with comprehensive drug target information with &gt;4900 drug (~3500 experimental) and &gt;1500 non-redundant protein entries http://www.drugbank.ca/</p><p><strong>Drug-Target Network:</strong></p><p>network data of 890 drugs and 394 target human proteins http://www.nature.com/nbt/journal/v25/ n10/suppinfo/nbt1338_S1.html</p><p><strong>Drug-Therapy Network:</strong></p><p>three layers of drug-therapy networks according to the ATC classification http://www.biomedcentral.com/1471-2210/8/5/additional/</p><p><strong>FDA Orange Book:</strong></p><p>approved drug products with therapeutic equivalence evaluations http://www.fda.gov/cder/ob/HIDdb: Thomson Investigational drugs database including information on 107000 patents, 25000 investigational drugs and 80000 chemical structures http://scientific.thomson.com/products/iddb/HOMIM: a knowledgebase of human genes and genetic disorders http://www.ncbi.nlm.nih.gov/ sites/entrez?db=omim</p><p><strong>PDTD:</strong></p><p>3D drug target structure database with a target identification option http://www.dddc.ac.cn/pdtd/</p><p><strong>Predicted drug targets:</strong></p><p>a set of 1383 predicted drug targets http://www.biomedcentral.com/1471-2105/8/353/additional/ [25] Protein ligand network: a network of 4208 ligands and ~15000 binding sites http://pbil.kaist.ac.kr/~parkkw/Lnet/</p><p><strong>TDR Targets Database:</strong></p><p>identification and ranking targets against neglected tropical diseases http://tdrtargets.org/</p><p><strong>Therapeutic Target Database:</strong></p><p>lists &gt;1500 therapeutic targets, disease conditions and corresponding drugs http://xin.cz3.nus.edu.sg/group/cjttd/ttd.asp</p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/6818/scientist-positions-gujarat-state-biotechnology-mission</guid>
  <pubDate>Mon, 25 Nov 2013 10:26:39 -0600</pubDate>
  <link></link>
  <title><![CDATA[Scientist Positions @ Gujarat State Biotechnology Mission]]></title>
  <description><![CDATA[
<p>Gujarat State Biotechnology Mission invite applications [Online Only] under various projects* namely Gujarat Biodiversity Gene Bank (BioGene), Gujarat Institute of Genomics (GIG), Gujarat Institute of Bioinformatics [GIBS] and Gujarat Institute of Marine Biotechnology. Eligible candidates can Apply through online application portal.</p>

<p>1 Scientist E 3</p>

<p>50,000/-</p>

<p>M.Sc. in Life sciences or Plant Sciences or Biotechnology or Microbiology or Bioinformatics or Ph.D. from a recognized university in any of above subject.</p>

<p>Minimum 8 Yrs. of experience after M.Sc. or 5 Yrs. of experience after Ph.D. in responsible position of work in R &amp; D in the area of genomics/ conservation biotechnology/bioinformatics/Planning/Scientific Administration in Science and technology organization. Highly qualified in the area of modern biology, as evidenced through research experience and proven ability to carry out work in the area of conservation biotechnology. Age limit not exceeding 40yrs.</p>

<p>2 Scientist B 6</p>

<p>30,000/-</p>

<p>M.Sc. in Life sciences or Plant Sciences or Biotechnology or Microbiology or Bioinformatics or Ph.D. from a recognized university in any of above subject shall be preferred.</p>

<p>Minimum 3 Yrs. of experience after M.Sc. in responsible position of work in R &amp; D in the area of genomics/ conservation biotechnology/ bioinformatics /Planning/Scientific Administration in Science and technology organization. Highly qualified in the area of modern biology, as evidenced through research experience and proven ability to carry out work in the area of conservation biotechnology. Age limit not exceeding 35yrs.</p>

