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Unique identifier OMICS_28233
Name PTMap

Maintainer


This tool is not maintained anymore.

Publication for PTMap

PTMap citations

 (5)
library_books

MiR 190b, the highest up regulated miRNA in ERα positive compared to ERα negative breast tumors, a new biomarker in breast cancers?

2015
BMC Cancer
PMCID: 4491222
PMID: 26141719
DOI: 10.1186/s12885-015-1505-5

[…] ER+ and ER−similar to their miRNA (Table ). Thus CTDSPL, EVL, NFYC, OGFRL1 and CTDSP1 are more expressed in ER+ than in ER− like miR-26a1, miR-342-5p, miR-30a, miR-30c2 and miR-26b respectively, and PTMAP2 is less expressed in ER+ than in ER− like miR-1244. Moreover Spearman’s rank correlation analysis revealed a significant and positive correlation between expression of all host genes and its re […]

library_books

Pharmacogenomics of Hypertension: A Genome‐Wide, Placebo‐Controlled Cross‐Over Study, Using Four Classes of Antihypertensive Drugs

2015
PMCID: 4330076
PMID: 25622599
DOI: 10.1161/JAHA.114.001521

[…] d ). Two SNPs on chromosome 13, rs7984003 (P=7.8×10−7) and rs2765115 (P=3.6×10−6) showed suggestive evidence of association when systolic ABP responses of both studies were analyzed. Two pseudogenes (PTMAP and GYG1P2) but no obvious protein‐coding gene candidates are located in the vicinity of rs7984003. Of the protein‐coding genes, SPATA13 coding for spermatogenesis‐associated protein 13 lies clo […]

library_books

Evaluation of Proteomic Search Engines for the Analysis of Histone Modifications

2014
J Proteome Res
PMCID: 4184451
PMID: 25167464
DOI: 10.1021/pr5008015

[…] wn to be very challenging to analyze using conventional commercially available search methods and often require specific in-house developed software to properly deal with their data sets (e.g., MILP, PTMap, MS-TopDown, and FAVA-based workflow). In this study, we present a method to evaluate database search engines on identifying spectra from histone peptides containing PTMs. In this method, no mod […]

library_books

Proteomic characterization of novel histone post translational modifications

2013
PMCID: 3737111
PMID: 23916056
DOI: 10.1186/1756-8935-6-24

[…] ifficult. Algorithms have been designed to specifically map histone modifications and identify novel sites of modification [-]. For unbiased novel PTM type discovery, Chen and colleagues [] developed PTMap to explore a wide window of mass shifts in small increments and identify unique modifications. It also decreases false positives by scoring unmatched peaks in the MS/MS spectra [].Misidentificat […]

library_books

Proteomics in epigenetics: new perspectives for cancer research

2013
Brief Funct Genomics
PMCID: 3662889
PMID: 23401080
DOI: 10.1093/bfgp/elt002

[…] has been largely facilitated by recent developments in software that deviate from the conventional approach for unmodified peptide identification based on restricted database searches. For instance, PTMap [] utilizes sequence alignment to localize sites of PTMs on target proteins while substantially reducing false-positive identifications based on unmatched peaks. While innovative approaches such […]

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PTMap institution(s)
Department of Biochemistry, University of Texas Southwestern Medical Center, Dallas, TX, USA; Department of Pharmacology, University of Texas Southwestern Medical Center, Dallas, TX, USA; Department of Chemistry and Biochemistry, University of Texas, Arlington, TX, USA
PTMap funding source(s)
Supported by National Institutes of Health Grant CA126832.

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