Results for "Genome Sequence"
Blogs
How to install Perl modules manually, using CPAN command, and other quick ways
As a bioinformatics programmer, and crunchy data analyser you need to install several...python support for the BioSQL database schemalibbtlib-perl - library for basic sequence manipulation # sudo apt-get...3948 days ago
Five points for bioinformatics software/tools
...bioinformaticians are faced with dilemma when they receive biological sequence data for the first time. Th...analysis that you are doing. This is particularly true in the case of genome assembly and annotation. At th...3706 days ago
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Bookmarks
List of popular bioinformatics software/tools
In current genome era, our day to day work is to handle the huge geneome sequences, expression data, several other datasets. This link provide a comprehensive list of commonly used sofware/tools.3943 days ago
- ...he following fundamental topics in bioinformatics: assembling genomes, comparing DNA and protein sequences, predicting genes, finding...g gene expression, constructing evolutionary trees, analyzing genome rearrangements, and identifying...
3943 days ago
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Files
Detect the sequence pattern and its location in fasta file with match and mismatches information.
This script is one of my old script to detect some centromeric pattern in chromosomes. User can also control the number of mismatches allowed through command line .. To run: perl centro.pl3866 days ago
- Mostly FASTA file contain NNN characters, which can be replace by random A T G C character with this perl script. It also print the FASTA sequence name, N's counts, nucleotide count and percentage details at command prompt/standard output.
3864 days ago
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Discussion topics
Which are the best statistical programming languages to study for a bioinformatician?
In Bio-informatics based genome sequencing and predicting metabolic pathways research jobs I used Matlab, SAS, SPSS, R and several Bioconductor packages....3950 days ago
- Like in case of plant genomes where nature of genome is too complex and huge in size to accomplish complete de novo assembly by current sequencing technology. What would be alternate solution? Can we live in reference free world?
3943 days ago
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Pages
Bio++ : C Language libraries for your biological need
C has always been a language that never att...raries for Bioinformatics, including sequence analysis,phylogenetics, molec...ures of the libraries are as follows:Sequence analysis Sequence and Site o...Boussau B. Non-homogeneous models of sequence evolution in the Bio++ suite...3946 days ago
BioRuby :Ruby packages for biologist
...s a package of Open Source Ruby code, with classes for DNA and protein sequence analysis, alignment, databa...Ruby language. This project is supported by University of Tokyo (Human Genome Center), Kyoto University(Bioin...3945 days ago
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Top-level pages
- The completion of the first human genome drafts was just a start of the modern...sequencing” (HT-NGS). The decreasing genome sequencing cost and desire to...y suitable language to handle ever growing genome or protein sequences. The next step after readin...
3946 days ago
- ...s DataBase for the C. elegans genome, FLYBASE for D. melanogaster et...tein interactions. Analysing sequence data: The primary data of se...lds can be analysed for whole genomes. Protein–protein interac...The SWISS–PROT protein sequence database and its supplement T...
3945 days ago
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Wire posts
News
- ...ml http://www.natureworldnews.com/articles/5052/20131123/oldest-dna-sequenced-done-breakthrough-technolo...tp://geogenetics.ku.dk/latest-news/a-700.000-year-old-horse-gets-its-genome-sequenced/
3810 days ago
UK Genome Science Meeting, sept 2nd-4th, 2013
Following the success of the last three years' UK Next Gen Sequencing meetings at Nottingham, the newly named UK Genome S...3917 days ago
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Opportunity posts
Structural polymorphism analysis from NGS data
...will be critical to establish a link between sequence variation, functional varia...ts, of the comparison of multiple and diverse genomes of a same species and of the construction of pan- and core-genomes. These challenging tasks will...3947 days ago
Bioinformatics PhD studentship available in New Zealand
Bioinformatics PhD studentship available in New Zealand The importance of transcri...Recent shifts towards large-scale analyses of transcriptional regulation on a sequence and epigenetic level are at t...3946 days ago
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ResearchLabs posts
- The human genome project and similar projects in dis...Area: Analysis of Next Generation sequence data in cancer Methods for...s of structural variation in cancer genomes Next Generation sequencing in...arative genomics Sensitive genomic sequence search techniques using hidde...
