Zhang_DDAnoDE_APMS_noDE_P63_6600
Ontology highlight
ABSTRACT:
INSTRUMENT(S): TripleTOF 6600
ORGANISM(S): Homo Sapiens (ncbitaxon:9606)
SUBMITTER: 
Anne-Claude Gingras
PROVIDER: MSV000088854 | MassIVE | Thu Feb 17 08:37:00 GMT 2022
SECONDARY ACCESSION(S): PXD031745
REPOSITORIES: MassIVE
Similar Datasets
Project description:This dataset consists of 9 raw MS files and associated peak lists and results files, acquired on AB Sciex TripleTOF 6600 mass spectrometer operated in Data Independent Acquisition mode.
Samples were generated by Dushyandi Rajendran and Shen Zhang. Mass spectrometry acquisition was performed by Shen Zhang. Analysis was performed by Brett Larsen, Ji-Young Youn, Anne-Claude Gingras, and Shen Zhang.
The files are associated with a manuscript submitted for publication by Shen Zhang et al. The main goal of this paper was to further optimize a no dynamic exclusion (noDE) strategy for analysis of protein-protein interactions. This dataset presents a noDE strategy which identifies more high confidence protein interactors than traditional data-dependent acquisition (DDA) with DE and data-independent acquisition (DIA) approaches.
Anne-Claude Gingras is the corresponding author of the manuscript (gingras@lunenfeld.ca); Anne-Claude Gingras should be contacted for questions on this dataset (gingras@lunenfeld.ca)
2022-02-17 | MSV000088855 | MassIVE
Project description:This dataset consists of 9 raw MS files and associated peak lists and results files, acquired on AB Sciex TripleTOF 6600 mass spectrometer operated in Data Dependent Acquisition mode.
Samples were generated by Dushyandi Rajendran and Shen Zhang. Mass spectrometry acquisition was performed by Shen Zhang. Analysis was performed by Brett Larsen, Ji-Young Youn, Anne-Claude Gingras, and Shen Zhang.
The files are associated with a manuscript submitted for publication by Shen Zhang et al. The main goal of this paper was to further optimize a no dynamic exclusion (noDE) strategy for analysis of protein-protein interactions. This dataset presents a noDE strategy which identifies more high confidence protein interactors than traditional data-dependent acquisition (DDA) with DE and data-independent acquisition (DIA) approaches.
Anne-Claude Gingras is the corresponding author of the manuscript (gingras@lunenfeld.ca); Anne-Claude Gingras should be contacted for questions on this dataset (gingras@lunenfeld.ca)
2022-02-17 | MSV000088853 | MassIVE
Project description:This dataset consists of 18 raw MS files and associated peak lists and results files, acquired on AB Sciex TripleTOF 6600 mass spectrometer operated in Data Dependent Acquisition mode.
Mass spectrometry acquisition was performed by Shen Zhang. Analysis was performed by Brett Larsen, Anne-Claude Gingras, and Shen Zhang.
The files are associated with a manuscript submitted for publication by Shen Zhang et al. The main goal of this paper was to further optimize a no dynamic exclusion (noDE) strategy for analysis of protein-protein interactions. This dataset presents a noDE strategy which identifies more high confidence protein interactors than traditional data-dependent acquisition (DDA) with DE and data-independent acquisition (DIA) approaches.
Anne-Claude Gingras is the corresponding author of the manuscript (gingras@lunenfeld.ca); Anne-Claude Gingras should be contacted for questions on this dataset (gingras@lunenfeld.ca)
2022-02-17 | MSV000088852 | MassIVE
Project description:This dataset consists of 10 raw MS files and associated peak lists and results files, acquired on AB Sciex TripleTOF 6600 mass spectrometer operated in Data Dependent Acquisition mode.
Samples were generated by Cassandra Wong. Mass spectrometry acquisition was performed by Cassandra Wong and Shen Zhang. Analysis was performed by Brett Larsen, Karen Colwill, Anne-Claude Gingras, Cassandra Wong, and Shen Zhang.
The files are associated with a manuscript submitted for publication by Shen Zhang et al. The main goal of this paper was to further optimize a no dynamic exclusion (noDE) strategy for analysis of protein-protein interactions. This dataset presents a noDE strategy which identifies more high confidence protein interactors than traditional data-dependent acquisition (DDA) with DE and data-independent acquisition (DIA) approaches.
Anne-Claude Gingras is the corresponding author of the manuscript (gingras@lunenfeld.ca); Anne-Claude Gingras should be contacted for questions on this dataset (gingras@lunenfeld.ca)
2022-02-17 | MSV000088856 | MassIVE
Project description:This dataset consists of 10 raw MS files and associated peak lists and results files, acquired on AB Sciex TripleTOF 6600 mass spectrometer operated in Data Independent Acquisition mode.
Samples were generated by Cassandra Wong. Mass spectrometry acquisition was performed by Cassandra Wong and Shen Zhang. Analysis was performed by Brett Larsen, Karen Colwill, Anne-Claude Gingras, Cassandra Wong, and Shen Zhang.
The files are associated with a manuscript submitted for publication by Shen Zhang et al. The main goal of this paper was to further optimize a no dynamic exclusion (noDE) strategy for analysis of protein-protein interactions. This dataset presents a noDE strategy which identifies more high confidence protein interactors than traditional data-dependent acquisition (DDA) with DE and data-independent acquisition (DIA) approaches.
