Noordermeer_Shieldin_2018
Ontology highlight
ABSTRACT:
INSTRUMENT(S): LTQ Orbitrap Velos, TripleTOF 6600, LTQ Orbitrap Elite
ORGANISM(S): Homo Sapiens (ncbitaxon:9606)
SUBMITTER: 
Anne-Claude Gingras
PROVIDER: MSV000082207 | MassIVE | Sun Mar 25 07:10:00 BST 2018
SECONDARY ACCESSION(S): PXD009313
REPOSITORIES: MassIVE
Similar Datasets
Project description:This dataset consists of 57 raw MS files and associated peak lists and result files, acquired on a TripleTOF 5600 mass spectrometer operated in Data Dependent Acquisition mode.
DDA files were searched through Mascot and Comet, and this deposition lists the identification and SAINT scoring using iProphet.
The files are associated with a manuscript submitted for publication by Alerasool et al. that determines the protein-protein and proximity interaction landscape of a subset of transcription factors.
Two separate MassIVE submissions are associated with this dataset, one for the BioID dataset and this one for the AP-MS data.
Contributors
Samples were generated by Nader Alerasool and affinity purification and mass spectrometry was performed by Zhen-Yuan Lin with oversight from Brett Larsen and Anne-Claude Gingras. Analysis was performed by Anne-Claude Gingras, Mikko Taipale and Benjamin L. Piette.
Corresponding author: Mikko Taipale (mikko.taipale@utoronto.ca). Anne-Claude Gingras (gingras@lunenfeld.ca) should be contacted for questions on this dataset
Supplementary files and tracking information
This submission is associated with 3 Supplementary Files (in addition to this README file)
Table 1 describes the composition of this dataset
Table 2 lists all the peptide identification evidence (as per iProphet)
Table 3 lists the SAINTexpress interactions
Internal reference from the Gingras lab ProHits implementation:
Project: P77,
Export version: VS17
SAINT Task ID: 5216
2021-05-12 | MSV000087413 | MassIVE
Project description:This dataset consists of 58 raw MS files and associated peak lists and result files, acquired on a TripleTOF 5600 mass spectrometer operated in Data Dependent Acquisition mode. DDA files were searched through Mascot and Comet, and this deposition lists the identification and SAINT scoring using iProphet.The files are associated with a manuscript submitted for publication by Alerasool et al. that determines the protein-protein and proximity interaction landscape of a subset of transcription factors.
Two separate MassIVE submissions are associated with this dataset: A submission for the AP-MS data a submission for the BioID one.
Contributors: Samples were generated by Nader Alerasool and affinity purification and mass spectrometry was performed by Zhen-Yuan Lin with oversight from Brett Larsen and Anne-Claude Gingras. Analysis was performed by Anne-Claude Gingras, Mikko Taipale and Benjamin L. Piette. Corresponding author: Mikko Taipale (mikko.taipale@utoronto.ca). Anne-Claude Gingras (gingras@lunenfeld.ca) should be contacted for questions on this dataset
Supplementary files and tracking information: This submission is associated with 3 Supplementary Files (in addition to the README file)
Table 1 describes the composition of this dataset
Table 2 lists all the peptide identification evidence (as per iProphet)
Table 3 lists the SAINTexpress interactions
Internal reference from the Gingras lab ProHits implementation:
Project: P77,
Export version: VS18
SAINT Task ID: 5215
2021-05-13 | MSV000087424 | MassIVE
Project description:This dataset consists of 18 raw MS files and associated peak lists and result files, acquired on AB SCIEX 5600 TripleTOF mass spectrometer operated in Data Dependent Acquisition mode.
Samples were generated by Michael Aregger, affinity purification and mass spectrometric acquisition was performed by Zhen-Yuan Lin. Analysis was performed by Anne-Claude Gingras, Cassandra Wong and Zhen-Yuan Lin.
The files are associated with a manuscript submitted for publication by Michael Aregger et al. The main goal of this paper was to systematically map genetic interactions for de novo fatty acid synthesis
Jason Moffat is the corresponding author of the manuscript (j.moffat@utoronto.ca); Anne-Claude Gingras should be contacted for questions on this dataset (gingras@lunenfeld.ca).
