Results for "Syntenic Regions"
Blogs
In comparative genome analysis work, we usually compare more than two genomes and looks for syntenic regions amongst them. In my research I used Evolution Highway (RH) http://eh-demo.ncs...3929 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...2600 days ago
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Bookmarks
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:...1129 days ago
- ShRec3D is a program that aims at reconstructing a genome 3D structure (b) from the sole knowledge of the contacts between different genomic regions (a) as determined by Hi-C (ht...
3408 days ago
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Files
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...3779 days ago
- Liver cancer is third leading cause of deaths and fourth most frequent occuring cancer...'UTR region of a gene and hence block binding of TF /translation of gene. CpG regions is known to located at promot...
3550 days ago
Pages
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...2675 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...2484 days ago
Top-level pages
- Genomics is the study of the genomes of organisms. The fiel...olated Markov models (IMMs) to identify the coding regions and distinguish them from non...terpolated Markov models for evaluating the coding regions. Glimmer M A gene...
3932 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...3814 days ago
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Wire posts
News
- Illumina, Inc. announced Tuesday that its new HiSeq X Ten Sequencing System has broken...livering a comprehensive catalog of human variation within and outside coding regions.” HiSeq X Ten utilizes...
3752 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...3717 days ago
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Opportunity posts
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...3628 days ago
- Applications are invited from eligible candidates willing to join in a Department of Science and Technology (DST) project entitled “"Mapping neural regions involved in reading process i...
2894 days ago
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ResearchLabs posts
- Broad area of research: Genome Annotation and Functional Genomics Bergman Lab is...nces. Bergman Lab work focuses on improving annotation of non-protein-coding regions of the genome including conse...
3856 days ago
- Our research group is primarily focused on the analysis of whole genome sequence data...ct in disease phenotypes. We are particularly interested in analyzing complex regions of the genome that are not ea...
3257 days ago
Video
- Transcription is the process by which the information in DNA is copied into messeng...ivator proteins, which bind to specific sequences of DNA known as enhancer regions. These regions may be thousands of base pair...
3374 days ago
Bio-Scripts
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, '2144 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...2145 days ago
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Tags
Tools to detect synteny blocks regions among multiple genomes
The synteny block (which etymologically means “on the same ribbon”) is a collection of contiguous genes located on the same chromosome. These block regions have mostly been preserved by genome rearrangements, and so synteny blocks from two related species (e.g., humans and mice) will ...Tags: Synteny, Genome, GWAS, Conserve Synteny, Synteny Blocks, Comparative Genomes, Syntenic Regions
2600 days ago
Comments
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...1274 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.html1963 days ago