3946 days ago
- Statistical functional genomics in experimental medicine The genome projects and the accelerated development of high-throughput genomic technologies such as microarrays have revolution...
3946 days ago
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Fun
Bioinformatician become producer/director !!!
...ignment to hona hi tha. Mera sequence mera base. Markov aapke ha...a. BLASTana FASTAna. Hamari Sequence aapke pass hai. BLAST To Hon...Naam Tool Developer Hum Apke Genome Mein Rehte Hein Do Seque...n Karke Dekho Alignment Apna Sequence Parayi *Warning: It contai...3917 days ago
What a bioinformatician always dream for ???
Well established bioinformatics labs with SGI(silicon graphics interface) License of all commercial softwares. Complete, and fully assembled genome o...3843 days ago
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Video
- http:--www.biotechnology.jhu.edu- Tutorial for PSI-BLAST, an extension of BLAST that uses matrix algebra. BLAST is a cornerstone bioinformatics tool at NCBI. BLAST is the Basic Local Alignment Search tool and will protein and DNA sequences that are related to a sequence that the user provides.
3906 days ago
Bioinformatics -- Understanding of living systems through information science
...ly, the progress of the Human Genome Project, aiming to decode all human DNA sequences, has highlighted a researc...organism evolves, its genome sequence changes through sudden mutati...ra Lab uses a next-generation sequencer at Keio University, along wi...3915 days ago
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Bio-Scripts
Python script to download covid genome !
#!/usr/bin/env python3 # these are the publicly available "complete" sequences # https://www.gisaid.org/ h...ww.ncbi.nlm.nih.gov/core/assets/genbank/files/ncov-sequences.yaml").text) seqs = seqs['g...1134 days ago
Download genome using NCBI esearch command line !
#Download using command line "NC_005956.1" / "CP003784.1" esearch -db nucleotide...ani fastANI -q seq1.fa -r seq2.fa --visualize -o fastani.out #Plot using sequences Rscript plotSeq.R seq1.fa s...1100 days ago
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Polls
Which of the followings are the best place to study Bioinformatics ?
Bioinformatics is a major growth area and qualified Bioinformaticians are in high demand. An explosion in biological data has resulted from genome p...3414 days ago
Tryst
Tryst with a Bioinformatician # Dr Altan Kara
Dr Altan Kara is a Bioinformatics specialist at the faculty of Gene Engineering and Biotechnology Institute...ng for (AKMARK (Project CODE:5153403)) is, applying a bioinformatics-supported genome,...2360 days ago
Groups
INTIMATE secrets hidden in your DNA could be stolen without you even realising...ing a glass from which you have drunk, a "genome hacker" could obtain a comprehensive scan of your genome, revealing DNA variants that...t or bioinformatician you hack the entire genome t...3951 days ago
Our research interest falls in the broad field of bioinformatics and, more specifically...ng for motif finding Biclustering algorithms Genome Assembly Developement of n...mbly procedure Comparative genomics approaches in genome a...3941 days ago
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Tags
- Genome Browser is the platform/database used for searching and retreiving sequences and annotation of genomes belong to various eukaryotes, prokaryotes, etc. Following are the weblink for different available browsers: http://www.ensembl.org/index.html http://ensemblgenomes.org/ http://genome....
Tags: Genome Browser, Organism, Plant, Animal, Bacteria, fungi, Genome Sequence, DNA, Sequencing, Annotation, SNP, gff, gtf, gff3, vcf, bed
3913 days ago
Comments
Comment on "Short-read assembly using Spades !"
...is the process of constructing a genome sequence from a large number of shor...ng reads. SPAdes (St. Petersburg genome assembler) is a popular softw...he directory where the assembled genome will be saved, "forward_reads...ss and accuracy of the assembled genome by comparing it to reference ge...414 days ago
Comment on "Sibelia: A comparative genomics tool"
...ng: 1. Seq_id -- ID of the sequence, that the instance belongs to...f the same synteny block. Genomes permutations ----------------...ur exactly once in each input sequence. This option assumes that all input genomes contain single chromosome....1283 days ago
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