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	<title><![CDATA[BOL: Related items]]></title>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/39603/tenure-track-position-in-bioinformatics-at-institute-of-neurobiology-unam-queretaro-mexico</guid>
  <pubDate>Mon, 10 Jun 2019 00:48:54 -0500</pubDate>
  <link></link>
  <title><![CDATA[Tenure Track position in Bioinformatics at Institute of Neurobiology, UNAM, Querétaro, México]]></title>
  <description><![CDATA[
<p>The Institute of Neurobiology UNAM (www.inb.unam.mx) offers a tenure-track position at the level of Assistant Professor (Investigador Asociado C) to develop an original research program in Bioinformatics with applications to neuroscience and to establish multidisciplinary collaboration with other members of the Institute. Applicants are expected to have a doctorate degree, postdoctoral experience related to bioinformatics or genome biology, and a strong track record of peer-reviewed publications. No previous experience in neuroscience is required.</p>

<p>Interested applicants must submit CV and addresses of three references to ataulfo@unam.mx.</p>

<p>Tenure Track position in Genomic Sciences  </p>

<p>Laboratorio Internacional de Investigación sobre el Genoma Humano, UNAM Juriquilla, Querétaro, México </p>

<p>The International Laboratory for Human Genome Research, LIIGH-UNAM (www.liigh.unam.mx) offers a tenure-track position at the level of Assistant Professor (Investigador Asociado C) to perform research, teaching and formation of human resources in the area of: “Genomics of Mendelian Diseases” </p>

<p>Applicants are expected to have a doctorate degree, postdoctoral experience related to the above mentioned area and a strong track record of peer-reviewed publications. Interested applicants must submit CV, email addresses of three references, and a three-page project to Dr. Rafael Palacios, Coordinator of LIIGH-UNAM (palacios@liigh.unam.mx) before June 21, 2019 ………………………………………………………………</p>

<p>Tenure Track position in Genomic Sciences </p>

<p>Laboratorio Internacional de Investigación sobre el Genoma Humano, UNAM Juriquilla, Querétaro, México </p>

<p>The International Laboratory for Human Genome Research, LIIGH-UNAM (www.liigh.unam.mx) offers a tenure-track position at the level of Assistant Professor (Investigador Asociado C) to perform research, teaching and formation of human resources in the area of: “Statistic Population Genomics and its Impact in Complex Diseases” </p>

