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multiplierz specifications

Information


Unique identifier OMICS_03360
Name multiplierz
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input format FASTA,MGF,mzML
Operating system Unix/Linux, Windows
Programming languages Python
License GNU Lesser General Public License version 3.0
Computer skills Advanced
Version 2.1.1
Stability Stable
Maintained Yes

Versioning


No version available

Documentation


Maintainer


  • person_outline Jarrod Marto

Publications for multiplierz

multiplierz citations

 (10)
library_books

Development of Bag 1L as a therapeutic target in androgen receptor dependent prostate cancer

2017
eLife
PMCID: 5629025
PMID: 28826504
DOI: 10.7554/eLife.27159.041

[…] rupole isolation, width 1.6 Da, first mass = 110, CE = 30%, target = 5e4, max fill time = 50 ms, image current detection with 15K resolution). Mascot was used to search peak lists (.mgf) generated by multiplierz (; ) against a forward-reverse database of human proteins (NCBI refseq). Search parameters specified SILAC quantitation (K + 8, R + 10), variable methionine oxidation, and fixed carbamidom […]

library_books

Bacterial cell wall biogenesis is mediated by SEDS and PBP polymerase families functioning semi autonomously

2016
Nat Microbiol
PMCID: 5030067
PMID: 27643381
DOI: 10.1038/nmicrobiol.2016.172

[…] me=200 ms; isolation window=1.6 m/z; NCE=27, 30; dynamic exclusion=15 seconds). MS/MS spectra were matched to peptide sequences using Mascot (version 2.2.1) after conversion of raw data to .mgf using multiplierz scripts . Search parameters specified trypsin digestion with up to two missed cleavages, as well as variable oxidation of methionine and carbamidomethylation of cysteine residues. Precurso […]

library_books

Structure and mechanism of activity based inhibition of the EGF Receptor by Mig6

2015
PMCID: 4790445
PMID: 26280531
DOI: 10.1038/nsmb.3074

[…] ations of cysteine (carbamidomethylation) and peptide N-termini and lysine (4-plex iTRAQ) as well as variable modification of serine, threonine, tyrosine (phosphorylation) and methionine (oxidation). Multiplierz scripts were used to filter results to a 1% FDR, remove hits with mass deviations >50 ppm, and extract iTRAQ reporter ion intensities. Ratios were corrected for source protein variations a […]

library_books

Dephosphorylation of DBC1 by Protein Phosphatase 4 Is Important for p53 Mediated Cellular Functions

2015
Mol Cells
PMCID: 4546941
PMID: 26194823
DOI: 10.14348/molcells.2015.0066

[…] 20,000). Dynamic exclusion was enabled with a repeat count of 1 and exclusion duration of 40 s. ESI voltage was set to 2.2 kV. MS spectra were converted into a Mascot generic file format (.mgf) using multiplierz scripts () and searched using Mascot (version 2.4) against three appended databases consisting of: i) human protein sequences (downloaded from RefSeq on 07/11/2011); ii) common lab contami […]

library_books

Mutations in G protein beta subunits promote transformation and kinase inhibitor resistance

2014
Nat Med
PMCID: 4289115
PMID: 25485910
DOI: 10.1038/nm.3751

[…] MS/MS spectra were recalibrated using the background ion (Si(CH3)2O)6 at m/z 445.12 ± 0.03, converted into a Mascot generic format (.mgf) using multiplierz scripts , and searched with Mascot (version 2.3) against three appended databases consisting of: i) a forward mouse (for samples derived generated in BaF3 cells) or human (for samples gene […]

library_books

Proteomic Analysis Reveals CACN 1 Is a Component of the Spliceosome in Caenorhabditis elegans

2014
PMCID: 4132184
PMID: 24948787
DOI: 10.1534/g3.114.012013

[…] uration of 30 sec. ESI voltage was set to 2.2 kV.MS spectra were recalibrated using the background ion (Si(CH3)2O)6 at m/z 445.12 +/− 0.03 and converted into a Mascot generic file format (.mgf) using multiplierz scripts (; ). Spectra were searched using Mascot (version 2.3) against three appended databases consisting of: i) C. elegans protein sequences (WS220); ii) common lab contaminants; and iii […]

Citations

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multiplierz institution(s)
Department of Cancer Biology and Blais Proteomics Center, Dana- Farber Cancer Institute, Boston, MA, USA; Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA, USA; Department of Oncologic Pathology, Dana-Farber Cancer Institute, Boston, MA; Department of Pathology, Brigham and Women’s Hospital, Harvard Medical School, Boston, MA, USA
multiplierz funding source(s)
Supported by the Dana-Farber Strategic Research Initiative and Barr Program in Basic Research, by the N.I.H. (CA188881 and CA178860), the Honorable Tina Brozman Foundation for Ovarian Cancer Research, and the Michael J. Fox Foundation.

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