Tools to detect synteny blocks regions among multiple genomes
...ntenyView' shows conservation of large-scale gene order between species pairs. A brief summary of the calcu...ies. MicroSyn searches for conserved, flanking colinear homologous gene pairs between two genomic fragments...2613 days ago
Dynamic chromosome breakpoints !!!
...ensation and decondensation process. This is followed by nuclear envelope dissolution, mitotic spindle assembly, migration of the sister chromatid pairs to the metaphase plate, divis...3556 days ago
3701 days ago
Alignment of closely related whole genomes/scaffolds
...across the tree of life. This increasing volume of data requires tools that can quickly compare multiple whole-genome sequences, millions of base pairs in length, to aid in the stud...3022 days ago
Genome Assembly Tools and Software - PART2 !!
...dash; Closing the Gap within Paired ReadsGapFiller is not a standard de novo assembler. It aims “only” at closing the gap between pairs of reads as a first step of a...2689 days ago
2717 days ago
List of Bioinformatics Software Tools for Next Generation Sequencing
...sets; fasta, fastq, gzipped or not; no reference genome required; read pairs can be given Output: FASTA...ription: command-line application to identify SNPs between tumor/normal pairs- predicts probability of diff...2912 days ago
DNA Bending Propensity in the Presence of Base Mismatches: Implications for DNA Repair
...s expensive to bend mismatch-containing, defective DNA (G:T, C:C, C:T, G:A, G:G, T:T, A:A, A+:C) vs. non-defective DNA (containing A:T or G:C base pairs). DNA repair mechanisms likel...3915 days ago
Illumina reveals first dataset of long reads
...quired by Illumina releases new service for long reads sequencing i.e., FastTrack Long Reads. Average read length is around 8,500 base pairs in release dataset. Best...3911 days ago
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2996 days ago
DNA is packaged in a chromosome experiment
...es in the electron microscope by Don and Ada Olins [4] and their existence and structure (as histone octamers surrounded by approximately 200 base pairs of DNA) were proposed by Roge...3880 days ago
Genetics, epigenetics and disease
...identified, there is much to learn about the DNA signals that control them. This lecture described an unusually short DNA sequence, just two base pairs long, CG, which occurs in sev...3876 days ago
Mapping with BWA-mem or BWA-sampe in one go with python script !
BAM files and mapping BESST requires sorted and indexed BAM files as input. Any read aligner + samtools can be used to obtain such files. Read pairs needs to be aligned in paired re...2127 days ago
2130 days ago
SMASH: An alignment-free tool to find and visualise rearrangements between pairs of DNA sequences
SMASH is a completely alignment-free method to find and visualise rearrangements between pairs of DNA sequences. The detection is based on relative compression, namely using a FCM, also known as Markov model, of high context order (typically 20). The method has been approached with a tool (a...Tags: SMASH, alignment-free, tool, find, visualise, rearrangements, pairs, DNA, sequences
2330 days ago
Comment on "Sibelia: A comparative genomics tool"
...eful to consider operations that are actually performed with the genome behind the graph model. Suppose that somewhere in the genome exist two pairs of K-mers K1 and K2: 1st p...1288 days ago
1364 days ago