Mass Spectrometry Data on ExperimentHub

[Up] [Top]

Documentation for package ‘MsDataHub’ version 1.11.5

Help Pages

20171016_POOL_POS_1_105-134.mzML AB Sciex LC-MS data files
20171016_POOL_POS_3_105-134.mzML AB Sciex LC-MS data files
Ai2025 Ai et al (2025) single-cell data
Ai2025_aCMs_report.tsv Ai et al (2025) single-cell data
Ai2025_iCMs_report.tsv Ai et al (2025) single-cell data
benchmarkingDIA DIA benchmarking data
benchmarkingDIA.tsv DIA benchmarking data
Boekweg2022 Boekweg et al (2022) SCP, bulk and identification data
cdf MS data in CDF format
CEMS CE-MS data files
CEMS_10ppm.mzML CE-MS data files
CEMS_25ppm.mzML CE-MS data files
Christoforou_2016_TMT_DDA_FragPipe_Fraction1_psm.tsv Misc DDA and DIA datasets
Christoforou_2016_TMT_DDA_FragPipe_Fraction2_psm.tsv Misc DDA and DIA datasets
Christoforou_2016_TMT_DDA_MaxQuant_evidence.txt Misc DDA and DIA datasets
Christoforou_2016_TMT_DDA_sage_results.sage.tsv Misc DDA and DIA datasets
Christoforou_2016_TMT_DDA_sage_tmt.tsv Misc DDA and DIA datasets
contaminatants Contaminant and cRAP databases
cptac CPTAC label-free data
cptac_a_b_c_peptides.txt CPTAC label-free data
cptac_a_b_peptides.txt CPTAC label-free data
cptac_peptides.txt CPTAC label-free data
cRAP Contaminant and cRAP databases
crap Contaminant and cRAP databases
crap_ccp.fasta Contaminant and cRAP databases
crap_gpm.fasta Contaminant and cRAP databases
crap_maxquant.fasta.gz Contaminant and cRAP databases
D19_15um30cm_SC1.mzML Boekweg et al (2022) SCP, bulk and identification data
D19_15um30cm_SC1.sage.tsv Boekweg et al (2022) SCP, bulk and identification data
Derks_2022_plex_DIA_DIANN_report_subset.tsv Misc DDA and DIA datasets
fdms3tmt11 MS3 SPS TMT data
fdms3tmt11.rda MS3 SPS TMT data
FTICR FTICR-MS data files
HAM004_641fE_14.11.07..Exp1.extracted.mzML FTICR-MS data files
HAM004_641fE_14.11.07..Exp2.extracted.mzML FTICR-MS data files
HAM004_641fE_14.11.07..Exp3.extracted.mzML FTICR-MS data files
HAM004_641fE_14.11.07..Exp4.extracted.mzML FTICR-MS data files
HAM004_641fE_14.11.07..Exp5.extracted.mzML FTICR-MS data files
HAM005_641fE_14.11.07..Exp1.extracted.mzML FTICR-MS data files
HAM005_641fE_14.11.07..Exp2.extracted.mzML FTICR-MS data files
HAM005_641fE_14.11.07..Exp3.extracted.mzML FTICR-MS data files
HAM005_641fE_14.11.07..Exp4.extracted.mzML FTICR-MS data files
HAM005_641fE_14.11.07..Exp5.extracted.mzML FTICR-MS data files
ko15.CDF MS data in CDF format
miscDdaDia Misc DDA and DIA datasets
MRM Multiple Reaction Monitoring mode (MRM) test files
MRM.standmix.5.mzML Multiple Reaction Monitoring mode (MRM) test files
MS3TMT MS3 SPS TMT data
MS3TMT10_01022016_32917-33481.mzML.gz MS3 SPS TMT data
MS3TMT10_01022016_32917.33481.mzML.gz MS3 SPS TMT data
MS3TMT11.mzML MS3 SPS TMT data
MsDataHub All MsDataHub datasets
OR11_20160122_PG_HeLa_CVB3_CT_A.mzML Boekweg et al (2022) SCP, bulk and identification data
OR11_20160122_PG_HeLa_CVB3_CT_A.sage.tsv Boekweg et al (2022) SCP, bulk and identification data
PestMix1_DDA.mzML Triple TOF SWATH Data
PestMix1_SWATH.mzML Triple TOF SWATH Data
PXD000001 PXD000001 Proteomics Data
Report.Derks2022.plexDIA Derks 2022 plexDIA data
Report.Derks2022.plexDIA.tsv Derks 2022 plexDIA data
sciex AB Sciex LC-MS data files
TMT_Erwinia_1uLSike_Top10HCD_isol2_45stepped_60min_01-20141210.mzid PXD000001 Proteomics Data
TMT_Erwinia_1uLSike_Top10HCD_isol2_45stepped_60min_01-20141210.mzML.gz PXD000001 Proteomics Data
TMT_Erwinia_1uLSike_Top10HCD_isol2_45stepped_60min_01.20141210.mzid PXD000001 Proteomics Data
TMT_Erwinia_1uLSike_Top10HCD_isol2_45stepped_60min_01.20141210.mzML.gz PXD000001 Proteomics Data
TripleTOF Triple TOF SWATH Data
vanPuyvelde_2022_LFQ_DDA_FragPipe_A_1_psm.tsv Misc DDA and DIA datasets
vanPuyvelde_2022_LFQ_DDA_FragPipe_A_2_psm.tsv Misc DDA and DIA datasets
vanPuyvelde_2022_LFQ_DDA_FragPipe_A_3_psm.tsv Misc DDA and DIA datasets
vanPuyvelde_2022_LFQ_DDA_FragPipe_B_1_psm.tsv Misc DDA and DIA datasets
vanPuyvelde_2022_LFQ_DDA_FragPipe_B_2_psm.tsv Misc DDA and DIA datasets
vanPuyvelde_2022_LFQ_DDA_FragPipe_B_3_psm.tsv Misc DDA and DIA datasets
vanPuyvelde_2022_LFQ_DDA_MaxQuant_evidence.txt Misc DDA and DIA datasets
vanPuyvelde_2022_LFQ_DDA_MaxQuant_peptides.txt Misc DDA and DIA datasets
vanPuyvelde_2022_LFQ_DDA_MaxQuant_proteinGroups.txt Misc DDA and DIA datasets
vanPuyvelde_2022_LFQ_DDA_PEAKS_LFQ_report.csv Misc DDA and DIA datasets
vanPuyvelde_2022_LFQ_DDA_sage_lfq.tsv Misc DDA and DIA datasets
vanPuyvelde_2022_LFQ_DDA_sage_results.sage.tsv Misc DDA and DIA datasets
vanPuyvelde_2022_LFQ_DIA_DIANN_report.parquet Misc DDA and DIA datasets
vanPuyvelde_2022_LFQ_DIA_DIANN_report.tsv Misc DDA and DIA datasets
X20171016_POOL_POS_1_105.134.mzML AB Sciex LC-MS data files
X20171016_POOL_POS_3_105.134.mzML AB Sciex LC-MS data files