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	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/27328?offset=530</link>
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<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/38815/research-opening-ibab-bengaluru</guid>
  <pubDate>Mon, 28 Jan 2019 17:45:54 -0600</pubDate>
  <link></link>
  <title><![CDATA[Research opening @ IBAB, Bengaluru]]></title>
  <description><![CDATA[
<p>Applications are invited for the position of Project Assistant in Bio-IT centre at IBAB, Electronic city, Bengaluru. The successful candidate will work in the next-generation sequencing (NGS) facility to perform nucleic acid isolations, quality and quantity analyses, NGS library preparations, and maintenance of sequencing related instruments and other related lab equipment. In addition, the candidate is expected to assist in various administrative matters including procurement, maintaining inventory of laboratory consumables etc. The person will have opportunity to get expertise in entire pipeline of NGS. After sufficient training, the person will act as a demonstrator in the workshops conducted by Bio-IT centre.<br />Essential Qualifications, Experiences, and Skills:</p>

<p>1. MSc. or B. Tech. or equivalent degree in Biotechnology or related life sciences discipline.<br />2. Strong aptitude for laboratory work and should be detail-oriented person.<br />3. Hands-on experience in basic molecular biology techniques.<br />4. Prior experience in working in a research laboratory or industry.<br />5. Basic IT skills that include familiarity with Microsoft Office packages.<br />6. Ability to carry out basic maintenance of general lab equipments and laboratory resources.<br />7. Ability to maintain accurate records of laboratory work.<br />8. Willingness to learn, and should be a team player.<br />Desirable Experience and Skills:<br />1. Familiarity with NGS technology.<br />2. Experience in preparation of NGS libraries.<br />3. Familiarity with Sanger sequencing technology (capillary electrophoresis based)</p>

<p>Remuneration: Remuneration will commensurate with expertise and experience.</p>

<p>How to Apply: Interested applicants fulfilling the criteria may send their detailed CV and a cover letter that explains their suitability for this position, in a single PDF, to Dr. Sreekanth Reddy at careers_bioit@ibab.ac.in. Last date for submission of application is 23rd February 2019. Please mention the position applying for in the subject line of the email.</p>

<p>About IBAB: The Bio-IT Centre at IBAB has state-of-art sequencing facility with the HiSeq 2500 and accessories such as Qubit, Covaris, Agilent 2200 TapeStation, Stratagene Mx 3000 for next generation sequencing, 3500 Dx Genetic Analyzer for capillary electrophoresis based sequencing, and HiScan for microarray imaging. The facility is fully operational and providing services to the scientific community. The Institute of Bioinformatics and Applied Biotechnology (IBAB) is a unique institute engaged in education, research and entrepreneur support programs and is based at Electronic City, Bangalore. IBAB’s mission is to catalyze the growth of the biotechnology and bioinformatics industries in India. To know more please visit: http://www.ibab.ac.in/index.php/bioit/</p>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/8857/junior-research-fellow-at-iari</guid>
  <pubDate>Mon, 10 Mar 2014 13:10:56 -0500</pubDate>
  <link></link>
  <title><![CDATA[Junior Research Fellow at IARI]]></title>
  <description><![CDATA[
<p>DIVISION OF NEMATOLOGY<br />INDIAN AGRICULTURAL RESEARCH INSTITUTE<br />NEW DELHI 110012</p>

<p>Applications are invited for the posts of one Junior Research Fellow in the DBT funded project entitled “Plant parasitic nematode genome informatics - insilico resource development”. The project is for a period of three years.</p>

<p>Essential qualifications for JRF: First class M. Sc. / M. Tech in Bioinformatics. Knowledge of programming language, pearl, Statistics and database – HTML, CSS, Java script.</p>

<p>Desirable qualifications: Experience in handling next generation sequencing data</p>

<p>Age limit: 35 years maximum (5 year relaxation for SC/ST and women candidates) Emoluments: 16,000 + 30% HRA.</p>

<p>The post is purely temporary in nature and is co-terminus with the project. The appointment would be initially for one year and may be extended further upon satisfactory performance.</p>

<p>Those who are interested in pursuing Ph.D with strong research aptitude are preferred.</p>

<p>Interested candidates may attend the Walk in interview on 25th March 2014 along with the duly filled application forms (format in the following page) with all the relevant documents.</p>