<p>Applicants are expected to have a doctorate degree, postdoctoral experience related to the above mentioned area and a strong track record of peer-reviewed publications. Interested applicants must submit CV, email addresses of three references, and a three-page statement of research interests to Dr. Rafael Palacios, Coordinator of LIIGH-UNAM (palacios@liigh.unam.mx) before June 21, 2019</p>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/pages/view/7674/useful-publications-and-websites-for-deep-sequencing-data-analysis</guid>
	<pubDate>Sun, 29 Dec 2013 22:30:45 -0600</pubDate>
	<link>https://bioinformaticsonline.com/pages/view/7674/useful-publications-and-websites-for-deep-sequencing-data-analysis</link>
	<title><![CDATA[Useful Publications and Websites for Deep Sequencing Data Analysis]]></title>
	<description><![CDATA[<h3>Global overview papers</h3><p>Next generation quantitative genetics in plants. Jim&eacute;nez-G&oacute;mez, Frontiers in Plant Science 2:77, 2011 <span style="text-decoration: underline;"><a href="http://www.frontiersin.org/Plant_Physiology/10.3389/fpls.2011.00077/full">Full Text</a> </span><em>[equally relevant to animal and microbial systems]</em></p><p>Sense from sequence reads: methods for alignment and assembly. Flicek &amp; Birney, Nat Methods 6(11 Suppl):S6-S12, 2009. <a href="http://www.nature.com/nmeth/journal/v6/n11s/full/nmeth.1376.html"><span style="text-decoration: underline;">Full Text</span></a></p><h3>Library construction and experimental design</h3><p>Statistical design and analysis of RNA sequencing data. Auer &amp; Doerge, Genetics 185(2):405-16, 2010. <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2881125"><span style="text-decoration: underline;">PubMedCentral</span></a></p><p>Biases in Illumina transcriptome sequencing caused by random hexamer priming. Hansen et al., Nucleic Acids Res. 38(12): e131, 2010. <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2896536"><span style="text-decoration: underline;">PubMedCentral</span></a></p><p>Analyzing and minimizing PCR amplification bias in Illumina sequencing libraries. Aird et al, Genome Biology 12:R18, 2011 <a href="http://genomebiology.com/2011/12/2/R18"><span style="text-decoration: underline;">Full Text</span></a></p><p>Amplification-free Illumina sequencing-library preparation facilitates improved mapping and assembly of GC-biased genomes. Kozarewa et al, Nature Methods 6(4):291-5, 2009 <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2664327/"><span style="text-decoration: underline;">PubMedCentral</span></a></p><p>Cost-effective, high-throughput DNA sequencing libraries for multiplexed target capture. Rohland &amp; Reich, Genome Research 22(5): 939&ndash;946. <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3337438/"><span style="text-decoration: underline;">PubMedCentral</span></a></p><h3>Data formats, data management, and alignment software tools<span style="text-decoration: underline;"> </span></h3><p>The Sequence Alignment/Map format and SAMtools. Li et al, Bioinformatics 25(16):2078-9, 2009 <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2723002"><span style="text-decoration: underline;">PubMedCentral</span></a></p><p>SAM format specification <a href="http://samtools.sourceforge.net/SAM1.pdf"><span style="text-decoration: underline;">file</span></a></p><p>Efficient storage of high throughput sequencing data using reference-based compression. Fritz et al, Genome Res 21(5):734-40, 2011. <a href="http://genome.cshlp.org/content/21/5/734.long"><span style="text-decoration: underline;">Full Text</span></a></p><p>Compression of DNA sequence reads in FASTQ format. Deorowicz &amp; Grabowski, Bioinformatics 27(6):860-2, 2011. <a href="http://www.ncbi.nlm.nih.gov/pubmed/21252073"><span style="text-decoration: underline;">PubMed</span></a></p><p>Fast and accurate short read alignment with Burrows-Wheeler transform. Li &amp; Durbin, Bioinformatics 25(14):1754-60, 2009. <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2705234"><span style="text-decoration: underline;">PubMedCentral</span></a></p><p>Improving SNP discovery by base alignment quality. Li H, Bioinformatics 27(8):1157-8, 2011. <a href="http://www.ncbi.nlm.nih.gov/pubmed/21320865"><span style="text-decoration: underline;">PubMed</span></a></p><p>BEDTools: a flexible suite of utilities for comparing genomic features. Quinlan and Hall, Bioinformatics 26:841-842, 2010. <a href="http://bioinformatics.oxfordjournals.org/content/26/6/841.full.pdf+html"><span style="text-decoration: underline;">Publisher Website</span></a></p><h3>Data quality assessment, filtering, and correction</h3><p>SolexaQA: At-a-glance quality assessment of Illumina second-generation sequencing data. Cox et al, BMC Bioinformatics 11:485, 2010. <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2956736"><span style="text-decoration: underline;">PubMedCentral</span></a></p><p>TileQC: a system for tile-based quality control of Solexa data. Dolan &amp; Denver, BMC Bioinformatics 9:250, 2008 <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2443380"><span style="text-decoration: underline;">PubMedCentral</span></a> <em>[requires a reference sequence]</em></p><p>Quake: quality-aware detection and correction of sequencing errors. Kelley et al, Genome Biol 11(11):R116, 2010. <a href="http://www.ncbi.nlm.nih.gov/pubmed/21114842"> <span style="text-decoration: underline;">PubMed</span></a></p><p>FastQC: a quality control tool for high-throughput sequence data. <a href="http://www.bioinformatics.bbsrc.ac.uk/projects/fastqc/"><span style="text-decoration: underline;">Home Page</span></a></p><p>FASTX-toolkit: FASTQ/A short-reads pre-processing tools <a href="http://hannonlab.cshl.edu/fastx_toolkit/"><span style="text-decoration: underline;">Home Page</span></a></p><p>Reference-free validation of short read data. Schr&ouml;der et al, PLoS One 5(9):e12681, 2010. <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2943903"> <span style="text-decoration: underline;">PubMedCentral</span></a></p><p>Correction of sequencing errors in a mixed set of reads. Salmela, Bioinformatics 26(10):1284, 2010. <a href="http://bioinformatics.oxfordjournals.org/content/26/10/1284.long"><span style="text-decoration: underline;">Full Text</span></a> <em>[includes error correction of SOLiD reads in colorspace]</em></p><p>Repeat-aware modeling and correction of short read errors. Yang et al, BMC Bioinformatics 12(Supp1):S52, 2011 <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3044310"> <span style="text-decoration: underline;">PubMedCentral</span></a> <em>[requires a reference sequence]</em></p><p>HiTEC: accurate error correction in high-throughput sequencing data. Ilie et al, Bioinformatics 27(3):295, 2011 <a href="http://bioinformatics.oxfordjournals.org/content/27/3/295.long"><span style="text-decoration: underline;">Full Text</span></a></p><p>Error correction of high-throughput sequencing datasets with non-uniform coverage. Medvedev et al., Bioinformatics 27(13):i137-41, 2011. <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3117386"><span style="text-decoration: underline;">PubMedCentral</span></a></p><h3>De novo assembly<span style="text-decoration: underline;"> </span></h3><p>Velvet: algorithms for de novo short read assembly using de Bruijn graphs. Zerbino &amp; Birney, Genome Res 18(5):821-9, 2008. <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2336801">u&gt;PubMedCentral</a></p><p>Assembly of large genomes using second-generation sequencing. Schatz et al, Genome Res 20(9):1165-73, 