Bioinformatics at WJC
WJC offers several online bioinformatics tools. These tools are all developed
in-house. Technical questions can be addressed to allan@imbg.ku.dk.
Databases
Mendelian Cytogenetics Network Database version II. Online version is available at http://www.mcndb.org
Comprehensive database of K+ channel mutation yeast clones. Online version can be found here.
Sequence tools
Search the genome, individual chromosomes or your own fasta files for
small dna-sequences. Output will be statistics and links to the genome browser
or ensemble. You can also get a genome browser track as output. Link: http://seqscan.medgen.ku.dk
Java Tools
This is a collection of tools using Java Web Start which means that you must have java 5.0 or newer installed to use them. Java can be downloaded here. Using this system, you will ble to run the programs locally but automatically get the newest version if you have a network connection.
Simulates flowsorting of chromosomes from a balanced translocation. A short introduction can be found here.
Different ways to cluster features from a bed-file (eg. UCSC tracks) using user defined parameters.
Outputs the results in a bed-file that can be uploaded as a track to UCSC browser
Used to change tab delimited text-files. The dataformat is changed by various search and replace actions. You can add a prefix or postfix to a certain column, remove lines with specific content etc.
Work with track for the UCSC genome browser.
A database with predicted miRNA targets using 6 different methods. The source is annotated 3'UTRs from
Ensemble v38. NOTE! Be aware that due to some unknown error it is VERY slow.
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