This submission is associated with 3 Supplementary Files (in addition to this README file)
Table 1 describes the composition of this dataset
Table 2 lists all the peptide identification evidence (as per iProphet)
Table 3 lists the SAINTexpress interactions
2020-02-25 | MSV000085005 | MassIVE
Project description:This dataset consists of 12 raw MS files and associated peak lists and results files, acquired on AB Sciex TripleTOF 5600 mass spectrometer operated in Data Dependent Acquisition mode.
Samples were generated by Yichao Zhao. Immunoprecipitation and mass spectrometry acquisition was performed by Zhen-Yuan Lin. Analysis was performed by Yichao Zhao, Zhen-Yuan Lin, Anne-Claude Gingras and Daniel Durocher.
The files are associated with a manuscript submitted for publication by Yichao Zhao et al. The main goal of this paper was to identify genes that suppress DNA damage in human cells. This dataset comprehensively maps the interactome of GNB1L using proximity labeling coupled to affinity purification.
Daniel Durocher is the corresponding author of the manuscript (durocher@lunenfeld.ca); Anne-Claude Gingras should be contacted for questions on this dataset (gingras@lunenfeld.ca)
This submission is associated with 3 Supplementary Files (in addition to this README file)
Table 1 describes the composition of this dataset
Table 2 lists all the peptide identification evidence (as per iProphet)
Table 3 lists the SAINTexpress interactions
2023-06-15 | MSV000092177 | MassIVE
Project description:This dataset consists of 12 raw MS files and associated peak lists and results files, acquired on AB Sciex TripleTOF 5600 mass spectrometer operated in Data Dependent Acquisition mode.
Samples were generated by Yichao Zhao. Immunoprecipitation and mass spectrometry acquisition was performed by Zhen-Yuan Lin. Analysis was performed by Yichao Zhao, Zhen-Yuan Lin, Anne-Claude Gingras and Daniel Durocher.
The files are associated with a manuscript submitted for publication by Yichao Zhao et al. The main goal of this paper was to identify genes that suppress DNA damage in human cells. This dataset comprehensively maps the interactome of GNB1L using proximity labeling coupled to affinity purification.
Daniel Durocher is the corresponding author of the manuscript (durocher@lunenfeld.ca); Anne-Claude Gingras should be contacted for questions on this dataset (gingras@lunenfeld.ca)
This submission is associated with 3 Supplementary Files (in addition to this README file)
Table 1 describes the composition of this dataset
Table 2 lists all the peptide identification evidence (as per iProphet)
Table 3 lists the SAINTexpress interactions
2023-06-15 | MSV000092179 | MassIVE
Project description:This dataset consists of 6 raw MS files and associated peak lists and results files, acquired on Orbitrap Elite mass spectrometer operated in Data Dependent Acquisition mode.
Samples were generated by YiQing Lu. BioID and Mass spectrometry acquisition was performed by Zhen-Yuan Lin. Analysis was performed by YiQing Lu, Anne-Claude Gingras, and Daniel Schramek.
The files are associated with a manuscript submitted for publication by YiQing Lu et al. The main goal of this paper was to identify novel interactors of wild-type and p53 mutants commonly found in cancer. This dataset profiles the interactomes of C16orf72 in U2-OS cells.
Daniel Schramek is the corresponding author of the manuscript (schramek@lunenfeld.ca); Anne-Claude Gingras should be contacted for questions on this dataset (gingras@lunenfeld.ca)
This submission is associated with 3 Supplementary Files (in addition to this README file)
Table 1 describes the composition of this dataset
Table 2 lists all the peptide identification evidence (as per iProphet)
Table 3 lists the SAINTexpress interactions
2023-12-11 | MSV000093632 | MassIVE
Project description:This dataset consists of 6 raw MS files and associated peak lists and results files, acquired on Orbitrap Elite mass spectrometer operated in Data Dependent Acquisition mode.
Samples were generated by YiQing Lu. BioID and Mass spectrometry acquisition was performed by Zhen-Yuan Lin. Analysis was performed by YiQing Lu, Anne-Claude Gingras, and Daniel Schramek.