2010. <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2928494"><span style="text-decoration: underline;">PubMedCentral</span></a></p><p>High-quality draft assemblies of mammalian genomes from massively parallel sequence data. Gnerre et al, PNAS 108(4): 1513-18, 2011 <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3029755"><span style="text-decoration: underline;">PubMedCentral</span></a></p><p>Genome assembly has a major impact on gene content: a comparison of annotation in two <em>Bos taurus </em> assemblies. Florea&nbsp; et al., PLoS One 6(6):e21400, 2011. <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3120881/"><span style="text-decoration: underline;">PubMedCentral</span></a></p><p>Artemis: an integrated platform for visualization and analysis of high-throughput sequence-based experimental data. Carver et al, Bioinformatics 28(4):464 - 469, 2012 <span style="text-decoration: underline;"><a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3278759/">PubMedCentral</a></span></p><p>Efficient de novo assembly of large genomes using compressed data structures. Simpson &amp; Durbin, Genome Research 22:549-556, 2012 <span style="text-decoration: underline;"><a href="http://genome.cshlp.org/content/22/3/549.full">Full Text</a></span> <em>[Describes the String Graph Assembler (SGA), which assembled a human genome in less than 6 days using 54 Gb of RAM and a 123-processor compute cluster for calculation of an FM-index of the 1.2 billion reads]</em></p><p>Readjoiner: a fast and memory efficient string graph-based sequence assembler. Gonnella &amp; Kurtz, BMC Bioinformatics 13: 82, 2012 <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3507659"><span style="text-decoration: underline;">PubMedCentral</span></a></p><p>Assemblathon 1: A competitive assessment of de novo short read assembly methods. Earl et al, Genome Research 21:2224-2241, 2011 <span style="text-decoration: underline;"><a href="http://genome.cshlp.org/content/early/2011/09/16/gr.126599.111.full.pdf+html">Full Text</a></span></p><h3>Chromatin immunoprecipation analysis: ChIP-seq</h3><p>ChIP-seq: advantages and challenges of a maturing technology. Park, Nat Rev Genet. 10:669-80, 2009 <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3191340/"><span style="text-decoration: underline;">PubMed</span></a></p><p>ChIP-seq and Beyond: new and improved methodologies to detect and characterize protein-DNA interactions. Furey, Nat Rev Genet 13: 840&ndash;852, 2012 <a href="http://www.nature.com/nrg/journal/v13/n12/full/nrg3306.html"> <span style="text-decoration: underline;">Publisher Web Site</span></a></p><p>MuMoD: a Bayesian approach to detect multiple modes of protein&ndash;DNA binding from genome-wide ChIP data. Narlikar, Nucleic Acids Res 41:21&ndash;32, 2013 <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3592440/"><span style="text-decoration: underline;">PubMed</span></a></p><h3>Transcriptome analysis</h3><h3>Assembly and comparison to genome</h3><p>Full-length transcriptome assembly from RNA-Seq data without a reference genome. Grabherr et al, Nature Biotechnology 29:644 - 652, 2011. <a href="http://www.ncbi.nlm.nih.gov/pubmed/21572440"><span style="text-decoration: underline;">PubMed</span></a> <em>[The software is called <a href="http://trinityrnaseq.sourceforge.net/"><span style="text-decoration: underline;">Trinity</span></a>, and is available on Sourceforge.]</em></p><p>Comprehensive analysis of RNA-Seq data reveals extensive RNA editing in a human transcriptome. Peng et al, Nature Biotechnology 30:253 - 260, 2012. <span style="text-decoration: underline;"><a href="http://www.ncbi.nlm.nih.gov/pubmed/22327324">PubMed</a></span> <em>[Several comments on this paper question whether the reported differences are in fact evidence of editing or are simply sequencing errors - the authors stand by their conclusions, but the controversy demonstrates the importance of robust data analysis methods.] </em></p><p>Optimization of de novo transcriptome assembly from next-generation sequencing data. Surget-Groba &amp; Montoya-Burgos, Genome Res 20(10):1432-40, 2010. <a href="http://genome.cshlp.org/content/20/10/1432.long"><span style="text-decoration: underline;">Full Text</span></a></p><p>Rnnotator: an automated <em>de novo</em> transcriptome assembly pipeline from stranded RNA-Seq reads. Martin et al, BMC Genomics 11:663, 2010 <a href="http://www.biomedcentral.com/1471-2164/11/663"><span style="text-decoration: underline;">Full Text</span></a></p><p><em>De novo</em> assembly and analysis of RNA-seq data. Robertson et al, Nature Methods 7:909-912, 2010 <a href="http://www.nature.com/nmeth/journal/v7/n11/full/nmeth.1517.html"><span style="text-decoration: underline;">Full Text</span></a> <em>[describes Trans-ABySS, a pipeline to use the ABySS parallel assembler for de novo transcriptome analysis]</em></p><h3>Differential expression analysis</h3><p>R-SAP: a multi-threading computational pipeline for the characterization of high-throughput RNA-sequencing data. Mittal &amp; McDonald, Nucleic Acids Res, 2012 <span style="text-decoration: underline;"><a href="http://nar.oxfordjournals.org/content/early/2012/01/28/nar.gks047.long">Full Text</a></span></p><p>Targeted RNA sequencing reveals the deep complexity of the human transcriptome. Mercer et al, Nature Biotechnology 30:99 - 104, 2012 <span style="text-decoration: underline;"><a href="http://www.nature.com/nbt/journal/v30/n1/full/nbt.2024.html"> Publisher Website</a></span></p><p>Differential gene and transcript expression analysis of RNA-Seq experiments with TopHat and Cufflinks. Trapnell et al, Nature Protocols 7:562 - 578, 2012 <span style="text-decoration: underline;"><a href="http://www.nature.com/nprot/journal/v7/n3/full/nprot.2012.016.html"> Publisher Website</a></span></p><p>Characterization and improvement of RNA-Seq precision in quantitative transcript expression profiling. Łabaj et al, Bioinformatics 27:i383 - i391, 2011 <span style="text-decoration: underline;"><a href="http://bioinformatics.oxfordjournals.org/content/27/13/i383.full.pdf+html"> Full Text</a></span></p><p>Improving RNA-Seq expression estimates by correcting for fragment bias. Roberts et al, Genome Biol 12:R22, 2011 <span style="text-decoration: underline;"><a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3129672/">PubMed Central</a></span></p><p>Cloud-scale RNA-sequencing differential expression analysis with Myrna. Langmead et al, Genome Biol 11:R83, 2010 <a href="http://genomebiology.com/2010/11/8/R83"><span style="text-decoration: underline;">Full Text</span></a></p><p>From RNA-seq reads to differential expression results. Oshlack et al, Genome Biol 11(12):220, 2010 <a href="http://genomebiology.com/content/11/12/220"><span style="text-decoration: underline;">Full Text</span></a></p><p>DEGseq: an R package for identifying differentially expressed genes from RNA-seq data. Wang et al., Bioinformatics. 26(1):136-8. 