SureshKumar's Bioinformatics Blog

I am Suresh Kumar Sampathrajan. I have completed my PhD degree in bioinformatics from the University of Vienna, Austria in the year 2010. If you want to know more about me and my research,please click the menus at the top.

I have started this bioinformatics blog mainly for undegraduate and postgraduate students of bioinformatics. This blog will serve as an open resource material for the students and for those who wish to know about bionformatics. This blog contains video tutorials, tips, bioinformatics software downloads, articles on bioinformatics and career opportunities.

How to use R software for statistical data analysis-Video tutorial

How to use R software for statistical data analysis-Video tutorial
In this video tutorial it includes instruction to obtain R, enter basic commands, import and export data, and install and load packages.Dr. Heather Merk, The Ohio State University, introduces R software for statistical analysis, including
Install and run R
Find R packages, install, and load them
Read in data and visualize distribution
Test if there are differences between varieties (ANOVA using linear regression)
Distinguish varieties (Means and t-test)
Estimate variance components
Use loops to simplify analysis

Introduction to first generation, second generation and thrid generation sequencing-Video tutorial

Introduction to first generation, second generation and thrid generation sequencing-Video tutorial Pac Bio, Sanger, 454, Illumina, Ion Torrent, Helicos
This tutorial covers:
How to sequence?
What part of the DNA to sequence?
What lines to sequence?
How many lines to sequence?

Introduction to stanalone blast, perl and bioperl-Video tutorial

Introduction to stanalone blast, perl and bioperl-Video tutorial
In this video tutorial introduce methods for managing and querying sequence data on one's computer using BLAST, Perl, and BioPerl tools. Overviews of BLAST and BioPerl are provided. In addition, a marker discovery project in tomato that uses Perl, BioPerl, and BLAST tools on a Linux platform is presented as an example.In this video, Dr. Francis introduces Perl and BioPerl, and he teaches users how to download and install BioPerl.

Introduction to bioinformatics Sequencing resource -Video tutorial

Introduction to bioinformatics Sequencing resource -Video tutorial
The videos provide overviews of available genome sequence resources for tomato, including NCBI, SWISS-PROT, EMBL, SGN, SolCAP, and the Gene Index Project. The final video provides an introduction to customized searches using the ENTREZ tool on NCBI. In this video, Dr. David Francis, The Ohio State University, provides an overview of available genome sequence resources for tomato, including National Center for Biotechnology Information (NCBI), UniProt (SWISS-PROT), European Molecular Biology Laboratory (EMBL), Solanaceae Genomics Network (SGN), Solanaceae Coordinated Agricultural Project (SolCAP).

Introduction to sequence alignment tools -Video tutorial watch online

Introduction to sequence alignment tools -Video tutorial
Dr. Candice Hansey, Michigan State University, provides an overview of NCBI, including how to obtain sequence and use BLAST. In addition, Dr. Hansey provides demonstrations using Exonerate, MUMmer, FASTX-Toolkit, and the Tuxedo suite (including Botwtie and TopHat).
The contents of webinar:
Naviagating NCBI to obtain sequences
Using BLAST for sequence alignment
Using other programs for specialized sequence alignment (Exonerate for EST and cDNA alignment)
MUMmer - whole genome alignment, NUCmer - alignment of contigs or a genome, PROmer- designed for alignment of species too divergent for DNA alignment using six-frame translation
vmatch-short sequence alignment - Probes, primers and SNPs
Next genertaion sequence alignment programs(Tuxedo suite-Bowtie, Tophat, cufflinks)

Techniques in genome assembly -video

Techniques in genome assembly -video

What is Genome sequencing?

What is Genome sequencing?

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