TRIC statistics

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Citations per year

Number of citations per year for the bioinformatics software tool TRIC
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Tool usage distribution map

This map represents all the scientific publications referring to TRIC per scientific context
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Associated diseases

This word cloud represents TRIC usage per disease context
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Protocols

TRIC specifications

Information


Unique identifier OMICS_12616
Name TRIC
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Windows
Programming languages Python
Computer skills Advanced
Stability Stable
Source code URL https://codeload.github.com/msproteomicstools/msproteomicstools/zip/master
Maintained Yes

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Versioning


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Maintainer


  • person_outline Ruedi Aebersold

Publication for TRIC

TRIC citations

 (4)
library_books

Systems Pharmacology Dissection of Cholesterol Regulation Reveals Determinants of Large Pharmacodynamic Variability between Cell Lines

2017
Cell Syst
PMCID: 5747350
PMID: 29226804
DOI: 10.1016/j.cels.2017.11.002

[…] pporting this link, RPL14, YARS, and GARS all show a consistently reduced expression in several conditions in HEK, HeLa, and Huh7 cells (B). Furthermore, all nine proteins from the chaperonin complex TriC/CCT showed decreased expression, whereas the levels of other chaperones were not consistently decreased (). Phosphopeptides of several proteins involved in protein translation (RPL30, RPS3, and E […]

library_books

Inference and quantification of peptidoforms in large sample cohorts by SWATH MS

2017
Nat Biotechnol
PMCID: 5593115
PMID: 28604659
DOI: 10.1038/nbt.3908

[…] OpenSwathWorkflow (OpenMS 2.1) and PyProphet (https://github.com/grosenberger/pyprophet/tree/feature/ipf @93ec307) were used as described above.TRIC (msproteomicstools/master @d2b5e17) was run with the following parameters:feature_alignment.py: --file_format openswath --fdr_cutoff 0.01 --max_fdr_quality 0.2 --mst:useRTCorrection True --mst:St […]

call_split

A Class of Environmental and Endogenous Toxins Induces BRCA2 Haploinsufficiency and Genome Instability

2017
Cell
PMCID: 5457488
PMID: 28575672
DOI: 10.1016/j.cell.2017.05.010
call_split See protocol

[…] 0 human proteins with unique Swiss-Prot identities (). OpenSWATH first identified the peak groups from all individual SWATH maps at a target FDR = 1% and then aligned between SWATH maps using a novel TRIC (TRansfer of Identification Confidence) algorithm that was specifically developed for targeted proteomic data analysis (). The re-quantification feature in OpenSWATH was enabled but only those pe […]

library_books

PGCA: An algorithm to link protein groups created from MS/MS data

2017
PLoS One
PMCID: 5451011
PMID: 28562641
DOI: 10.1371/journal.pone.0177569

[…] ].Many software tools have been developed to process MS/MS data addressing the protein identification problem, such as ProteinPilot™ [], ProteinProphet [], Scaffold [], ProteinLP [], ProteinLASSO [], TRIC [], DBParser [], and X!TandemPipeline []. Although the organization of the results varies among these tools, most of them combine the set of all plausible protein identifiers matching a common se […]


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TRIC institution(s)
Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland; Department of Genetics, Stanford University, Stanford, CA, USA; Department of Experimental Oncology, European Institute of Oncology, Milan, Italy; Institute for Immunology, University Medical Center of the Johannes Gutenberg University of Mainz, Mainz, Germany; PhD Program in Systems Biology, University of Zurich and ETH Zurich, Zurich, Switzerland; Department of Oncology and Hemato-Oncology, University of Milan, Milan, Italy; S3IT, University of Zurich, Zurich, Switzerland; Faculty of Science, University of Zurich, Zurich, Switzerland

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