2010 <a href="http://www.ncbi.nlm.nih.gov/pubmed/19855105"><span style="text-decoration: underline;"> PubMed</span></a></p><p>DEseq: Differential expression analysis for sequence count data. Anders and Huber, Genome Biology 11:R106, 2010 <a href="http://genomebiology.com/2010/11/10/R106"><span style="text-decoration: underline;">Full Text</span></a></p><p>edgeR: a Bioconductor package for differential expression analysis of digital gene expression data. Robinson et al., Bioinformatics 26(1):139-40 2010 <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2796818"> <span style="text-decoration: underline;">PubMedCentral</span></a></p><p>Two-stage Poisson model for testing RNA-seq data. Auer and Doerge, SAGMB 10(1), article 26 <a href="http://www.bepress.com/sagmb/vol10/iss1/art26/"><span style="text-decoration: underline;">Full Text</span></a></p><p>Experimental design, preprocessing, normalization and differential expression analysis of small RNA sequencing experiments. McCormick et al., Silence2(1):2, 2011 <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3055805"><span style="text-decoration: underline;">PubMedCentral</span></a></p><p>RNA-Seq gene expression estimation with read mapping uncertainty. Li et al, Bioinformatics 26:493-500, 2010 <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2820677">PubMedCentral</a> <em>[describes the RSEM software package]</em></p><h3>Comparing genomes and assemblies; variant detection<span style="text-decoration: underline;"> </span></h3><p>Versatile and open software for comparing large genomes. Kurtz et al, Genome Biol (5(2):R12, 2004. <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC395750"><span style="text-decoration: underline;">PubMedCentral</span></a> <em>[describes the MUMmer software for full-genome alignment &amp; comparisons]</em></p><p>Searching for SNPs with cloud computing. Langmead et al, Genome Biol 10(11):R134, 2009 <a href="http://genomebiology.com/content/10/11/R134"><span style="text-decoration: underline;">Full Text</span></a></p><p>Calling SNPs without a reference sequence. Ratan et al, BMC Bioinformatics 11:130, 2010 <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2851604"><span style="text-decoration: underline;">PubMedCentral</span></a></p><p>Microindel detection in short-read sequence data. Krawitz et al, Bioinformatics 26(6):722-9, 2010. <a href="http://bioinformatics.oxfordjournals.org/content/26/6/722.long"><span style="text-decoration: underline;">Full Text</span></a></p><p>vipR: variant identification in pooled DNA using R. Altmann et al., Bioinformatics 27: i77-i84, 2011. <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3117388"><span style="text-decoration: underline;">PubMedCentral</span></a></p><p>Geoseq: a tool for dissecting deep-sequencing datasets. Gurtowski et al, BMC Bioinformatics 11:506, 2010. <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2972303/"><span style="text-decoration: underline;">PubMedCentral</span></a> <em>[Geoseq is a web service that allows searching deep sequencing datasets with a reference sequence of a gene of interest]</em></p><p>Detecting and annotating genetic variations using the HugeSeq pipeline. Lam et al, Nature Biotechnology 30:226 - 229, 2012 <span style="text-decoration: underline;"><a href="http://www.nature.com/nbt/journal/v30/n3/full/nbt.2134.html">Publisher Website</a></span>, <span style="text-decoration: underline;"><a href="http://hugeseq.snyderlab.org/">Home Page</a></span></p><p>Genome-wide LORE1 retrotransposon mutagenesis and high-throughput insertion detection in <em>Lotus japonicus</em>. Urbański et al, Plant J 64:731-741, 2012. <span style="text-decoration: underline;"><a href="http://onlinelibrary.wiley.com/doi/10.1111/j.1365-313X.2011.04827.x/abstract">Publisher Website</a></span> <em>[This paper describes a 2-dimensional pooling strategy with barcoding to allow use of Illumina sequencing to screen for retrotransposon insertion mutations, and includes a software package called FSTpoolit for analysis of the resulting sequence reads.]</em></p><h3>Genotyping by sequencing</h3><p>Genome-wide genetic marker discovery and genotyping using next-generation sequencing. Davey et al., Nat Rev Genet 12(7):499-510, 2011 <a href="http://www.ncbi.nlm.nih.gov/pubmed/21681211"><span style="text-decoration: underline;">PubMed</span></a> <em>[A review of methods available at the time]</em></p><p>A robust, simple genotyping-by-sequencing (GBS) approach for high diversity species. Elshire et al., PLoS One 6(5):e19379, 2011. <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3087801"><span style="text-decoration: underline;">Full Text</span></a></p><p>Development of high-density genetic maps for barley and wheat using a novel two-enzyme genotyping-by-sequencing approach. Poland et al., PLoS One 7(2): e32253, 2012. <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3289635/"><span style="text-decoration: underline;">Full Text</span></a></p><p>Double digest RADseq: an inexpensive method for de novo SNP discovery and genotyping in model and non-model species. Peterson et al, PLoS One 7(5):e37135, . 2012. <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3365034/"><span style="text-decoration: underline;">Full Text</span></a></p><p>Imputation of unordered markers and the impact on genomic selection accuracy. Rutkowski et al, G3 3(3):427-39, 2013. <a href="http://www.g3journal.org/content/3/3/427.long"><span style="text-decoration: underline;">Full Text</span></a></p><p>Diversity Arrays Technology (DArT) and next-generation sequencing combined: genome-wide, high-throughput, highly informative genotyping for molecular breeding of <em>Eucalyptus</em>. Sansaloni et al., BMC Proceedings 5(Suppl 7):P54, 2011 <span style="text-decoration: underline;"><a href="http://www.biomedcentral.com/1753-6561/5/S7/P54">Full Text</a></span></p><p>High-throughput genotyping by whole-genome resequencing. Huang et al., Genome Res 19(6):1068-76, 2009. <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2694477"><span style="text-decoration: underline;">Full Text</span></a></p><p>Multiplexed shotgun genotyping for rapid and efficient genetic mapping. Andolfatto et al. Genome Res 21(4):610-7, 2011. <a href="http://genome.cshlp.org/content/21/4/610.long"><span style="text-decoration: underline;">Full Text</span></a></p><h3>Restriction-site Associated DNA (RAD) markers</h3><p>Rapid SNP discovery and genetic mapping using sequenced RAD markers. Baird et al, PLoS One 3(10):e3376, 2008 <span style="text-decoration: underline;"><a href="http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0003376">Full Text</a></span></p><p>Linkage mapping and comparative genomics using next-generation RAD sequencing of a non-model organism. Baxter et al., PLoS One 6(4):e19315, 2011. <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3082572"><span style="text-decoration: underline;">Full Text</span></a></p><p>Genome evolution and meiotic maps by massively parallel DNA sequencing: spotted gar, an outgroup for the teleost genome duplication. Amores et al, Genetics 188(4):799-808, 2011. <a href="http://www.ncbi.nlm.nih.gov/pubmed/21828280"><span style="text-decoration: underline;"> PubMed</span></a></p><p>Construction and application for QTL analysis of a Restriction-site Associated DNA (RAD) linkage map in barley. Chutimanitsakun et al, BMC Genomics 4; 12:4, 2011. <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3023751"><span style="text-decoration: underline;">Full Text</span></a></p><p>RAD tag sequencing as a source of SNP markers in <em>Cynara cardunculus </em>L. Scaglione et al., BMC Genomics 13:3, 2012. <span style="text-decoration: underline;"><a href="http://www.biomedcentral.com/1471-2164/13/3">Full Text</a></span></p><p>Paired-end RAD-seq for de novo assembly and marker design without available reference. Willing et al., Bioinformatics 27(16):2187-93, 2011. <a href="http://bioinformatics.oxfordjournals.org/content/27/16/2187.long"><span style="text-decoration: underline;">Publisher Website</span></a></p><p>Local de novo assembly of RAD paired-end contigs using short sequencing reads. Etter et al., PLOS ONE 6(4): e18561, 2011. <a