<![CDATA[BOL: Related items]]> https://bioinformaticsonline.com/related/30111?offset=1490 https://bioinformaticsonline.com/bookmarks/view/44569/seqcat-sequence-conversion-and-analysis-toolbox Fri, 14 Jun 2024 14:36:53 -0500 https://bioinformaticsonline.com/bookmarks/view/44569/seqcat-sequence-conversion-and-analysis-toolbox <![CDATA[SeqCAT: Sequence Conversion and Analysis Toolbox]]> Your all-in-one solution for smooth conversion of sequence coordinates.
Designed for bioinformatics data analysis and daily laboratory work, SeqCAT simplifies sequence coordinate conversion. Extract gene and transcript information, manipulate sequences, and easily validate complex genetic events such as fusions with SeqCAT.
 
More at https://academic.oup.com/nar/advance-article/doi/10.1093/nar/gkae422/7683049?login=false

Address of the bookmark: https://mtb.bioinf.med.uni-goettingen.de/SeqCAT/home

]]> Neel https://bioinformaticsonline.com/opportunity/view/26568/research-scientist-at-iit-madras Mon, 07 Mar 2016 04:06:13 -0600 <![CDATA[Research Scientist at IIT Madras]]> Research Scientist/Project Associate/Project Assistant Jobs opportunity in Indian Institute of Technology Madras (IIT Madras)

Research Scientist

Qualification : Ph.D in any branch of life science or bioinformatics or computational biology Experience : Previous experience in Molecular Biology, Cell Biology, Biochemistry and Genome/big data analysis is desirable but not mandatory

No. of Vacancy : 02

Project Associate

Qualification : MSc in any branch of life science Experience Previous experience in Molecular Biology, Cell Biology and Biochemistry is desirable but not mandatory

No. of Vacancy : 02

Project Assistant

Qualification : BSc in any branch of life science or chemical science Experience Previous experience any branch in Life science, Molecular Biology, Cell Biology and Biochemistry is desirable but not mandatory

No. of Vacancy : 03
How to apply

Interested candidates can forward their profiles to email id: nctb@iitm.ac.in latest by 18th March, 2016

More at https://www.iitm.ac.in/content/national-cancer-tissue-bio-bank-department-biotechnology-iitm-chennai-vacancy-various-post
https://www.iitm.ac.in/sites/default/files/notices/vacancy.pdf

]]> https://bioinformaticsonline.com/bookmarks/view/33942/mulan-multiple-sequence-local-alignment-and-conservation-visualization-tool Thu, 20 Jul 2017 08:02:32 -0500 https://bioinformaticsonline.com/bookmarks/view/33942/mulan-multiple-sequence-local-alignment-and-conservation-visualization-tool <![CDATA[Mulan: MUltiple sequence Local AligNment and conservation visualization tool]]> Mulan performs multiple (2 or more) sequence alignments with an efficient and rapid "full local" alignment strategy that ensures a recapitulation of evolutionary sequence rearrangements (such as inversions and reshuffling) in any of the species. It combines refine and tba tools to align either "draft" or "finished" quality sequences. Mulan provides a dynamic graphical interface to align and visualize conservation profiles for evolutionarily distant and closely related species.

Input formats, automated data upload from the UCSC Genome Browser, gene annotation, annotation of repetitive elements, and progress report were previously described in the zPicture instructions and we refer the users to these materials for more details. This introduction is mainly focused on some novel features unique to the Mulan.

Address of the bookmark: https://mulan.dcode.org/mulanInstructions.php

]]> Rahul Nayak https://bioinformaticsonline.com/opportunity/view/26250/research-fellow-bioinformatics-at-central-university-of-rajasthan Tue, 02 Feb 2016 00:04:50 -0600 <![CDATA[Research Fellow Bioinformatics at Central University of Rajasthan]]> Research Fellow Bioinformatics

Eligibility : MSc(Bio-Chemistry, Bio-Informatics, Bio-Tech)
Location : Ajmer
Last Date : 13 Feb 2016
Hiring Process : Face to Face Interview
Central University of Rajasthan

Research Fellow Job vacancies in Central University of Rajasthan

Project Title : “Development of natural product derived febrifugine ananlogues as a novel therapeutics against visceral leishmaniasis”

No. of Post : 01

Qualification : Master of Biochemistry, Biotechnology, Bioinformatics and related biological sciences with minimum 55%, Age limit as per government rule.

Desirable Experience : Candidates with experience in cell culture, Chemoinformatics, and Parasitology will be preferred.

Fellowship : Rs. 25,000/- p.m. consolidated for NET qualified (14,000/- p.m. consolidated for Non-NET)
How to apply

The candidates may apply on a plain paper, along with their curriculum vitae (including name, date of birth, academic qualification starting from 10th class, summary of research experience, email id, phone number and passport size photograph) and email to vkprajapati@curaj.ac.in or post the hard copy to the Dr. Vijay Kumar Prajapati PI, DST-SERB Project (YSS/2015/000716), Department of Biochemistry, School of Life Sciences, Central University of Rajasthan, Bandarsindri, Dist- Ajmer, Rajasthan, 305 817 on or before 13th February 2016.

More at http://www.curaj.ac.in/Default.aspx?PageId=241

]]> https://bioinformaticsonline.com/bookmarks/view/35550/circoletto-visualizing-sequence-similarity-with-circos Fri, 09 Feb 2018 10:23:40 -0600 https://bioinformaticsonline.com/bookmarks/view/35550/circoletto-visualizing-sequence-similarity-with-circos <![CDATA[Circoletto: visualizing sequence similarity with Circos]]> Circoletto, an online visualization tool based on Circos, which provides a fast, aesthetically pleasing and informative overview of sequence similarity search results.

