| A | B | C | D | E | F | G | H | I | J | K | L | M | N | O | P | Q | R | S | T | U | V | W | X | Y | Z | |
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1 | Accession | Title | # Downloads | Annotation Folder | Current Lead Annotator contact | Credits [Name (Affiliation), contributors separated by semicolon] | Comment | |||||||||||||||||||
2 | PXD004732 | ProteomeTools | 104608 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD004732 | None | |||||||||||||||||||||
3 | PXD000561 | A draft map of the human proteome | 97948 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD000561 | None | |||||||||||||||||||||
4 | PXD002815 | A human interactome in three quantitative dimensions organized by stoichiometries and abundances | 50187 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD002815 | None | |||||||||||||||||||||
5 | PXD005336 | Target Landscape of Clinical Kinase Inhibitors | 46021 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD005336 | None | |||||||||||||||||||||
6 | PXD004452 | HeLa proteome of 12,250 protein-coding genes | 38148 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD004452 | None | |||||||||||||||||||||
7 | PXD010154 | A deep proteome and transcriptome abundance atlas of 29 healthy human tissues | 37040 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD010154 | None | |||||||||||||||||||||
8 | PXD000865 | Mass spectrometry based draft of the human proteome | 29908 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD000865 | None | |||||||||||||||||||||
9 | PXD010595 | ProteomeTools – Part II | 26210 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD010595 | None | |||||||||||||||||||||
10 | PXD008840 | A proteomic landscape of diffuse-type gastric cancer | 24881 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD008840 | None | |||||||||||||||||||||
11 | PXD005130 | Extracellular Matrix Proteomics Identifies Molecular Signature of Atherosclerotic Plaques from Symptomatic Patients | 19620 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD005130 | None | |||||||||||||||||||||
12 | PXD004242 | Plasma Proteome Profiling Reveals the Effects of Weight Loss on the Apolipoprotein Family and Systemic Inflammation Status | 19439 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD004242 | None | |||||||||||||||||||||
13 | PXD005354 | Pharmacoproteomic characterisation of human colon and rectal cancer - CRC65 Full Proteomes | 19111 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD005354 | None | |||||||||||||||||||||
14 | PXD005946 | Global Proteome Analysis of the NCI-60 Cell Line Panel, part 3 | 17832 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD005946 | None | |||||||||||||||||||||
15 | PXD001406 | Impact of Regulatory Variation from RNA to Protein | 17559 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD001406 | None | |||||||||||||||||||||
16 | PXD008750 | Proteogenomic Analysis of Medulloblastoma | 15225 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD008750 | None | |||||||||||||||||||||
17 | PXD006512 | Proteome Landscape of Early Stage Hepatocellular Carcinoma Identifies Proteomic Subtypes and New Therapeutic Targets | 15018 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD006512 | None | |||||||||||||||||||||
18 | PXD009602 | Mapping the HLA ligandome of Colorectal Cancer Reveals an Imprint of Malignant Cell Transformation | 14829 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD009602 | None | |||||||||||||||||||||
19 | PXD000065 | HiRIEF deep proteomics of A431 human vulvar cancer cell line and N2A mouse neuroblastoma cell line | 13169 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD000065 | None | |||||||||||||||||||||
20 | PXD006537 | Large Cohort Proteomics Profiling of Human Brain Cortex | 13636 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD006537 | None | |||||||||||||||||||||
21 | PXD001796 | Integration of transcriptome and proteome annotation in the naive Ixodes ricinus midgut with genome sequencing | 11520 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD001796 | None | |||||||||||||||||||||
22 | PXD000138 | Synthetic (Phospho)Peptide Library | 11505 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD000138 | None | |||||||||||||||||||||
23 | PXD000612 | Ultra-deep human phosphoproteome reveals different regulatory nature of Tyr and Ser/Thr-based signaling | 11116 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD000612 | None | |||||||||||||||||||||
24 | PXD000953 | The Pan-Human Library: A repository of assays to quantify 10 000 proteins by SWATH-MS | 11028 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD000953 | None | |||||||||||||||||||||