href="http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0018561"><span style="text-decoration: underline;">Full Text</span></a></p><p>Stacks: building and genotyping loci de novo from short-read sequences. Catchen et al., G3: Genes, Genomes, Genetics, 1:171-182, 2011. <span style="text-decoration: underline;"> Full Text</span>, <a href="http://creskolab.uoregon.edu/stacks/"><span style="text-decoration: underline;">Home Page</span></a></p><p>Rainbow: an integrated tool for efficient clustering and assembling RAD-seq reads. Chong et al, Bioinformatics 28(21):2732-7, 2012. <a href="http://bioinformatics.oxfordjournals.org/content/28/21/2732.long"> <span style="text-decoration: underline;">Publisher Website</span></a></p><p>UK RAD Sequencing Wiki page, with bibliography and RADTools software download <a href="https://www.wiki.ed.ac.uk/display/RADSequencing/Home"><span style="text-decoration: underline;">Home Page</span></a></p><h3>Workspace environments</h3><p><span style="text-decoration: underline;">Papers</span></p><p>Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences. Goecks et al, Genome Biol 11(8):R86, 2010 <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2945788"><span style="text-decoration: underline;">PubMedCentral</span></a></p><p>Galaxy Cloudman: Delivering compute clusters. BMC Bioinformatics 11(Suppl. 12):S4, 2010 <a href="http://www.biomedcentral.com/content/pdf/1471-2105-11-S12-S4.pdf"><span style="text-decoration: underline;">Full Text</span></a></p><p><a href="http://www.broadinstitute.org/gsa/wiki/index.php/The_Genome_Analysis_Toolkit"><span style="text-decoration: underline;">The Genome Analysis Toolkit</span></a>: a MapReduce framework for analyzing next-generation DNA sequencing data. McKenna et al, Genome Res 20(9):1297-303, 2010. <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2928508"><span style="text-decoration: underline;">PubMedCentral</span></a></p><p>A framework for variation discovery and genotyping using next-generation DNA sequencing data. DePristo et al., Nat Genet 43(5):491-8, 2011. <a href="http://www.ncbi.nlm.nih.gov/pubmed/21478889"><span style="text-decoration: underline;"> PubMed</span></a></p><p><span style="text-decoration: underline;">Online resources</span></p><p>The <a href="http://cran.r-project.org/"><span style="text-decoration: underline;">R statistical computing</span></a> environment includes<a href="http://www.bioconductor.org/"><span style="text-decoration: underline;"> Bioconductor</span></a>, a specialized set of tools for analysis of microarray and high-throughput sequencing data. Introductory materials from on-line or short workshops are widely available online; examples are <span style="text-decoration: underline;"><a href="http://bioconductor.org/help/course-materials/2012/Evomics2012/Bioconductor-tutorial.pdf">Evomics2012 Bioconductor-tutorial.pdf</a></span>, and <a href="http://bcb.dfci.harvard.edu/%7Eaedin/courses/Bioconductor/"><span style="text-decoration: underline;">Intro to Bioconductor</span></a>. Materials from an advanced course on high-throughput genetic data analysis are at <span style="text-decoration: underline;"><a href="http://bioconductor.org/help/course-materials/2012/SeattleFeb2012/">Seattle 2012 materials</a></span>. Thomas Girke of UC-Riverside has written a very complete set of manuals describing the use of R and Bioconductor for analysis of genomic datasets, available at <a href="http://manuals.bioinformatics.ucr.edu/home/R_BioCondManual">R and Bioconductor Manuals</a>. <br /> <a href="http://cran.r-project.org/manuals.html"><span style="text-decoration: underline;">Manuals</span></a> and contributed <a href="http://cran.r-project.org/other-docs.html"><span style="text-decoration: underline;">documentation</span></a> for R are available at the R-project.org website, and video tutorials are also available on Youtube; those posted by Tutorlol are brief, clear, and to the point. <br /> Materials from a series of mini-courses in R taught in 2010 at UCLA are available:</p><ul>
<li><a href="http://scc.stat.ucla.edu/page_attachments/0000/0141/10S-basicR.pdf">Intro to programming and graphics</a></li>
<li><a href="http://scc.stat.ucla.edu/page_attachments/0000/0143/S10_RProgII.pdf">Data manipulation and functions</a></li>
<li><a href="http://scc.stat.ucla.edu/page_attachments/0000/0185/Graphics_course.pdf">Graphics for exploratory data analysis</a></li>
<li><a href="http://scc.stat.ucla.edu/page_attachments/0000/0147/20100503_IntroStats.pdf">Introductory statistics</a></li>
<li><a href="http://scc.stat.ucla.edu/page_attachments/0000/0188/reg_R_1_09S_slides.pdf">Linear regression</a></li>
</ul><p><a href="http://a-little-book-of-r-for-bioinformatics.readthedocs.org/en/latest/"> <span style="text-decoration: underline;">A Little Book of R for Bioinformatics</span></a> is an on-line resource with information and exercises to provide practice in bioinformatics analysis of DNA sequences and other biological data in R. <br /> Many books on specific topics in R programming are also available through Amazon or other vendors.</p><h3>Cloud computing resources</h3><p>The case for cloud computing in genome informatics. Lincoln Stein, Genome Biol. 11(5):207, 2010 <a href="http://www.ncbi.nlm.nih.gov/pubmed/20441614"><span style="text-decoration: underline;">Pubmed</span></a></p><p>Galaxy Cloudman: delivering cloud compute clusters. Afgan et al, BMC Bioinformatics <span style="text-decoration: underline;">11</span>(Suppl 12):S4, 2010 <a href="http://www.biomedcentral.com/1471-2105/11/S12/S4"><span style="text-decoration: underline;">Full Text</span></a></p><p><a href="http://cloudbiolinux.com/">CloudBioLinux</a> is an open-source project that provides a bioinformatics Linux system for cloud computing, pre-configured with a variety of software tools installed and ready to use.</p><p>A <a href="https://github.com/chapmanb/cloudbiolinux/blob/master/doc/intro/gettingStarted_CloudBioLinux.pdf?raw=true"><span style="text-decoration: underline;">tutorial</span></a> on getting started with CloudBioLinux on the Amazon Web Services Elastic Compute Cloud (EC2)</p><p><a href="http://userwww.service.emory.edu/%7Eeafgan/content/ppt/EnisAfgan_BOSC_2010.pdf"><span style="text-decoration: underline;">Deploying Galaxy on the Cloud</span></a>  slides from a presentation by Enis Afgan (Emory University) at the <br /> &nbsp;Bioinformatics Open Source Conference in Boston, July 2010</p><p>A <a href="http://screencast.g2.bx.psu.edu/cloud/"><span style="text-decoration: underline;"> screencast</span></a> that provides a step-by-step guide to starting a Galaxy cluster in the EC2 environment</p><p>A <a href="https://bitbucket.org/galaxy/galaxy-central/wiki/cloud"><span style="text-decoration: underline;">webpage</span></a> that has the same information in text form, and is the basis for the screencast</p><p>The iPlant Collaborative, an NSF-funded project to create computational resources for plant biology research, provides access to cloud computing resources through <span style="text-decoration: underline;"><a href="http://www.iplantcollaborative.org/discover/atmosphere">Atmosphere</a></span></p><p>SeqWare Query Engine: storing and searching sequence data in the cloud. OConnor et al, BMC Bioinformatics <strong>11</strong>(Suppl 12)<strong>:</strong>S2, 2010 <a href="http://www.biomedcentral.com/1471-2105/11/S12/S2"><span style="text-decoration: underline;">Full Text</span></a></p><p>An overview of the Hadoop/MapReduce/HBase framework and its current applications in bioinformatics. Taylor, BMC Bioinformatics <strong>11</strong>(Suppl 12)<strong>:</strong>S1, 2010 <a href="http://www.biomedcentral.com/1471-2105/11/S12/S1"><span style="text-decoration: underline;">Full Text</span></a></p><h3>Links to Linux command-line tutorials and resources</h3><p>Tutorials for AWK, a powerful tool for handling data tables</p><ul>
