MAPS 2.0
:: DESCRIPTION
MAPS, Mutations And Polymorphism Survey, a pipeline for mutation discovery and genotype analysis.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
- Windows/MacOsX/Linux
- Python
:: DOWNLOAD
:: MORE INFORMATION
:: DESCRIPTION
MAPS, Mutations And Polymorphism Survey, a pipeline for mutation discovery and genotype analysis.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
:: DESCRIPTION
HCMV (human cytomegalovirus) is a new tool linking human cytomegalovirus drug resistance mutations to resistance phenotypes.
MRA is a new tool linking drug resistance mutations to resistance phenotypes.
::DEVELOPER
Medical Systems Biology, University of Ulm
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Antiviral Res. 2010 Feb;85(2):318-27. doi: 10.1016/j.antiviral.2009.10.004. Epub 2009 Oct 22.
A new tool linking human cytomegalovirus drug resistance mutations to resistance phenotypes.
Chevillotte M1, von Einem J, Meier BM, Lin FM, Kestler HA, Mertens T.
:: DESCRIPTION
Rediscover is an optimized method for identifying mutually exclusive genomic events.
::DEVELOPER
Juan A. Ferrer-Bonsoms Developer <jafhernandez at tecnun.es>
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Ferrer-Bonsoms JA, Jareno L, Rubio A.
Rediscover: an R package to identify mutually exclusive mutations.
Bioinformatics. 2021 Oct 19:btab709. doi: 10.1093/bioinformatics/btab709. Epub ahead of print. PMID: 34664620.
:: DESCRIPTION
Gene Machine builds a gene network! The lac operon is a set of genes which are responsible for the metabolism of lactose in some bacterial cells. Explore the effects of mutations within the lac operon by adding or removing genes from the DNA.
::DEVELOPER
the PhET™ project at the University of Colorado
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Science. 2008 Oct 31;322(5902):682-3. doi: 10.1126/science.1161948.
PHYSICS. PhET: simulations that enhance learning.
Wieman CE, Adams WK, Perkins KK.
:: DESCRIPTION
HotMAPS detects somatic mutation hotspot regions in 3D protein structures.
::DEVELOPER
:: SCREENSHOTS
N/A
::REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Tokheim C, Bhattacharya R, Niknafs N, Gygax DM, Kim R, Ryan M, Masica DL, Karchin R.
Exome-Scale Discovery of Hotspot Mutation Regions in Human Cancer Using 3D Protein Structure.
Cancer Res. 2016 Jul 1;76(13):3719-31. doi: 10.1158/0008-5472.CAN-15-3190. Epub 2016 Apr 28. PMID: 27197156; PMCID: PMC4930736.
:: DESCRIPTION
The AlloSigMA server is a tool for estimating the allosteric free energies acting on a single residue as a result of either ligand binding, mutations, or both combined.
::DEVELOPER
Bioinformatics Institute (BII), Singapore.
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Tan ZW, Guarnera E, Tee WV, Berezovsky IN.
AlloSigMA 2: paving the way to designing allosteric effectors and to exploring allosteric effects of mutations.
Nucleic Acids Res. 2020 Jul 2;48(W1):W116-W124. doi: 10.1093/nar/gkaa338. PMID: 32392302; PMCID: PMC7319554.
:: DESCRIPTION
HPMV: Human (Protein) Mutation Viewer
::DEVELOPER
the Bioinformatics Institute (BII), Singapore.
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Sherman WA, Kuchibhatla DB, Limviphuvadh V, Maurer-Stroh S, Eisenhaber B, Eisenhaber F.
HPMV: human protein mutation viewer – relating sequence mutations to protein sequence architecture and function changes.
J Bioinform Comput Biol. 2015 Oct;13(5):1550028. doi: 10.1142/S0219720015500286. Epub 2015 Oct 27. PMID: 26503432.
:: DESCRIPTION
DESnowball R package implements the snowball approach, a highly sensitive statistical analysis method to identify downstream target genes that are affected by a recurrent driver mutation.
::DEVELOPER
Bioinformatics and Systems Medicine Laboratory
:: SCREENSHOTS
n/a
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
Snowball: resampling combined with distance-based regression to discover transcriptional consequences of a driver mutation.
Xu Y, Guo X, Sun J, Zhao Z.
Bioinformatics. 2014 Sep 5. pii: btu603
:: DESCRIPTION
MutationTaster is a free web-based application to evaluate DNA sequence variants for their disease-causing potential. The software performs a battery of in silico tests to estimate the impact of the variant on the gene product / protein.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: MORE INFORMATION
Citation
Steinhaus R, Proft S, Schuelke M, Cooper DN, Schwarz JM, Seelow D.
MutationTaster2021.
Nucleic Acids Res. 2021 Jul 2;49(W1):W446-W451. doi: 10.1093/nar/gkab266. PMID: 33893808; PMCID: PMC8262698.
Schwarz JM, Cooper DN, Schuelke M, Seelow D.
MutationTaster2: mutation prediction for the deep-sequencing age.
Nat Methods. 2014 Apr;11(4):361-2. doi: 10.1038/nmeth.2890. PMID: 24681721.
:: DESCRIPTION
SCmut is a novel and robust statistical method for cell-level somatic mutation detection from single-cell RNA-sequencing.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Vu TN, Nguyen HN, Calza S, Kalari KR, Wang L, Pawitan Y.
Cell-level somatic mutation detection from single-cell RNA sequencing.
Bioinformatics. 2019 Nov 1;35(22):4679-4687. doi: 10.1093/bioinformatics/btz288. PMID: 31028395; PMCID: PMC6853710.