<p>Venue: Division of Nematology, Indian Agricultural Research Institute, New Delhi 110012 (Room No. 306, 3rd floor, LBS building)</p>

<p>Reporting Time: Interested candidates should report strictly between 10.00 to 10.30 AM.</p>

<p>Interview time: 10.30 AM</p>

<p>Short-listed candidates will be called for interview at New Delhi. However, no TA and DA will be paid for attending the interview.</p>

<p>Advertisement:</p>

<p>https://www.iari.res.in/files/JRF_Nema-07032014-20140307-170017.pdf</p>
]]></description>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/42418/scientist-b-bioinformatics-at-aiims-delhi</guid>
  <pubDate>Sun, 20 Dec 2020 04:34:55 -0600</pubDate>
  <link></link>
  <title><![CDATA[Scientist-B (Bioinformatics) at AIIMS, Delhi]]></title>
  <description><![CDATA[
<p>Name of the Project: “Artificial intelligence in Oncology, Harnessing big data and advanced computing to provide personalized diagnosis and treatment for Cancer patients”</p>

<p>Age Limit: 35</p>

<p>How to Apply for the AIIMS Life Science Job:</p>

<p>Interested applicants are asked to send out a detailed CV to Dr Ashok Sharma (aioncoaiims@gmail.com). Laboratory of Chromatin and also Cancer Epigenetics, Department of Biochemistry with the subject line “Application for Scientist-B position for MeitY project” latest by January 01st, 2021.<br />Complete Information of the year of passing, experience, marks, etc. ought to be mentioned in the CV Incomplete. applications will certainly be rejected Just shortlisted applicants will be called for interview. Chosen candidates will certainly be intimated by email/phone.<br />No TA/DA will certainly be paid for appearing in the interview.<br />Note, The institute reserved the right to fill up or not to fill up the post advertised.</p>

<p>Emoluments: Rs. 56,000/- plus 24 percent HRA</p>

<p>Eligibility:<br />2nd class Master’s Degree with a PhD in a pertinent subject (Bioinformatics) from.a recognized University<br />1st class Master’s degree in Life Sciences (Bioinformatics) from a recognized university OR.<br />Bachelor’s Degree in Engineering or-Technology with minimal 60% marks from a recognized University or equivalent.</p>

<p>Desirable Qualifications:<br />Experience in Bioinformatics/NGS data. Analysis/System Biology/Computer Science/ statistics with experience in Machine learning/Al project.<br />Experience of Deep learning applications in biological data ( image/text).<br />Proficient in Rf Python machine learning libraries.<br />Prior experience in the cancer-related project (ML-based) will be advantageous.<br />Experience with PyTorch/TensorFlow will certainly be very desirable.<br />Applicant should have strong scientific writing as well as. verbal abilities.<br />Papers in sci-indexed journals demonstrating ML skill sets.<br />Database handling will certainly be plus yet not required.</p>

<p>More detail at https://www.aiims.edu/images/pdf/recruitment/advertisement/biochem-16-12-20.pdf</p>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/8972/bioinformaticcomputational-postdoc-at-south-dakota-state-university</guid>
  <pubDate>Wed, 12 Mar 2014 10:02:30 -0500</pubDate>
  <link></link>
  <title><![CDATA[Bioinformatic/computational postdoc at South Dakota State University]]></title>
  <description><![CDATA[
<p>We seek an enthusiastic postdoctoral researcher to work with the Plant Science team within the Biochemical Spatio-temporal NeTwork Resource (BioSNTR). Bio-SNTR</p>

<p>is a state-funded virtual research center aimed at promoting imaging and informatics research infrastructure in South Dakota. BioSNTR research foci include analysis of large-scale genomics and imaging data, application of novel microscopy technologies to study signaling pathways, and identification of new compounds to manipulate signaling pathways.<br />Responsibilities: This person will be part of Plant Science team with research focus in bioinformatic and molecular network analyses of high throughput data (transcriptomic, proteomic, metabolomics, miRNA). The individual will be integrated into functional genomic projects encompassing grapevine dormancy and freezing tolerance (Fennell) and regulation of soybean nodulation (Subramanian). The successful candidate will perform computational analysis of high throughput, next-generation sequence data and possess the ability to use bioinformatics analytical tools on HPC clusters.</p>