<li>A set of <a href="http://people.bu.edu/scottm/AWK.NOTES"><span style="text-decoration: underline;">awk notes</span></a> from Boston University</li>
<li>Bruce Barnett's <a href="http://www.grymoire.com/Unix/Awk.html"><span style="text-decoration: underline;">awk tutorial</span></a></li>
<li>Greg Goebel's <a href="http://www.vectorsite.net/tsawk.html"><span style="text-decoration: underline;">awk tutorial</span></a></li>
<li><a href="http://teaching.software-carpentry.org/2013/01/16/1433/"><span style="text-decoration: underline;">Executing an awk command from R</span></a> to simplify data exploratory analysis, from Lex Nederbragt</li>
</ul><p>Tutorials for bash shell scripting</p><ul>
<li>A <a href="http://www.linuxconfig.org/bash-scripting-tutorial"><span style="text-decoration: underline;">tutorial</span></a> at linuxconfig.org</li>
<li>A <a href="http://www.hypexr.org/bash_tutorial.php"><span style="text-decoration: underline;">Getting Started With Bash</span></a> tutorial at hypexr.org</li>
<li>Mendel Cooper's <a href="http://tldp.org/LDP/abs/html/"><span style="text-decoration: underline;">Advanced Bash Shell-Scripting Guide</span></a></li>
</ul><p>Tutorials for sed, the command-line stream editor</p><ul>
<li>A <a href="http://www.panix.com/%7Eelflord/unix/sed.html"><span style="text-decoration: underline;">tutorial</span></a> at Rutgers</li>
<li>Peteris Krumins claims to have the <a href="http://www.catonmat.net/blog/worlds-best-introduction-to-sed/"><span style="text-decoration: underline;"> World's Best Introduction to Sed</span></a>; take a look and judge for yourself.</li>
<li>Bruce Barnett's <a href="http://www.grymoire.com/Unix/Sed.html"><span style="text-decoration: underline;">sed tutorial</span></a>.</li>
</ul><h3>Links to other useful sites</h3><p>The<a href="http://seqanswers.com/"><span style="text-decoration: underline;"> SEQanswers</span></a> online community has forums on several topics related to sequencing; the bioinformatics forum is the most active.</p><p>The SEQanswers <span style="text-decoration: underline;"><a href="http://seqanswers.com/wiki/Software">Software Wiki</a></span> is a list of software for analysis of sequencing data</p><p><a href="http://biostar.stackexchange.com/">Biostar</a> is another online community for questions and answers on bioinformatics and computational genomics.</p><p>Information on file formats used by the University of California - Santa Cruz Genome Browser is on the <a href="http://genome.ucsc.edu/FAQ/FAQformat"><span style="text-decoration: underline;"> FAQ list</span></a></p><p>A manual for the Integrated Genome Browser visualization tool is <a href="http://wiki.transvar.org/confluence/display/igbman/Home"><span style="text-decoration: underline;">here</span></a></p><p>Course materials for a short course entitled <a href="http://bioconductor.org/help/course-materials/2010/SeattleIntro/"><span style="text-decoration: underline;">Introduction to R and Bioconductor</span></a>, held in Seattle in Dec 2010</p><p><a href="http://great.stanford.edu/"><span style="text-decoration: underline;">Genomic Regions Enrichment of Annotations Tool</span></a> - A web service to test for over-representation of specific ontology categories among genes near ChIP-seq peaks</p><p><a href="http://www.animalgenome.org/bioinfo/resources/nextgensoft.html"><span style="text-decoration: underline;">Next-gen-seq software</span></a> - a list of software packages, both commercial and open-source, related to analysis of deep sequencing datasets</p><p><a href="http://www.cbcb.umd.edu/software/"><span style="text-decoration: underline;">Software</span></a> from the Center for Bioinformatics and Computational Biology, University of Maryland - many useful programs, all open-source</p><p><a href="http://bioinformatics.psb.ugent.be/plaza/"><span style="text-decoration: underline;"> PLAZA</span></a>: a comparative genomics resource to study gene and genome evolution in plants; described by Proost et al, Plant Cell 21:3718, 2010 <a href="http://www.plantcell.org/content/21/12/3718.full"><span style="text-decoration: underline;">Full Text</span></a></p><p>The European Bioinformatics Institute provides tools <a href="http://www.ebi.ac.uk/Tools/rcloud/"><span style="text-decoration: underline;">ArrayExpressHTS</span><span style="text-decoration: underline;"> and R-Cloud</span></a> for analysis of transcriptome data</p>]]></description>
	<dc:creator>Rahul Nayak</dc:creator>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/pages/view/40248/industrial-training-in-computer-aided-drug-designing-cadd</guid>
	<pubDate>Wed, 13 Nov 2019 05:00:44 -0600</pubDate>
	<link>https://bioinformaticsonline.com/pages/view/40248/industrial-training-in-computer-aided-drug-designing-cadd</link>
	<title><![CDATA[Industrial Training in Computer Aided Drug Designing (CADD)]]></title>
	<description><![CDATA[<p>Learn More about&nbsp; Computer Aided Drug Designing (CADD)!!!</p><p>#rasalsi #rasa In our Industrial program you will get Knowledge on RNA Seq, CHIP Seq,</p><h2 style="text-align: center;"><strong>Batch Starts From 18<sup>th</sup> November 2019</strong></h2><p>#hurryup #registernow #enquirenow The primary goal of the industrial training program is to provide students with necessary skills making with employable. RASA LSI trains students with the enhanced skills required for them to excel in jobs in biotechnology, pharmaceuticals, BioIT and related industry sectors. At Rasa you will&nbsp; learn from industry leaders&nbsp;how to apply these skills in life science &amp; have a command over software developing process &nbsp;by using various methodologies. For Registration visit us on: https://www.rasalsi.com/index.php/front-page/industrial-training/</p>]]></description>
	<dc:creator>RASA Life Sciences</dc:creator>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/2457/rdataminingcom-r-and-data-mining</guid>
	<pubDate>Thu, 15 Aug 2013 18:37:23 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/2457/rdataminingcom-r-and-data-mining</link>
	<title><![CDATA[Rdatamining.com : R and Data Mining]]></title>
	<description><![CDATA[<p>This website presents examples, documents and resources on data mining with R. <br>Documents on using R for data mining are available to download for non-commercial personal use, including&nbsp;R Reference card for Data Mining, R and Data Mining: Examples and Case Studies and Time Series Analysis and Mining with R.</p><p>Address of the bookmark: <a href="http://www.rdatamining.com/" rel="nofollow">http://www.rdatamining.com/</a></p>]]></description>
	<dc:creator>Poonam Mahapatra</dc:creator>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/2646/bioinformatics-infrastructure-facility-bif-gargi-college-university-of-delhi-traineeship</guid>
  <pubDate>Mon, 19 Aug 2013 18:43:03 -0500</pubDate>
  <link></link>
  <title><![CDATA[Bioinformatics Infrastructure Facility (BIF), Gargi College, University of Delhi @ Traineeship]]></title>
  <description><![CDATA[
<p>Gargi College was established in the year 1967 and is a leading South Campus college of the University of Delhi. It is a college for women and offers education in Arts and Humanities, Commerce, Science and Education.</p>

