Results for "Regions"
Users
About me: ...s.678809 PhD thesis @ Uni Library https://pure.aber.ac.uk/portal/en/theses/computational-identification-and-analysis-of-evolutionary-breakpoint-regions-in-amniote-genomes(57ec9f04-1...68 days ago
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-dem...
3929 days ago
Tools to detect synteny blocks regions among multiple genomes
...the same chromosome. These block regions have mostly been preserved by...onserved blocks and non-conserved regions to understand the mechanism a...ny server can be used for finding regions syntenic across multiple geno...pload files which contain synteny regions between two or more genomes a...2600 days ago
- +11 more Blogs
Bookmarks
Public Databases for Bioinformatics !
...ct.org/files/ENCFF546PJU/@@download/ENCFF546PJU.bam, https://www.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 (http://...
3408 days ago
- +85 more Bookmarks
Files
Bioinformatics approach to Boar Taint
...s Scrofa version 10.2 reference assembly using Bowtie2. Alignment file then used for calling SNPs and InDels inside previousy identified QTL regions on SSC5,13, and 7 with the ai...3779 days ago
- ...nhibit mRNA expression of particular gene by binding improperly to 3'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 !!
...bly. The benefits of this approach include better assembled repetitive regions, less gaps and higher accurac...o; sequence for functional 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
...ams in the terminal. mysociety/fixmystreet - This is mySociety'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
- ...Modeler) uses interpolated Markov models (IMMs) to identify the coding regions and distinguish them from non...program and uses interpolated Markov models for evaluating the coding regions. Glimmer M A gene...
3932 days ago
Hidden Markov Models, Viterbi Algorithm, Markov Chain Exploration with script
...VB6) Problem : The CG island is a stretch of DNA (usually longer than 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
- +13 more Top-level pages
Wire posts
News
- ...of samples annually with high-quality, high-coverage sequencing, delivering 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
...t versions of RPS-BLAST (BLAST release 2.2.28 and up) using composition-based scoring. This abolishes the need to mask out compositionally biased regions in query sequences; Doma...3717 days ago
- +9 more News
Opportunity posts
Special Project Scientist – Sorghum Genomics
...enting global genetic diversity Population genetic and genomic analyses, testing the hypothesis related to adaptation in multiple geographic regions Develop SNP assays from...3628 days ago
- ...plications 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
- +1 more Opportunity posts
ResearchLabs posts
- ...ove the annotation of functional biological features in genome sequences. Bergman Lab work focuses on improving annotation of non-protein-coding regions of the genome including conse...
3856 days ago
- ...ly structural variation) and examine their potential functional impact in disease phenotypes. We are particularly interested in analyzing complex regions of the genome that are not ea...
3257 days ago
Video
- ...o be activated. The initiation complex requires contact with activator 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
...hould be obtained with the two sequences: high values (positive) for coding protein sequences and low values (zero or even negative) for intronic regions. exon.fa >HUMHBB.2ex...2145 days ago
- +3 more Bio-Scripts
Tags
CAR: Reconstructing Contiguous Regions of an Ancestral Genome
We describe a new method for predicting the ancestral order and orientation of those intervals from their observed adjacencies in modern species. We combine the results from this method with data from chromosome painting experiments to produce a map of an early mammalian genome that accounts fo...Tags: Reconstruction, Contiguous, Regions, Ancestral, Genome, Bioinformatics, CAR
2534 days ago
- SRBreak is a read-depth and split-read package written in R for identifying copy-number variants in next-generation sequencing datasets. Note: SBReak was designed to work for multiple samples. It can work for >= 2 samples, but we suggest that users should use >= 5 samples as in the work ...
Tags: SRBreak, Read-Depth, Split-Read, Framework, Breakpoints, Copy-Number, Variable, Regions
2172 days ago
- +6 more Tags
Comments
Comment on "Basic command-line to run BLAST"
...e into smaller segments, called "words," and searching for matches to those words in the database. It then expands the matches to identify longer regions of similarity, called "alignm...410 days ago
Comment on "Tools to detect synteny blocks regions among multiple genomes"
...ized using tools such as Circos or SynMap. Interpret the results: Interpret the results of the synteny analysis by identifying conserved genomic regions, identifying gene families th...413 days ago
- +8 more Comments