25 | PXD013231 | Analysis of 1,508 plasma samples of the DiOGenes study - Robust, single shot capillary flow data-independent acquisition to decipher proteomic profiles of weight loss and maintenance | 10606 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD013231 | None | |||||||||||||||||||||
26 | PXD007048 | Cell-specific proteome analyses of human bone marrow upon aging. | 10065 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD007048 | None | |||||||||||||||||||||
27 | PXD002952 | LFQbench enables a multi-centered benchmark study demonstrating robust proteomic label-free quantification | 9952 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD002952 | None | |||||||||||||||||||||
28 | PXD006675 | Region and cell-type resolved quantitative proteomic map of the human heart and its application to atrial fibrillation | 9856 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD006675 | None | |||||||||||||||||||||
29 | PXD002322 | Panorama of ancient metazoan macromolecular complexes: Homo sapiens | 9504 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD002322 | None | |||||||||||||||||||||
30 | PXD007635 | The immunopeptidomic landscape of ovarian carcinoma | 9450 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD007635 | None | |||||||||||||||||||||
31 | PXD006607 | Proteomic analysis of human Medulloblastoma reveals distinct activated pathways between subgroups | 10561 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD006607 | None | |||||||||||||||||||||
32 | PRD000721 | Phosphoproteomics of leaf growth in maize | 8913 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PRD000721 | None | |||||||||||||||||||||
33 | PXD006895 | SubCellBarcode: Scalable proteome-wide mapping of protein localization and relocalization | 8749 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD006895 | None | |||||||||||||||||||||
34 | PXD002319 | Panorama of ancient metazoan macromolecular complexes: Caenorhabditis elegans | 8601 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD002319 | None | |||||||||||||||||||||
35 | PXD004397 | Normal human mitral valve proteome: a preliminary investigation by gel-based and gel-free proteomic approaches | 8462 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD004397 | None | |||||||||||||||||||||
36 | PRD000066 | Quantitative Proteomics Analysis of the Secretory Pathway | 8459 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PRD000066 | None | |||||||||||||||||||||
37 | PXD001250 | Cell-type and brain-region resolved mouse brain proteome | 8411 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD001250 | None | |||||||||||||||||||||
38 | PXD002255 | Enrichment strategy for searching missing protein | 8411 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD002255 | None | |||||||||||||||||||||
39 | PXD005353 | Pharmacoproteomic characterisation of human colon and rectal cancer - CPTAC Full Proteomes | 8164 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD005353 | None | |||||||||||||||||||||
40 | PXD008675 | Gut Microbial Ecosystem Multiomics in Inflammatory Bowel Disease | 8158 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD008675 | None | |||||||||||||||||||||
41 | PXD005520 | Human Plasma Gel Filtration Fractions MS Data | 7697 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD005520 | None | |||||||||||||||||||||
42 | PXD006003 | Proteomics of melanoma response to immunotherapy reveals dependence on mitochondrial function | 8011 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD006003 | None | |||||||||||||||||||||
43 | PXD004894 | Direct identification of clinically relevant neoepitopes presented on native human melanoma tissue by mass spectrometry | 7013 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD004894 | None | |||||||||||||||||||||
44 | PXD000279 | MaxLFQ label-free quantification algorithm benchmark datasets | 6856 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD000279 | None | |||||||||||||||||||||
45 | PXD006291 | HiRIEFII proteomics and proteogenomics of A431 cells and five histologically normal tissues | 6815 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD006291 | None | |||||||||||||||||||||
46 | PXD002870 | Protein Turnover Rates in Normal and Hypertrophy Mouse Hearts | 6635 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD002870 | None | |||||||||||||||||||||
47 | PXD000117 | Human exosome proteome | 6455 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD000117 | None | |||||||||||||||||||||
48 | PXD000815 | Breast cancer tumors | 6452 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD000815 | None | |||||||||||||||||||||
49 | PXD010271 | Individual variability of protein expression in human tissues | 6381 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD010271 | None | |||||||||||||||||||||