<p>Gargi believes in its mission statement that every student who passes through the portals of the college emerges as a wholly developed individual symbolizing the spirit of enterprise and inquiry that characterizes Gargi.</p>

<p>Bioinformatics Infrastructure Facility (BIF), Gargi College, University of Delhi invites candidates for filling up the following purely temporary positions sponsored by DBT, New Delhi.</p>

<p>1. Name of the post: Traineeship<br />Essential Qualification: Post Graduate degree in Bioinformatics or any other branch of Life Sciences preferably with dissertation in Bioinformatics.<br />Desirable Qualification: Prior knowledge of programming languages such as C, VB, SQL etc. and software/database development.</p>

<p>2. Name of the post: Research Associate<br />Essential Qualification: PhD in Bioinformatics/Biological Sciences/Computer Science or allied sciences with proven experience in bioinformatics.</p>

<p>3. Name of the post: Studentship<br />Essential Qualifications: Final year Post Graduate students pursuing a degree in Bioinformatics or any branch of Life Science with knowledge of bioinformatics.</p>

<p>How to apply:<br />Interested candidates are required to appear for the walk in interview on 29th Aug, 2013 at 10.00 AM in Principal’s Office, Gargi College, Sirifort Road, N. Delhi-110049, with their CVs, original documents and a set of Photostat copies of all original documents.</p>

<p>http://www.du.ac.in/fileadmin/DU/students/Pdf/du/advt/2013/16082013_Gargi_RAplus2_Advt.pdf</p>
]]></description>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/41924/senior-scientist-bioinformatics-it-at-regional-centre-for-biotechnology</guid>
  <pubDate>Tue, 30 Jun 2020 22:04:20 -0500</pubDate>
  <link></link>
  <title><![CDATA[Senior Scientist (Bioinformatics/ IT) at Regional Centre for Biotechnology]]></title>
  <description><![CDATA[
<p>Regional Centre for Biotechnology</p>

<p>An Institution of National Importance established by Dept. of<br />Biotechnology, Govt. of India Under the auspices of UNESCO</p>

<p>Advertisement No. RCB/IBDC/01/2020/Recruitment/HR</p>

<p>Recruitment For Contractual Positions Under The Project<br />Indian Biological Data Centre (IBDC) Phase-1</p>

<p>Regional Centre for Biotechnology (RCB) invites online applications from suitably qualified, dynamic, result-oriented and dedicated candidates for the following positions under the project Indian Biological Data Centre (BIDC) Phase-1 on contract basis:</p>

<p>Industry: Biotechnology</p>

<p>Location: Faridabad (Haryana, India)</p>

<p>Project Head - 1</p>

<p>Senior Scientist (Bioinformatics/ IT) - 1</p>

<p>For other details, visit: www.rcb.res.in. Last date for receipt of online application is 18th July 2020.</p>

<p>Registrar</p>

<p>Regional Centre for Biotechnology<br />Faridabad-Gurgaon Expressway,<br />Faridabad - 121001</p>
]]></description>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/videolist/watch/4193/bioinformatics-101-running-blast</guid>
	<pubDate>Tue, 03 Sep 2013 14:59:50 -0500</pubDate>
	<link>https://bioinformaticsonline.com/videolist/watch/4193/bioinformatics-101-running-blast</link>
	<title><![CDATA[Bioinformatics 101 -  Running BLAST]]></title>
	<description><![CDATA[<iframe width="" height="" src="https://www.youtube-nocookie.com/embed/CYnjROfGXv8" frameborder="0" allowfullscreen></iframe>How to format the database for BLAST, run the command, view the output file, and use BioPerl and Perl to parse the output. By David Francis, Ohio State University. Delivered live at the Tomato Disease Workshop 2010. For more information, please visit http://www.extension.org/pages/32521/bioinformatics-101-video.]]></description>
	