<p>The positions are purely on contractual basis for 11 months. Interested candidates can apply online in specified format available at "http://leogen.in/recruit/" The last date of applying is 24th December, 2013. Applications must be submitted online only. Applications submitted in any other format except online prescribed performa will be rejected. Candidates in service must apply through proper channel. Candidates will be required to provide original documents along with duly filled and signed application Performa, as and when called for interview.</p>

<p>For more details please visit the website URL : http://leogen.in/recruit</p>
]]></description>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/42362/magic-a-tool-for-predicting-transcription-factors-and-cofactors-driving-gene-sets-using-encode-data</guid>
	<pubDate>Thu, 26 Nov 2020 11:05:04 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/42362/magic-a-tool-for-predicting-transcription-factors-and-cofactors-driving-gene-sets-using-encode-data</link>
	<title><![CDATA[MAGIC: A tool for predicting transcription factors and cofactors driving gene sets using ENCODE data]]></title>
	<description><![CDATA[<p><span>The algorithm presented herein,&nbsp;</span><strong>M</strong><span>ining&nbsp;</span><strong>A</strong><span>lgorithm for&nbsp;</span><strong>G</strong><span>enet</span><strong>I</strong><span>c&nbsp;</span><strong>C</strong><span>ontrollers (MAGIC), uses ENCODE ChIP-seq data to look for statistical enrichment of TFs and cofactors in gene bodies and flanking regions in gene lists without an&nbsp;</span><em>a priori</em><span>&nbsp;binary classification of genes as targets or non-targets. When compared to other TF mining resources, MAGIC displayed favourable performance in predicting TFs and cofactors that drive gene changes in 4 settings: </span></p>
<p><span>1) A cell line expressing or lacking single TF, </span></p>
<p><span>2) Breast tumors divided along PAM50 designations </span></p>
<p><span>3) Whole brain samples from WT mice or mice lacking a single TF in a particular neuronal subtype </span></p>
<p><span>4) Single cell RNAseq analysis of neurons divided by Immediate Early Gene expression levels. </span></p>
<p><span>In summary, MAGIC is a standalone application that produces meaningful predictions of TFs and cofactors in transcriptomic experiments.</span></p>
<p><span>More at&nbsp;https://uwmadison.app.box.com/s/8j90e5h2rjrsz3bacaxnq8kor2o64vyg</span></p><p>Address of the bookmark: <a href="https://github.com/asroopra/MAGIC" rel="nofollow">https://github.com/asroopra/MAGIC</a></p>]]></description>
	<dc:creator>BioStar</dc:creator>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/researchlabs/view/7088/gabi</guid>
  <pubDate>Fri, 06 Dec 2013 16:43:01 -0600</pubDate>
  <link></link>
  <title><![CDATA[GABi]]></title>
  <description><![CDATA[
<p>GABi Research<br />The major researching fields defined as the GABi scope are described next:<br />    Sequence Analysis<br />    Protein Structure Prediction<br />    Comparative Genomics<br />    Functional Analysis of Residues on Protein Families<br />    Gene/Protein Networks<br />    Genome structure &amp; base composition<br />    Highthroughput data analysis from NGS</p>

<p>Lab Page http://gabi.cidbio.org/index/</p>
]]></description>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/43090/loretta-a-user-friendly-tool-for-assembling-viral-genomes-from-pacbio-sequence-data</guid>
	<pubDate>Wed, 23 Jun 2021 07:54:53 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/43090/loretta-a-user-friendly-tool-for-assembling-viral-genomes-from-pacbio-sequence-data</link>
	<title><![CDATA[LoReTTA, a user-friendly tool for assembling viral genomes from PacBio sequence data]]></title>
	<description><![CDATA[<p>LoReTTA (Long Read Template-Targeted Assembler), a tool designed for performing <em>de novo</em> assembly of long reads generated from viral genomes on the PacBio platform. LoReTTA exploits a reference genome to guide the assembly process, an approach that has been successful with short reads.</p>
<p>https://academic.oup.com/ve/article/7/1/veab042/6248116</p><p>Address of the bookmark: <a href="https://academic.oup.com/ve/article/7/1/veab042/6248116" rel="nofollow">https://academic.oup.com/ve/article/7/1/veab042/6248116</a></p>]]></description>
	<dc:creator>Neel</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/researchlabs/view/7214/lapti-lab</guid>
  <pubDate>Thu, 12 Dec 2013 18:19:12 -0600</pubDate>
  <link></link>
  <title><![CDATA[LAPTI Lab]]></title>
  <description><![CDATA[
<p>The main theme of our research is the understanding of how genetic information is decoded from DNA into RNA and proteins. Someone may find this topic a little strange and argue that we already know how this is happening.</p>

