Update README.md
Browse files
README.md
CHANGED
|
@@ -6,7 +6,7 @@ tags:
|
|
| 6 |
- biology
|
| 7 |
- mass-spectrometry
|
| 8 |
- proteomics
|
| 9 |
-
- de-novo-sequencing
|
| 10 |
size_categories:
|
| 11 |
- 1M<n<10M
|
| 12 |
configs:
|
|
@@ -69,9 +69,8 @@ dataset_info:
|
|
| 69 |
|
| 70 |
## Overview
|
| 71 |
|
| 72 |
-
|
| 73 |
-
|
| 74 |
-
Curated by Jeroen Van Goey (j.vangoey@instadeep.com).
|
| 75 |
|
| 76 |
## Dataset Details
|
| 77 |
|
|
@@ -79,7 +78,6 @@ Curated by Jeroen Van Goey (j.vangoey@instadeep.com).
|
|
| 79 |
|
| 80 |
- **Total rows**: 8,289,063
|
| 81 |
- **PRIDE projects**: 18
|
| 82 |
-
- **Splitting**: identity-based, no peptide overlap between splits
|
| 83 |
|
| 84 |
### Structure
|
| 85 |
|
|
@@ -141,7 +139,9 @@ Per-PRIDE-project breakdown with original publications:
|
|
| 141 |
|
| 142 |
## Acknowledgements
|
| 143 |
|
| 144 |
-
|
|
|
|
|
|
|
| 145 |
|
| 146 |
## Citation
|
| 147 |
|
|
|
|
| 6 |
- biology
|
| 7 |
- mass-spectrometry
|
| 8 |
- proteomics
|
| 9 |
+
- de-novo-peptide-sequencing
|
| 10 |
size_categories:
|
| 11 |
- 1M<n<10M
|
| 12 |
configs:
|
|
|
|
| 69 |
|
| 70 |
## Overview
|
| 71 |
|
| 72 |
+
Data assembled from 18 public PRIDE proteomics projects, partitioned into train, validation, and test splits.
|
| 73 |
+
This dataset was part of the training data for the _de novo_ peptide sequencing model [InstaNovo](https://github.com/instadeepai/instanovo) ([Eloff, Kalogeropoulos et al., *Nature Machine Intelligence*, 2025](https://doi.org/10.1038/s42256-025-01019-5)).
|
|
|
|
| 74 |
|
| 75 |
## Dataset Details
|
| 76 |
|
|
|
|
| 78 |
|
| 79 |
- **Total rows**: 8,289,063
|
| 80 |
- **PRIDE projects**: 18
|
|
|
|
| 81 |
|
| 82 |
### Structure
|
| 83 |
|
|
|
|
| 139 |
|
| 140 |
## Acknowledgements
|
| 141 |
|
| 142 |
+
This HuggingFace dataset was created by Jeroen Van Goey (InstaDeep).
|
| 143 |
+
|
| 144 |
+
Big thanks to Pathmanaban Ramasamy, Tine Claeys, and Lennart Martens of the [CompOmics research group](https://www.compomics.com/) for providing us with this training data.
|
| 145 |
|
| 146 |
## Citation
|
| 147 |
|