Anne-Claude Gingras is the corresponding author of the manuscript (gingras@lunenfeld.ca); Anne-Claude Gingras should be contacted for questions on this dataset (gingras@lunenfeld.ca)
2022-02-18 | MSV000088862 | MassIVE
Project description:This dataset consists of 10 raw MS files and associated peak lists and results files, acquired on AB Sciex TripleTOF 6600 mass spectrometer operated in Data Dependent Acquisition mode.
Samples were generated by Cassandra Wong. Mass spectrometry acquisition was performed by Shen Zhang. Analysis was performed by Brett Larsen, Karen Colwill, Anne-Claude Gingras, Cassandra Wong, and Shen Zhang.
The files are associated with a manuscript submitted for publication by Shen Zhang et al. The main goal of this paper was to further optimize a no dynamic exclusion (noDE) strategy for analysis of protein-protein interactions. This dataset presents a noDE strategy which identifies more high confidence protein interactors than traditional data-dependent acquisition (DDA) with DE and data-independent acquisition (DIA) approaches.
Anne-Claude Gingras is the corresponding author of the manuscript (gingras@lunenfeld.ca); Anne-Claude Gingras should be contacted for questions on this dataset (gingras@lunenfeld.ca)
2022-02-17 | MSV000088858 | MassIVE
Project description:This dataset consists of 4 raw MS files and associated peak lists and results files, acquired on an AB-SCIEX mass spectrometer operated in Data Dependent Acquisition mode. Samples were generated by the Cowen lab and affinity purification and mass spectrometric acquisition was performed by Zhen-Yuan Lin. Analysis was performed by Anne-Claude Gingras and Cassandra Wong. The files are associated with a manuscript by co-first authors Li, Zhang, Veri, Iyer, Lash, Xue et al. The co-corresponding authors are Chad Myers (chadm@umn.edu) and Leah Cowen (leah.cowen@utoronto.ca). Anne-Claude Gingras should be contacted for questions on this dataset (gingras@lunenfeld.ca).
2021-10-08 | MSV000088204 | MassIVE
Project description:A
This dataset consists of 24 raw MS files, acquired on Orbitrap Fusion Lumos Tribrid mass spectrometer operated in Data Dependent Acquisition mode.
B
Mouse samples were generated by Thomas Gonatopoulos-Pournatzis. Proteomics sample preparation and mass spectrometric acquisition was performed by Shen Zhang. Analysis was performed by Shen Zhang and Robert J. Weatheritt.
C
The files are associated with a manuscript submitted for publication by Thomas Gonatopoulos-Pournatzis et al. The main goal of this paper was to reveal a critical role for alternative splicing in the functional specialization of the translational machinery, and further uncover an autism-disrupted mechanism by which microexons reprogram the synaptic proteome to control neuronal activity and higher-order cognitive functions.
D
Benjamin J. Blencowe (b.blencowe@utoronto.ca), Sabine P. Cordes (cordes@lunenfeld.ca) and Thomas Gonatopoulos-Pournatzis (thomas.gonatopoulos@utoronto.ca) are the corresponding authors of the manuscript; Anne-Claude Gingras should be contacted for questions on this dataset (gingras@lunenfeld.ca).
This submission is associated with 2 Supplementary Files (in addition to this README file)
Table 1 describes the composition of this dataset
Table 2 lists all the protein and peptide identification evidence
2019-12-04 | MSV000084658 | MassIVE
Project description:This dataset consists of 22 raw MS files and associated peak lists and result files, acquired on Velos Orbitrap and TripleTOF mass spectrometers operated in Data Dependent Acquisition mode. The AJUBA construct and cell line were generated by Bhavisha Rathod, with mass spectrometric acquisition by Zhen-Yuan Lin. Data analysis was performed by Anne-Claude Gingras. The files are associated with a manuscript submitted for publication by Loganathan et al. that describes the identification of the NOTCH pathway as a critical regulator of Squamous Cell Carcinoma. 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).
2019-02-05 | MSV000083405 | MassIVE
Project description:This dataset consists of 6 raw MS files, acquired on Thermo Fusion Lumos mass spectrometer operated in Data Dependent Acquisition mode.
Samples were generated by Keith Wong. Sample processing and mass spectrometry acquisition was performed by Cassandra Wong. Data analysis was performed by Cassandra Wong, Shen Zhang and Keith Wong.
The files are associated with a manuscript submitted for publication by Mark Mabanglo et al. The main goal of this paper was to demonstrate the use of novel imipridone derived compounds to induce selective cancer cell lethality via dysregulation of ClpP in cancer cells.
Walid Houry is the corresponding author of the manuscript (walid.houry@utoronto.ca); Anne-Claude Gingras should be contacted for questions on this dataset (gingras@lunenfeld.ca)
This submission is associated with 4 Supplementary Files (in addition to this README file)
Metadata describes the composition of this dataset.
Peptides lists all peptide identification evidence.
Proteins lists all protein identification evidence.
Pvalue_peptides lists all p-values calculated between conditions for peptides.
2022-06-13 | MSV000089642 | MassIVE