<p>Translational recoding. </p>

<p>RNA editing. </p>

<p>Evolution of the genetic code and translation.</p>

<p>More at http://lapti.ucc.ie/research.html</p>

<p>Lab page http://lapti.ucc.ie/index.html</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/43801/smudgeplot-inference-of-ploidy-and-heterozygosity-structure-using-whole-genome-sequencing-data</guid>
	<pubDate>Fri, 25 Feb 2022 04:42:09 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/43801/smudgeplot-inference-of-ploidy-and-heterozygosity-structure-using-whole-genome-sequencing-data</link>
	<title><![CDATA[Smudgeplot: Inference of ploidy and heterozygosity structure using whole genome sequencing data]]></title>
	<description><![CDATA[<p dir="auto">This tool extracts heterozygous kmer pairs from kmer count databases and performs gymnastics with them. We are able to disentangle genome structure by comparing the sum of kmer pair coverages (CovA + CovB) to their relative coverage (CovB / (CovA + CovB)). Such an approach also allows us to analyze obscure genomes with duplications, various ploidy levels, etc.</p>
<p dir="auto">Smudgeplots are computed from raw or even better from trimmed reads and show the haplotype structure using heterozygous kmer pairs. For example:</p>
<p dir="auto"><a href="https://user-images.githubusercontent.com/8181573/45959760-f1032d00-c01a-11e8-8576-ff0512c33da9.png" target="_blank"><img src="https://user-images.githubusercontent.com/8181573/45959760-f1032d00-c01a-11e8-8576-ff0512c33da9.png" alt="smudgeexample" style="border: 0px;"></a></p><p>Address of the bookmark: <a href="https://github.com/KamilSJaron/smudgeplot" rel="nofollow">https://github.com/KamilSJaron/smudgeplot</a></p>]]></description>
	<dc:creator>Neel</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/7362/junior-research-fellow-jrf-project-fellow-kalasalingam-university</guid>
  <pubDate>Thu, 19 Dec 2013 13:23:39 -0600</pubDate>
  <link></link>
  <title><![CDATA[Junior Research Fellow (JRF) / Project Fellow @ Kalasalingam University]]></title>
  <description><![CDATA[
<p>Applications are invited from interested candidates for the post of one Junior Research Fellow / Project Fellow on a purely temporary basis in a time bound research project (3 years) sponsored by Science and Engineering Research Board, Government of India, New Delhi.</p>

<p>Name of the fellowship: Junior Research Fellow (JRF) / Project Fellow</p>

<p>Title of the project: Genome-wide Mapping of Murine Specific Dengue T-cell Epitopes: Computational Prediction, Identification and use as Candidate Vaccines</p>

<p>Duration: 3 years</p>

<p>Fellowship: Rs. 18,000 for first 2 years and Rs. 20,000 for 3rdyear (for M.Tech. candidates)</p>

<p>Rs. 16,000 for first 2 years and Rs. 18,000 for 3rdyear (for M.Sc. candidates with NET qualification)</p>

<p>Rs. 8,000 for first 2 years and Rs. 10,000 for 3rdyear (for M.Sc. candidates without NET qualification)</p>

