Mass spectra for Deep learning algorithms, spectra knowleagebase

[ypriverol]

Here is a list of interesting projects that would be nice to have identified because they have been previously used in deep-learning training algorithms:

DDA datasets:

• [ ] PXD008034: 12
• [ ] PXD000269: 79
• [ ] PXD024364: Global detection of human variants and isoforms by deep proteome sequencing
• [ ] PXD004977: 42
• [ ] PXD001608: 60
• [ ] PXD002549: 89
• [ ] PXD002452: 179
• [ ] PXD001636: 60
• [ ] PXD004087: 72
• [ ] PXD001695: 234
• [ ] PXD002785: 22
• [ ] PXD000955: 196
• [ ] PXD003472: 36
• [ ] PXD001865: 144
• [ ] PXD002607: 36 (De novo PTM Peaks)
• [ ] PXD002908: 40
• [ ] MSV000085230
• [ ] PXD031812: 32
• [ ] PXD003002: 24
• [ ] PXD004276: 136
• [ ] PXD003189: 64
• [ ] PXD003583: 30
• [ ] PXD004321: 42
• [ ] PXD005126: 45
• [ ] PXD002912: 90

DeepMass Manuscript:

• [ ] PXD002908: 40
• [ ] PXD002912: 90
• [ ] PXD003668: 101
• [ ] PXD001608: 60
• [ ] PXD004977: 42
• [ ] PXD002549: 89
• [ ] PXD002452: 179
• [ ] PXD000955: 196
• [ ] PXD001865: 144
• [ ] PXD001695: 234
• [ ] PXD026436: 3
• [ ] PXD039809: 36
• [ ] PXD019483: 128

Prosit:

• [ ] PXD010871: 8 (This dataset do not contains spectra DDA)
• [ ] PXD034056: 6 (This dataset do not contains spectra)
• [ ] PXD004732: 1460
• [ ] PXD010595: 888
• [ ] PXD021013: 1865

ProteomeTools:

• [ ] PXD009449: 100
• [ ] PXD000138: 193

Ion mobility:

• [ ] PXD019086: 16

PTMs - ubiquitinome:

• [ ] PXD019854: 296

 PTMs - phospho:

• [ ] PXD019347: 36
• [ ] PXD021318: 8 (timsTOFF)
• [ ] PXD029545: 18
• [ ] PXD026805: 24
• [ ] PXD026824: 18

DIA- Pposphoproteomics:

• [ ] PXD014525: 426
• [ ] PXD017476: 20

DIA:

• [ ] PXD010012: 9 (timsTOFF)

 Single cell dataset:

• [ ] PXD019958: 9

HLA Datasets:

• [ ] PXD015489: 18
• [ ] MSV000084442
• [ ] PXD031709: 9
• [ ] PXD006939: 121
• [ ] PXD021398: 566
• [ ] MSV000087743
• [ ] MSV000084442
• [ ] MSV000084172
• [ ] PXD005231: 41
• [ ] PXD020011: 239
• [ ] PXD012308: 131
• [ ] PXD015408: 9
• [ ] PXD009925: 30
• [ ] PXD033868: 15
• [ ] PXD004894: 140
• [ ] PXD011628: 38
• [ ] PXD000394: 41
• [ ] PXD003790: 60
• [ ] PXD009738: 66
• [ ] PXD009531: 85
• [ ] PXD007635: 275
• [ ] PXD025655: 13 (https://www.mcponline.org/action/showPdf?pii=S1535-9476%2821%2900096-7)
• [ ] PXD017448: 6
• [ ] PXD013649: 85
• [ ] MSV000080527

Tumor, Cell line dataset:

• [ ] PXD003668: 101
• [ ] PXD004452: 1023

 Big datasets, tissue, species proteome:

• [ ] PXD010154: 1809
• [ ] PXD001250: 270
• [ ] PXD005485: 1104
• [ ] PXD014877: 366
• [ ] PXD005041: 48