<p> <br />Required Qualifications:<br />• Ph.D. in plant computational biology or bioinformatics.<br />• Experience in a high performance computing environment.<br />• Perl, Python and Java programming experience<br />• Data management and database development experience</p>

<p>Desired Qualifications:<br />• Parallel computing experience<br />• Experience working in a multidisciplinary environment</p>

<p>Contact Information<br />South Dakota State University<br />Plant Science<br />Anne Fennell<br />anne.fennell@sdstate.edu<br />Tel. Number: 605-688-6373<br />http://www.biosntr.org</p>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/41043/postdoctoral-scientist-genome-analytics-genome-bioinformatics-mf</guid>
  <pubDate>Sun, 16 Feb 2020 02:57:40 -0600</pubDate>
  <link></link>
  <title><![CDATA[Postdoctoral scientist genome analytics/ genome bioinformatics (m/f/*)]]></title>
  <description><![CDATA[
<p>https://www.uksh.de/jobs/Stellenangebote-nr-20190570-p-8.html<br />Your profile:<br />Degree in bioinformatics, biostatistics, or equivalent<br />Experience in the processing and analysis of large-scale genomics data using compute clusters / high-performance computing<br />Strong competence in working in Unix/Linux environments (shell)<br />Strong programming skills (in particular: Python, R, Perl)<br />Experience with using git and snakemake<br />Fluent English language skills, both spoken and written<br />Strong communication skills and motivation to work in a young, interdisciplinary, dynamic team</p>

<p>Additional Information:</p>

<p>If you have any questions about scientific aspects of this position, please contact Prof. Lars Bertram, head of LIGA (lars.bertram@uni-luebeck.de).</p>

<p>Please contact Ms. Anna Wolbert for further questions about administrative details (recruiting@uksh.de).</p>