<p>Qualifications: M.Tech. in Biotechnology / M.Sc. in any branch of Life Sciences</p>

<p>Desirable Experience: Minimum of two years research experience in any of the following areas: Immunology / Microbiology / Gene Manipulation / Bioinformatics</p>

<p>Interested and eligible candidates may apply with their resume along with relevant documents and a passport size photograph to the Principal Investigator by post (or e-mail) on or before December 31, 2013. Only short listed candidates will be called for written test and/or interview. Selected candidate may register for PhD in Kalasalingam University. No TA/DA will be paid for attending interview.</p>

<p>Dr. K. Sundar<br />Principal Investigator (SERB Project)<br />Department of Biotechnology<br />Kalasalingam University<br />Krishnankoil – 626126, Tamil Nadu<br />sundarkr@klu.ac.in</p>
]]></description>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/44313/orthovenn3-an-integrated-platform-for-exploring-and-visualizing-orthologous-data-across-genomes</guid>
	<pubDate>Tue, 02 May 2023 00:48:28 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/44313/orthovenn3-an-integrated-platform-for-exploring-and-visualizing-orthologous-data-across-genomes</link>
	<title><![CDATA[OrthoVenn3: an integrated platform for exploring and visualizing orthologous data across genomes]]></title>
	<description><![CDATA[<p><span>OrthoVenn3 is a powerful tool for comparative genomics analysis, used as a web server for full genome comparisons, annotation, and evolutionary analysis of orthologous clusters across multiple species. It has already been used by thousands of users from over 60 countries.</span></p><p>Address of the bookmark: <a href="https://orthovenn3.bioinfotoolkits.net/" rel="nofollow">https://orthovenn3.bioinfotoolkits.net/</a></p>]]></description>
	<dc:creator>Abhi</dc:creator>
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<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/7567/asst-professor-jaipur-national-university</guid>
  <pubDate>Fri, 27 Dec 2013 19:54:40 -0600</pubDate>
  <link></link>
  <title><![CDATA[Asst. Professor @ JAIPUR NATIONAL UNIVERSITY]]></title>
  <description><![CDATA[
<p>JAIPUR NATIONAL UNIVERSITY</p>

<p>Established by Government of Rajasthan</p>

<p>Approved by UGC under Sec 2(f) of UGC Act 1956</p>

<p>ADVERTISEMENT FOR FACULTY POSITION AT JAIPUR NATIONAL UNIVERSITY,JAIPUR</p>

<p>Jaipur National University, Jaipur is a premier centre of learning, providing various integrated and interdisciplinary programmes of study and research in the country. With the opening of the School of Distance Education &amp; Learning, JNU has taken education to the doorsteps of those aspirants who, for some reason, could not be a part of regular stream of education. In this era of competition &amp; ambition for excellence, it has become imperative to have quality education &amp; an alert mind coupled with the right attitude to carry onself, and for this, JNU happens to be the most sought after destination.</p>

<p>School Of Life Sciences: Bioinformatics, Chemistry</p>

<p>Total no of Post: 04</p>

<p>Education:</p>

<p>PG – M.Sc /M.Tech Bioinformatics</p>

<p>PG – M.Sc /M.Tech Chemistry</p>

<p>Experience:</p>

<p>Candidate with 1-2 years of teaching experience in college/ University will be preffered. Freshers may also apply.</p>

<p>Compensation: Compensation will not be a problem for the right candidate</p>

<p>HOW TO APPLY:</p>

<p>SEND THE UPDATED RESUME THROUGH MAIL OR POST AT</p>

<p>dsbhatia5@yahoo.com</p>

<p>contact no: 7568246839</p>

<p>Website: http://www.jnujaipur.ac.in</p>

<p>Please mail your resume to Prof.D.S.Bhatia</p>

<p>Email Address: dsbhatia5@yahoo.com</p>

<p>Ph:, +917568246839</p>
]]></description>
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