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/42165/bioinformatics-scientistresearch-software-engineer-at-university-of-dundee-dundee-united-kingdom</guid>
  <pubDate>Wed, 26 Aug 2020 10:31:25 -0500</pubDate>
  <link></link>
  <title><![CDATA[Bioinformatics Scientist/Research Software Engineer at University of Dundee Dundee, United Kingdom]]></title>
  <description><![CDATA[
<p>We are recruiting for an exceptional individual to join us as a computational scientist, bioinformatician, or (research) software engineer with an interest in interactive data analysis platforms for biology and medicine within our Jalview (www.jalview.org) research software engineering team.</p>

<p>More at https://www.jobs.dundee.ac.uk/fe/tpl_uod01.asp?s=4A515F4E5A565B1A&amp;jobid=104342,2382988671&amp;key=147934117&amp;c=99413415238921&amp;pagestamp=sesxbbuyifokdsfygf</p>

<p>Last date: 30th August 2020</p>

<p>Informal enquiries about this position may be made to Prof. Geoff Barton (gjbarton@dundee.ac.uk) or Dr Jim Procter (jprocter@dundee.ac.uk). To find out more about Jalview research software engineering team please visit www.jalview.org and www.compbio.dundee.ac.uk</p>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/4178/phd-position-in-biochemistry-towards-bioinformatics-at-the-department-of-biochemistry-and-biophysics</guid>
  <pubDate>Tue, 03 Sep 2013 06:09:03 -0500</pubDate>
  <link></link>
  <title><![CDATA[PhD position in biochemistry towards bioinformatics at the Department of Biochemistry and Biophysics.]]></title>
  <description><![CDATA[
<p>PhD position in biochemistry towards bioinformatics at the Department of Biochemistry and Biophysics. Reference number: SU FV-2293-13. Deadline for application: September 10, 2013.</p>

<p>Project title: Functional Inference from Domain Architecture and Orthology</p>

<p>Requirements</p>

<p>To be accepted as a PhD student, credits corresponding to four years of full-time studies at the undergraduate level are required, including credits corresponding to at least two years of fulltime studies in chemistry, life sciences or physics, depending on the program. The credits should include courses at the advanced level (second cycle) corresponding to one year and of these one semester should be a degree thesis. In order to facilitate the evaluation of merits and suitability for the PhD studies the curriculum vitae (CV) should contain information about the extent and focus of the academic studies. The quantity (as part of an academic year) and the quality mark of courses in chemistry and physics are of particular interest. The title, number of credits and the length in full-time months of undergraduate thesis and project work, should be specified.</p>

<p>Information</p>

<p>More information about the project can be provided by the project leader. General information about the PhD training program may be requested from the director of graduate studies, Stefan Nordlund, stefan@dbb.su.se or from Lena Mäler, Head of Department (prefekt), lenam@dbb.su.se</p>

<p>Further information on the web:</p>

<p>The Department of Biochemistry and Biophysics: www.dbb.su.se</p>

<p>Stockholm University: www.su.se/english</p>

<p>Faculty of Science: www.science.su.se/english</p>

<p>The handbook for postgraduate students: www.doktorandhandboken.nu/english</p>

<p>Application The application should contain a personal letter (a letter of intent explaining why you are interested in the specific project, why you are interested in studying for a PhD, what you hope to accomplish during your PhD studies, and what skills you can bring to this project), a curriculum vitae, a list of two persons who may act as referees (with telephone numbers and e-mail addresses), copies of degree certificates and transcripts of academic records, and a copy of your undergraduate thesis and articles, if any.</p>

<p>In order to apply for this position, please use the Stockholm University web-based application form (where it is possible to select language):</p>

<p>To the application form for this position.</p>

<p>Welcome with your application no later than September 10, 2013.</p>

<p>Project leader: Erik Sonnhammer, Erik.Sonnhammer@sbc.su.se,<br />www.sonnhammer.sbc.su.se</p>

<p>Advertisement: http://www.su.se/english/about/vacancies/phd-studies/phd-position-in-biochemistry-towards-bioinformatics-1.143446</p>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/42227/two-faculty-positions-at-national-taiwan-university-taipei-taiwan</guid>
  <pubDate>Thu, 22 Oct 2020 04:53:12 -0500</pubDate>
  <link></link>
  <title><![CDATA[Two Faculty Positions at National Taiwan University, Taipei, Taiwan]]></title>
  <description><![CDATA[
<p>The Department of Agronomy at National Taiwan University, Taipei, Taiwan,<br />invites applications for two full-time faculty positions beginning August<br />1, 2021 at the rank of Assistant Professor, Associate Professor or<br />Professor in Biometry and Bioinformatics and Plant Breeding and Genetics,<br />respectively.</p>

<p>A qualified candidate should hold a Ph.D. in a relevant field including<br />Agronomy, Statistics, Bioinformatics, Plant Breeding, Plant Genetics or<br />Quantitative Genetics. For the position in Biometry and Bioinformatics, the<br />applicants capable of teaching fundamental statistics/bioinformatics<br />courses or with experience in crop science are preferable; for Plant<br />Breeding and Genetics, the applicants capable of teaching fundamental plant<br />breeding courses, with experience in crop breeding, or training in<br />quantitative genetics are preferred.</p>

<p>The application package should include two letters of reference and five<br />printed copies of the following documents (1) curriculum vitae, (2)<br />publication list, (3) undergraduate and graduate transcripts if applying<br />for the Assistant Professorship, (4) a photocopy of the Ph.D. diploma, (5)<br />teaching plan and course outline or syllabus (6) research proposal, (7) a<br />cover letter indicating the rank to apply, and one representative original<br />research article which was published by the applicant being the 1st or<br />corresponding author in an SCI peer-reviewed journal within 5 years (after<br />August 1, 2016); a copy of doctoral dissertation can be the representative<br />article if applying for the Assistant Professorship; (8) reprints of the<br />selected publications published within 7 years (after August 1, 2014).</p>

<p>The application package should mail to the Chair, Dr. Li-yu Daisy Liu<br />(lyliu@ntu.edu.tw), in the Department of Agronomy, National Taiwan<br />University, No. 1, Section 4, Roosevelt Road, Taipei 10617, Taiwan, before<br />December 15, 2020 for full consideration.</p>
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