<p>Weitere Informationen erhalten Sie auch unter www.uksh.de/karriere.</p>

<p>Wir freuen uns auf Ihre Bewerbung bis zum 15.03.2020 unter Angabe unserer Ausschreibungsnummer 20190570.119.CL.</p>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/pages/view/9029/syntax-for-secure-copy-scp</guid>
	<pubDate>Thu, 13 Mar 2014 17:01:32 -0500</pubDate>
	<link>https://bioinformaticsonline.com/pages/view/9029/syntax-for-secure-copy-scp</link>
	<title><![CDATA[Syntax for Secure Copy (scp)]]></title>
	<description><![CDATA[<div><p>In our day to day research activity, we need to securely copy our data from several to local computer and visa-versa. I am jotting down some of the commonly used SCP command for your future help. Hope you all will like it</p><p>What is Secure Copy?<br /><br />scp allows files to be copied to, from, or between different hosts. It uses ssh for data transfer and provides the same authentication and same level of security as ssh.</p><p><br />Examples</p><p><br /><strong>Copy the file "gene.txt" from a remote host to the local host</strong><br /><br />&nbsp;&nbsp;&nbsp; $ scp your_username@remotehost.edu:gene.txt /some/local/directory<br /><br /><strong>Copy the file "foobar.txt" from the local host to a remote host</strong><br /><br />&nbsp;&nbsp;&nbsp; $ scp gene.txt your_username@remotehost.edu:/some/remote/directory<br /><br /><strong>Copy the directory "chromosome" from the local host to a remote host's directory "bar"</strong><br /><br />&nbsp;&nbsp;&nbsp; $ scp -r chromosome your_username@remotehost.edu:/some/remote/directory/bar<br /><br /><strong>Copy the file "gene.txt" from remote host "rh1.edu" to remote host "rh2.edu"</strong><br /><br />&nbsp;&nbsp;&nbsp; $ scp your_username@rh1.edu:/some/remote/directory/gene.txt \<br />&nbsp;&nbsp;&nbsp; your_username@rh2.edu:/some/remote/directory/<br /><br /><strong>Copying the files "gene.txt" and "cancer.txt" from the local host to your home directory on the remote host</strong><br /><br />&nbsp;&nbsp;&nbsp; $ scp gene.txt cancer.txt your_username@remotehost.edu:~<br /><br /><strong>Copy the file "gene.txt" from the local host to a remote host using port 2264</strong><br /><br />&nbsp;&nbsp;&nbsp; $ scp -P 2264 gene.txt your_username@remotehost.edu:/some/remote/directory<br /><br /><strong>Copy multiple files from the remote host to your current directory on the local host</strong><br /><br />&nbsp;&nbsp;&nbsp; $ scp your_username@remotehost.edu:/some/remote/directory/\{a,b,c\} .<br /><br />&nbsp;&nbsp;&nbsp; $ scp your_username@remotehost.edu:~/\{gene.txt,cancer.txt\} .<br /><br /><strong>scp Performance</strong><br /><br />By default scp uses the Triple-DES cipher to encrypt the data being sent. Using the Blowfish cipher has been shown to increase speed. This can be done by using option -c blowfish in the command line.<br /><br />&nbsp;&nbsp;&nbsp; $ scp -c blowfish some_file your_username@remotehost.edu:~<br /><br />It is often suggested that the -C option for compression should also be used to increase speed. The effect of compression, however, will only significantly increase speed if your connection is very slow. Otherwise it may just be adding extra burden to the CPU. An example of using blowfish and compression:<br /><br />&nbsp;&nbsp;&nbsp; $ scp -c blowfish -C local_file your_username@remotehost.edu:~</p></div>]]></description>
	<dc:creator>Rahul Nayak</dc:creator>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/43892/choosing-the-right-ngs-sequencing-instrument-for-your-study</guid>
	<pubDate>Wed, 15 Jun 2022 00:37:29 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/43892/choosing-the-right-ngs-sequencing-instrument-for-your-study</link>
	<title><![CDATA[Choosing the Right NGS Sequencing Instrument for Your Study]]></title>
	<description><![CDATA[<p>The right sequencing instrument for your study depends on your project goal. Setting aside turnaround time and price, it essentially comes down to the numbers of reads and read length you need for your experiment. Below, we've described and compared metrics for each of the instruments available. If you&rsquo;re new to high-throughput sequencing and have questions about how you should design your sequencing run, fill out our&nbsp;<a href="https://genohub.com/ngs-consultation/"><span>free consultation form</span></a>&nbsp;and we'll get in touch with you to help.</p>
<p>More at&nbsp;https://genohub.com/ngs-instrument-guide/</p><p>Address of the bookmark: <a href="https://genohub.com/ngs-instrument-guide/" rel="nofollow">https://genohub.com/ngs-instrument-guide/</a></p>]]></description>
	<dc:creator>Neel</dc:creator>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/10391/research-associate-ra-at-iob</guid>
  <pubDate>Mon, 05 May 2014 08:38:54 -0500</pubDate>
  <link></link>
  <title><![CDATA[Research Associate (RA) at IOB]]></title>
  <description><![CDATA[
<p>Applications are invited for a post of Research Associate (RA) or Senior Research Fellow (SRF) in the ICMR project on "Integrated Analysis of Multi-omics Data in Human Gliomas".</p>

<p>We are looking for a motivated candidate for handling proteomic and/or transcriptomic and other data with a strong background in bioinformatics tools and database development. The project will include identification of novel peptides from mass spectrometry-based proteomic data.</p>

<p>Familiarity with statistical tools or wet lab experience will be an added advantage. The position is open for immediate appointment and available for two years. The applicant will be appointed as Research Associate or Senior Research Fellow based on qualifications as detailed below:</p>

<p>Research Associate: Ph.D. in Biological Science or Bioinformatics with relevant publications in peer reviewed journals. Familiarity with bioinformatics tools, database development, programming skills and proteomic and/or other omics data analysis. Salary will be as per ICMR rules and guidelines.</p>

<p>Senior Research Fellow: M.Sc./B.Tech. in any branch of biology/ biotechnology/bioinformatics, with minimum 2 years of research experience (essential). Familiarity with bioinformatics tools, database development, programming skills and proteomic data analysis. Salary will be as per ICMR rules and guidelines.</p>

<p>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: ravi@ibioinformatics.org on or before May 15th, 2014.</p>

<p>Contact:<br />Dr. Ravi Sirdeshmukh<br />Distinguished Scientist &amp; Associate Director, IOB,<br />Principal Advisor MSMC/MSCTR</p>