50 | PXD005940 | Global Proteome Analysis of the NCI-60 Cell Line Panel | 6141 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD005940 | None | |||||||||||||||||||||
51 | PXD009348 | Plasma proteome profiling reveals global and specific changes of inflammatory and lipid homeostasis markers after bariatric surgery | 6043 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD009348 | None | |||||||||||||||||||||
52 | PXD003903 | HipSci project pilot submission for 18 IPS cell lines | 6025 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD003903 | None | |||||||||||||||||||||
53 | PXD002486 | Target identification for 11q13 amplicon | 6018 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD002486 | None | |||||||||||||||||||||
54 | PXD004785 | Proteogenomics reanalysis of human testis data | 5912 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD004785 | None | |||||||||||||||||||||
55 | PXD006201 | Characterisation of protein ubiquitination using UbiSite technology | 5903 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD006201 | None | |||||||||||||||||||||
56 | PXD005235 | Genomic determinants of protein abundance variation in colorectal cancer cell lines | 5852 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD005235 | None | |||||||||||||||||||||
57 | PXD004023 | The immunopeptidome presents a selected portion of the human genome with distinct features to CD8 T cells | 5769 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD004023 | None | |||||||||||||||||||||
58 | PXD010429 | Proteogenomic Landscape of Squamous Cell Lung Cancer 2: Tandem Mass Tag Datasets | 5579 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD010429 | None | |||||||||||||||||||||
59 | PXD004682 | Comparison of Lung Cancer Proteome Profiles 1: Label Free Quantification | 5573 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD004682 | None | |||||||||||||||||||||
60 | PXD005445 | CEGS Proteomics | 5517 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD005445 | None | |||||||||||||||||||||
61 | PXD003469 | Functional Proteogenomics Reveals Biomarkers and Therapeutic Targets in Lymphomas | 5282 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD003469 | None | |||||||||||||||||||||
62 | PXD003271 | Proteomic analysis of clear cell renal cell carcinoma tissue versus matched normal kidney tissue | 5168 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD003271 | None | |||||||||||||||||||||
63 | PXD004352 | Social Network Architecture of Human Immune Cells Unveiled by Quantitative Proteomics | 5152 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD004352 | None | |||||||||||||||||||||
64 | PXD002619 | Proteomic maps of breast cancer subtypes | 5061 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD002619 | None | |||||||||||||||||||||
65 | PXD007160 | Global quantitative analysis of the human brain proteome in Alzheimer’s and Parkinson’s Disease | 4949 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD007160 | None | |||||||||||||||||||||
66 | PXD006833 | Human bladder,colon,kidney,liver cancer LC MS/MS | 4932 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD006833 | None | |||||||||||||||||||||
67 | PXD006122 | Proteomics on post-mortem human brain tissue of patients with Alzheimer`s, Parkinson`s and Lewy body dementias. | 4909 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD006122 | None | |||||||||||||||||||||
68 | PXD001471 | Proteomic analysis of cellular soluble proteins from human bronchial smooth muscle cells by combining nondenaturing micro 2DE and quantitative LC-MS/MS: Preparation of more than 4000 native protein maps | 4870 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD001471 | None | |||||||||||||||||||||
69 | PXD001212 | A mammalian transcription factor-specific peptide repository for targeted proteomics | 4827 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD001212 | None | |||||||||||||||||||||
70 | PXD002854 | Plasma proteome profiling to assess human health and disease | 4734 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD002854 | None | |||||||||||||||||||||
71 | PXD003907 | Human Fecal Gut Microbiome proteomics | 4694 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD003907 | None | |||||||||||||||||||||
72 | PXD000197 | AKT2 interacting proteins_ MBP- and MAP-TAPs | 4669 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD000197 | None | |||||||||||||||||||||
73 | PXD008222 | The Proteomic Landscape of Triple-Negative Breast Cancer | 4547 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD008222 | None | |||||||||||||||||||||
74 | PXD002081 | CPTAC, TCGA Cancer Proteome Study of Colorectal Tissue: Proteome, VU, part 2 | 4456 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD002081 | None | |||||||||||||||||||||
