Basic Applied Bioinformatics

Webliography

bioinformaticssoftwareandtools.co.in/bio_tools.php#restriction_table – acquires various online bioinformatics databases and tools

ftp://ftp.ncbi.nlm.nih.gov/genomes/all/GCF_000298735.2_Oar_v4.0/GCF_000298735.2_Oar_v4.0_rna.fna.gz

ftp://ftp.ncbi.nlm.nih.gov/pub/factsheets/HowTo_BLASTGuide.pdf – an enhanced report for search results generated by the BLAST web service

http://align.bmr.kyushu‐u.ac.jp/mafft/software/ – another efficient MSA tool

http://biit.cs.ut.ee/gprofiler/ – web server link for characterizing and manipulating gene lists of high‐throughput genomics

http://bioinf.cs.ucl.ac.uk/psipred/ – protein sequence analysis tool

http://bioinfogp.cnb.csic.es/tools/venny/ – tool for comparing lists with Venn Diagrams

http://biology.unm.edu/ccouncil/Biology_203/Summaries/Phylogeny.htm

http://blast.ncbi.nlm.nih.gov/Blast.cgi – Blast home page

http://catchenlab.life.illinois.edu/stacks/comp/denovo_map.php – the software pipeline “Stack” provides the scripts for necessary analysis of SNP mining

http://creskolab.uoregon.edu/stacks/ – software pipeline for building loci from short‐read sequences

http://dnafsminer.bic.nus.edu.sg/Tis.html – link is used to predict translation initiation site(s) in vertebrate DNA/mRNA/cDNA sequences

http://emboss.sourceforge.net/docs/themes/SequenceFormats.html – an online sequence format conversion tool (along with an explanation of the basic features of sequence format conversion)

http://en.bio‐soft.net/format/MACAW.html ...