Online version and downloadable software package for offline use (source code in PERL) freely available at http://bat.ina.certh.gr/tools/circoletto/

Contact:ndarz@certh.gr

Address of the bookmark: http://tools.bat.infspire.org/circoletto/

]]> Jit https://bioinformaticsonline.com/bookmarks/view/37672/seqmonka-tool-to-visualise-and-analyse-high-throughput-mapped-sequence-data Tue, 11 Sep 2018 04:39:38 -0500 https://bioinformaticsonline.com/bookmarks/view/37672/seqmonka-tool-to-visualise-and-analyse-high-throughput-mapped-sequence-data <![CDATA[SeqMonk:A tool to visualise and analyse high throughput mapped sequence data]]> SeqMonk is a program to enable the visualisation and analysis of mapped sequence data. It was written for use with mapped next generation sequence data but can in theory be used for any dataset which can be expressed as a series of genomic positions. It's main features are:

  • Import of mapped data from mapped data (BAM/SAM/bowtie etc)
  • Creation of data groups for visualisation and analysis
  • Visualisation of mapped regions against an annotated genome.
  • Flexible quantitation of the mapped data to allow comparisons between data sets
  • Statistical analysis of data to find regions of interest
  • Creation of reports containing data and genome annotation

Address of the bookmark: http://www.bioinformatics.babraham.ac.uk/projects/seqmonk/

]]> Jit https://bioinformaticsonline.com/opportunity/view/26335/ra-at-central-university-of-rajasthan Tue, 09 Feb 2016 03:53:35 -0600 <![CDATA[RA at Central University of Rajasthan]]> Research Fellow Bioinformatics

Eligibility : MSc(Bio-Chemistry, Bio-Informatics, Bio-Tech)

Location : Ajmer

Last Date : 13 Feb 2016

Hiring Process : Face to Face Interview
Central University of Rajasthan

Research Fellow Job vacancies in Central University of Rajasthan

Project Title : “Development of natural product derived febrifugine ananlogues as a novel therapeutics against visceral leishmaniasis”

No. of Post : 01

Qualification : Master of Biochemistry, Biotechnology, Bioinformatics and related biological sciences with minimum 55%, Age limit as per government rule.

Desirable Experience : Candidates with experience in cell culture, Chemoinformatics, and Parasitology will be preferred.

Fellowship : Rs. 25,000/- p.m. consolidated for NET qualified (14,000/- p.m. consolidated for Non-NET)
How to apply

The candidates may apply on a plain paper, along with their curriculum vitae (including name, date of birth, academic qualification starting from 10th class, summary of research experience, email id, phone number and passport size photograph) and email to vkprajapati@curaj.ac.in or post the hard copy to the Dr. Vijay Kumar Prajapati PI, DST-SERB Project (YSS/2015/000716), Department of Biochemistry, School of Life Sciences, Central University of Rajasthan, Bandarsindri, Dist- Ajmer, Rajasthan, 305 817 on or before 13th February 2016.

More at http://www.curaj.ac.in/Default.aspx?PageId=241

]]> https://bioinformaticsonline.com/bookmarks/view/39372/irnad-a-computational-tool-for-identifying-d-modification-sites-in-rna-sequence Thu, 16 May 2019 00:20:07 -0500 https://bioinformaticsonline.com/bookmarks/view/39372/irnad-a-computational-tool-for-identifying-d-modification-sites-in-rna-sequence <![CDATA[iRNAD: a computational tool for identifying D modification sites in RNA sequence]]> iRNAD, for identifying D modification sites in RNA sequence. In this predictor, the RNA samples derived from five species were encoded by nucleotide chemical property and nucleotide density. Support vector machine was utilized to perform the classification. 

http://lin-group.cn/server/iRNAD/

Address of the bookmark: http://lin-group.cn/server/iRNAD/

]]> Abhimanyu Singh https://bioinformaticsonline.com/bookmarks/view/26375/ncbi-remap Thu, 11 Feb 2016 11:02:26 -0600 https://bioinformaticsonline.com/bookmarks/view/26375/ncbi-remap <![CDATA[NCBI Remap]]> NCBI Remap. This tool is conceptually similar to liftOver in that in manages conversions between a pair of genome assemblies but it uses different methods to achieve these mappings. It is also available through a simple web interface or you can use the API for NCBI Remap.

More at http://www.ncbi.nlm.nih.gov/genome/tools/remap

API http://www.ncbi.nlm.nih.gov/genome/tools/remap/docs/api

Address of the bookmark: http://www.ncbi.nlm.nih.gov/genome/tools/remap

]]> Jit https://bioinformaticsonline.com/bookmarks/view/40212/kalign-fast-multiple-sequence-alignment-program-for-biological-sequences Fri, 01 Nov 2019 00:20:41 -0500 https://bioinformaticsonline.com/bookmarks/view/40212/kalign-fast-multiple-sequence-alignment-program-for-biological-sequences <![CDATA[Kalign: fast multiple sequence alignment program for biological sequences.]]> Kalign is a fast multiple sequence alignment program for biological sequences.

Align sequences and output the alignment in MSF format:

kalign -i BB11001.tfa -f msf  -o out.msf

Align sequences and output the alignment in clustal format:

kalign -i BB11001.tfa -f clu -o out.clu

Re-align sequences in an existing alignment:

kalign -i BB11001.msf  -o out.afa

Reformat existing alignment:

kalign -i BB11001.msf -r afa -o out.afa

Address of the bookmark: https://github.com/TimoLassmann/kalign

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