75 | PXD000948 | Macro-porous Reversed Phase Separation of Proteins Combined with Reversed Phase Separation of Phosphopeptides and Tandem Mass Spectrometry for Profiling the Phosphoproteome of MDA-MB-231 cells | 4433 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD000948 | None | |||||||||||||||||||||
76 | PXD002080 | CPTAC, TCGA Cancer Proteome Study of Colorectal Tissue: Proteome, VU, part 1 | 4377 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD002080 | None | |||||||||||||||||||||
77 | PXD002395 | 11 human cell lines | 4357 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD002395 | None | |||||||||||||||||||||
78 | PXD010899 | Plasma Hirief | 4330 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD010899 | None | |||||||||||||||||||||
79 | PXD001064 | Quantitative variability of 342 plasma proteins in a human twin population | 4257 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD001064 | None | |||||||||||||||||||||
80 | PXD002082 | CPTAC, TCGA Cancer Proteome Study of Colorectal Tissue: Proteome, VU, part 3 | 4240 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD002082 | None | |||||||||||||||||||||
81 | PXD001020 | Redox-state of pentraxin 3 as a novel biomarker for resolution of inflammation and survival in sepsis | 4204 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD001020 | None | |||||||||||||||||||||
82 | PXD002801 | Defining the effects of genetic variation on a proteome-wide scale | 4177 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD002801 | None | |||||||||||||||||||||
83 | PXD006932 | Performance evaluation of the Q Exactive HF-X for shotgun proteomics | 4164 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD006932 | None | |||||||||||||||||||||
84 | PXD002086 | CPTAC, TCGA Cancer Proteome Study of Colorectal Tissue: Proteome, VU, part 7 | 3991 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD002086 | None | |||||||||||||||||||||
85 | PXD009270 | Comprehensive analysis of proteomic landscape remodeling during carcinogenesis | 3975 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD009270 | None | |||||||||||||||||||||
86 | PXD004193 | A compendium of RNA-binding proteins that regulate microRNA biogenesis | 3914 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD004193 | None | |||||||||||||||||||||
87 | PXD000321 | Signatures for Mass Spectrometry Data Quality, part 2 of 5 | 3908 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD000321 | None | |||||||||||||||||||||
88 | PXD002087 | CPTAC, TCGA Cancer Proteome Study of Colorectal Tissue: Proteome, VU, part 8 | 3841 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD002087 | None | |||||||||||||||||||||
89 | PXD002088 | CPTAC, TCGA Cancer Proteome Study of Colorectal Tissue: Proteome, VU, part 9 | 3813 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD002088 | None | |||||||||||||||||||||
90 | PXD003133 | HEK293 Quality Control example dataset | 3727 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD003133 | None | |||||||||||||||||||||
91 | PRD000644 | Protemic analysis of human hippocampus shows differential protein expression in the different hippocampal subfields | 3712 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PRD000644 | None | |||||||||||||||||||||
92 | PXD005573 | Optimization of Experimental Parameters in Data-Independent Mass Spectrometry Significantly Increases Depth and Reproducibility of Results | 3676 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD005573 | None | |||||||||||||||||||||
93 | PXD002412 | A method to characterize antibody selectivity immunoprecipitation | 3671 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD002412 | None | |||||||||||||||||||||
94 | PXD005554 | Analysis of ECM-enriched samples using different methods | 3665 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD005554 | None | |||||||||||||||||||||
95 | PXD002084 | CPTAC, TCGA Cancer Proteome Study of Colorectal Tissue: Proteome, VU, part 5 | 3639 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD002084 | None | |||||||||||||||||||||
96 | PXD010557 | HipSci: the iPSC proteomic compendium | 3643 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD010557 | None | |||||||||||||||||||||
97 | PXD002049 | CPTAC proteomic analysis of TCGA colon and rectal carcinomas using standard and customized databases, part 9 | 3567 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD002049 | None | |||||||||||||||||||||
98 | PXD004896 | N-terminomics Proteogenomics | 3560 | https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects/PXD004896 | None | |||||||||||||||||||||
99 | ||||||||||||||||||||||||||
100 |