The files are associated with a manuscript submitted for publication by YiQing Lu et al. The main goal of this paper was to identify novel interactors of wild-type and p53 mutants commonly found in cancer. This dataset profiles the interactomes of C16orf72 in HEK293 cells.
D
Daniel Schramek is the corresponding author of the manuscript (schramek@lunenfeld.ca); Anne-Claude Gingras should be contacted for questions on this dataset (gingras@lunenfeld.ca)
This submission is associated with 3 Supplementary Files (in addition to this README file)
Table 1 describes the composition of this dataset
Table 2 lists all the peptide identification evidence (as per iProphet)
Table 3 lists the SAINTexpress interactions
2023-12-11 | MSV000093630 | MassIVE
Project description:This dataset consists of 6 raw MS files and associated peak lists and result files, acquired on an Orbitrap classic or Orbitrap Velos mass spectrometer operated in Data Dependent Acquisition mode.
Samples were generated by Bernard Liu, formerly of the Pawson lab. MassIVE report was performed by Anne-Claude Gingras. The files are associated with a manuscript submitted for publication by Lucian Tomaz et al. that describes the relocalization of Mutated in Colorectal Cancer (MCC) during intestinal cell differentiation.
Dr. Ray Dunn is the corresponding author of the manuscript (ray.dunn@ntu.edu.sg); Anne-Claude Gingras or Bernard Liu (Bernard.a.liu@gmail.com) should be contacted for questions on this submission (gingras@lunenfeld.ca).
This submission is associated with 3 Supplementary Files (in addition to this README file)
Table 1 describes the composition of this dataset
Table 2 lists all the peptide identification evidence (as per iProphet)
Table 3 lists the SAINTexpress interactions
Internal reference from the Gingras lab ProHits implementation:
Project: P17,
Export version: N/A
SAINT Task ID: 5987
2022-04-14 | MSV000089258 | MassIVE
Project description:Rosenthal MassIVE deposition 1:
Rosenthal_Zebrafish_TurboID_P88_SAINT5425_TurboID_injections_2021
SAINT Task ID 5425
This dataset consists of 14 raw MS files and associated peak lists and result files comprising of mRNA injections of the TurboID fused baits.
All samples were acquired on a Thermo Scientific Orbitrap Fusion mass spectrometer operated in Data Dependent Acquisition mode. All samples were prepared and analyzed by Shimon Rosenthal. The files are associated with a manuscript by Rosenthal et al. that establishes protocols for proximity-dependent biotinylation in zebrafish. Anne-Claude Gingras and Ian Scott are the corresponding authors of the manuscript (gingras@lunenfeld.ca; ian.scott@sickkids.ca); Anne-Claude Gingras should be contacted for questions on this dataset (gingras@lunenfeld.ca).
Each MassIVE submission is associated with 5 Supplementary Files (in addition to this README file)
Table 1 describes the composition of this dataset
Table 2 lists all the peptide identification evidence (as per iProphet)
Table 3 lists the SAINTexpress interactions
Internal reference from the Gingras lab ProHits implementation:
Project: P88
Export version: VS4
SAINT Task ID: 5425
2021-05-13 | MSV000087425 | MassIVE
Project description:This dataset consists of 44 raw MS files and associated peak lists and result files, acquired on a Thermo Orbitrap Velos mass spectrometer operated in Data Dependent Acquisition mode. Samples were generated by Nicole St-Denis and affinity purification and mass spectrometric acquisition was performed by Zhen-Yuan Lin. Analysis was performed by Anne-Claude Gingras and Nicole St-Denis. The files are associated with a manuscript submitted for publication by Ulengin-Talkish et al. that studies the localization and interactions of the calcineurin isoform CNAbeta1, and uncovers new interactions with phosphatidylinositol 4-kinase (PI4KA). Note that some of the control experiments were already published in PMID: 27880917 and 25659891. Martha Cyert is the corresponding author of the manuscript (mcyert@stanford.edu); Anne-Claude Gingras should be contacted for questions on this dataset (gingras@lunenfeld.ca).
This submission is associated with 3 Supplementary Files (in addition to this README file)
Table 1 describes the composition of this dataset
Table 2 lists all the peptide identification evidence (as per iProphet)
Table 3 lists the SAINTexpress interactions
2021-06-19 | MSV000087664 | MassIVE