3932 days ago
Tools to detect synteny blocks regions among multiple genomes
...same chromosome. These block regions have mostly been preserved by...ur on the same chromosome are syntenic; however, syntenic genes may or may not be "link...rved blocks and non-conserved regions to understand the mechanism an...erver can be used for finding regions syntenic across multiple genomes and...2602 days ago
Public Databases for Bioinformatics !
https://www.nature.com/articles/s41467-020-17155-yServer Infrastructure: File Serve...w.encodeproject.org/files/ENCFF059BEU/@@download/ENCFF059BEU.bam. Blacklisted regions were obtained from http:...1131 days ago
3410 days ago
Bioinformatics approach to Boar Taint
Meat products obtained from intact male pigs often produce offensive smell or odour wh...nt file then used for calling SNPs and InDels inside previousy identified QTL regions on SSC5,13, and 7 with the ai...3781 days ago
3553 days ago
Genome Assembly Tools and Software - PART2 !!
The genome assemblers generally take a file of short sequen...this approach include better assembled repetitive regions, less gaps and higher accurac...tional analysis, or at least to obtain neighboring regions of the segment for SNP discov...2677 days ago
Awesome perl frameworks, libraries and software - PART 3
fujiwara/perl-queue-q4pg-lite - simple message queue using PostgreSQL. formbui...'s popular map-based reporting platform: easy to install in new countries and regions spencertipping/js-in-ten-min...2486 days ago
3934 days ago
Hidden Markov Models, Viterbi Algorithm, Markov Chain Exploration with script
Hidden Markov Models, the Viterbi Algorithm, and CpG Islands (in VB6) Problem : The...han 200 bases) in which the frequency of the CG sequence is higher than other regions. It is also called the CpG is...3816 days ago
3754 days ago
Conserved Domain Database (CDD) version 3.11 released
National Center for Biotechnology Information (NCBI) Conserved Domain Database (CDD) v...ion-based scoring. This abolishes the need to mask out compositionally biased regions in query sequences; Doma...3719 days ago
Special Project Scientist – Sorghum Genomics
ICRISAT is seeking applications from Indian Nationals for a Special Project Scientist...analyses, testing the hypothesis related to adaptation in multiple geographic regions Develop SNP assays from...3630 days ago
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3376 days ago
Perl script to find palindromic regions in DNA sequences
use strict; use warnings; my $pp = qr/(?: (\w) (?1) \g{-1} | \w? )/ix; my $filename = $ARGV[0]; open(my $fh, '2146 days ago
Perl script to find coding regions in DNA sequences
#!/usr/bin/perl -w use strict; # if the number of input arguments is lower tha...coding protein sequences and low values (zero or even negative) for intronic regions. exon.fa >HUMHBB.2ex...2147 days ago
Comment on "Sibelia: A comparative genomics tool"
...y simplification. Boundaries correction --------------------- Algorithm of "Sibelia" depends on presence of solid k-mers within syntenic regions. If such regions contain variations close to t...1277 days ago
Comment on "Tools to detect synteny blocks regions among multiple genomes"
Align Synteny - Beginning from completed or draft genomes, find shared syntenic regions and align them quickly while accounting for inversions, rearrangements, and duplications. http://www2.decipher.codes/AlignSynteny.html1965 days ago