<p>Advertisement: www.ibioinformatics.org/careers.php</p>
]]></description>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/blog/view/44229/common-steps-for-reads-mapping</guid>
	<pubDate>Thu, 09 Mar 2023 02:48:02 -0600</pubDate>
	<link>https://bioinformaticsonline.com/blog/view/44229/common-steps-for-reads-mapping</link>
	<title><![CDATA[Common steps for reads mapping !]]></title>
	<description><![CDATA[<div><div><div><div><div><div><div><div><div><div><p>Mapping reads to a reference genome is an essential step in many types of genomic analysis, such as variant calling and gene expression analysis. Here are some general steps to follow for mapping reads to a genome:</p><ol>
<li>
<p>Choose a read mapper: There are many read mappers available, such as BWA, Bowtie, and HISAT2. Choose a mapper that is appropriate for your type of data and research question.</p>
</li>
<li>
<p>Index the reference genome: Before mapping reads, the reference genome needs to be indexed. This involves creating an index of the genome sequence that allows the mapper to quickly find matches to the reads. Most mappers have their own indexing tools.</p>
</li>
<li>
<p>Prepare the read data: The reads should be in a format that is compatible with the mapper. Most mappers accept FASTQ or BAM files. Depending on the quality of the data, it may need to be filtered or trimmed before mapping.</p>
</li>
<li>
<p>Run the mapper: The mapper is run with the command-line interface or using a graphical user interface. The specific command depends on the mapper being used, but typically involves specifying the input data, reference genome, and output file format.</p>
</li>
<li>
<p>Evaluate the mapping results: After the mapping is complete, the results should be evaluated. This includes assessing the quality of the mapping, such as the mapping rate, the number of mapped reads, and the mapping quality score.</p>
</li>
<li>
<p>Post-processing: Depending on the analysis being performed, post-processing of the mapped reads may be necessary. This can include filtering reads based on quality, removing duplicate reads, and calling variants.</p>
</li>
</ol><p>Overall, mapping reads to a reference genome is a complex process that requires careful consideration of the type of data, the research question, and the specific mapper being used.</p></div></div></div></div></div></div></div></div></div></div>]]></description>
	<dc:creator>BioStar</dc:creator>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/9429/srf-vacancy-at-nipgr</guid>
  <pubDate>Tue, 25 Mar 2014 19:20:44 -0500</pubDate>
  <link></link>
  <title><![CDATA[SRF Vacancy at NIPGR]]></title>
  <description><![CDATA[
<p>Applications are invited from suitable candidates for filling up the purely temporary position of one Senior Research Fellow in DST’s Indo-Australian Joint project (with ICRISAT) entitled “Genomic Approach for Stress Tolerant Chickpea” under the guidance of Dr. Mukesh Jain, Scientist, NIPGR.</p>

<p>(A) Senior Research Fellow (One Post):    Emoluments as per DST/DBT norms.</p>

<p>Candidates having M.Sc. degree (with minimum of 55% marks) or equivalent in Life Sciences/Biotechnology/Bioinformatics/ Molecular Biology or any other related field with minimum of two years of post M.Sc. research experience are eligible to apply. The candidate having computer skill (Linux, Perl, Java, MySQL) and/or experience in advanced molecular biology, next generation sequencing data analysis and molecular markers analysis will be preferred.</p>

<p>The position is completely on temporary basis and co-terminus with the project. The initial appointment will be for one year, which can be curtailed/extended on the basis of assessment of the candidate’s performance and discretion of the Competent Authority. NIPGR reserves the right to select the candidate against the above posts depending upon the qualifications and experience of the candidates. Reservation of posts shall be as per Govt. of India norms.</p>

<p>Eligible candidates may apply by sending hard copy of completed application in the given format with a cover letter showing interest and attested copies of the certificates and proof of research experience. The applications should reach at the address given below within 15 days from the date of the advertisement. The subject line on envelope must be superscribed by “Application for the Post of SRF in DST - AISRF project”.</p>

<p>Note: ONLY hard copy of the application in the given format will be accepted.</p>

<p>Last date April 03, 2014</p>

<p>Dr. Mukesh Jain<br />Staff Scientist<br />National Institute of Plant Genome Research<br />Aruna Asaf Ali Marg, P.O. Box NO. 10531,<br />New Delhi - 110067</p>

<p>Advertisement: http://www.nipgr.res.in/careers/vacancies_latest.php#</p>
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