haneulpark commited on
Commit
ac679a1
·
verified ·
1 Parent(s): 128b668

Update README.md

Browse files
Files changed (1) hide show
  1. README.md +49 -3
README.md CHANGED
@@ -1,3 +1,49 @@
1
- ---
2
- license: cc0-1.0
3
- ---
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ ---
2
+ license: cc0-1.0
3
+ task_categories:
4
+ - tabular-regression
5
+ language:
6
+ - en
7
+ pretty_name: MolData
8
+ size_categories:
9
+ - 1M<n<10M
10
+ tags:
11
+ - drug discovery
12
+ - bioassay
13
+ dataset_summary: >-
14
+ A comprehensive disease and target-based dataset with 1.4 million molecules, collected from PubChem
15
+ to accelerate molecular machine learning for better drug discovery.
16
+ citation: >-
17
+ @article{KeshavarziArshadi2022,
18
+ title = {MolData, a molecular benchmark for disease and target based machine learning},
19
+ volume = {14},
20
+ ISSN = {1758-2946},
21
+ url = {http://dx.doi.org/10.1186/s13321-022-00590-y},
22
+ DOI = {10.1186/s13321-022-00590-y},
23
+ number = {1},
24
+ journal = {Journal of Cheminformatics},
25
+ publisher = {Springer Science and Business Media LLC},
26
+ author = {Keshavarzi Arshadi, Arash and Salem, Milad and Firouzbakht, Arash and Yuan, Jiann Shiun},
27
+ year = {2022},
28
+ month = mar
29
+ }
30
+
31
+
32
+ ---
33
+
34
+ # MolData
35
+
36
+ [MolData](https://jcheminf.biomedcentral.com/articles/10.1186/s13321-022-00590-y) is a comprehensive disease and target-based dataset collected from PubChem.
37
+ The dataset contains 1.4 million unique molecules, and it is one the largest efforts to date for democratizing the molecular machine learning.
38
+
39
+
40
+ ## Preprocessing
41
+
42
+ We utilized the raw data uploaded on [Github](https://github.com/LumosBio/MolData) and performed several preprocessing:
43
+ 1. Sanitize the molecules using RDKit and MolVS (standardize SMILES format)
44
+ 2. Rename the columns
45
+ 3. Split the dataset (train, test, validation)
46
+
47
+ If you would like to try these processes with the original dataset,
48
+ please follow the instructions in the [Preprocessing Script.py](address) file located in our MolData repository.
49
+