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Part 1: Document Description
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Citation |
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Title: |
Cryo2StructData : Full Dataset |
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Identification Number: |
doi:10.7910/DVN/FCDG0W |
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Distributor: |
Harvard Dataverse |
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Date of Distribution: |
2023-10-26 |
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Version: |
2 |
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Bibliographic Citation: |
Giri, Nabin; Wang, Liguo; Cheng, Jianlin, 2023, "Cryo2StructData : Full Dataset", https://doi.org/10.7910/DVN/FCDG0W, Harvard Dataverse, V2 |
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Citation |
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Title: |
Cryo2StructData : Full Dataset |
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Subtitle: |
Cryo2StructData: A Large Labeled Cryo-EM Density Map Dataset for AI-based Modeling of Protein Structures |
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Alternative Title: |
Cryo2StructData |
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Identification Number: |
doi:10.7910/DVN/FCDG0W |
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Authoring Entity: |
Giri, Nabin (University of Missouri System) |
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Wang, Liguo (Brookhaven National Laboratory) |
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Cheng, Jianlin (University of Missouri System) |
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Other identifications and acknowledgements: |
Giri, Nabin |
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Producer: |
Cheng, Jianlin |
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Date of Production: |
2023-03-20 |
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Grant Number: |
R01GM146340 |
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Distributor: |
Harvard Dataverse |
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Distributor: |
Giri, Nabin |
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Access Authority: |
Giri, Nabin |
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Access Authority: |
Cheng, Jianlin |
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Depositor: |
Giri, Nabin |
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Date of Deposit: |
2023-10-24 |
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Date of Distribution: |
2023-10-24 |
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Holdings Information: |
https://doi.org/10.7910/DVN/FCDG0W |
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Study Scope |
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Keywords: |
Computer and Information Science, Medicine, Health and Life Sciences, Other, cryo-electron microscopy |
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Abstract: |
This repository contains the complete Cryo2StructData dataset, which encompasses 7,392 density maps. The data are organized based on EMD-IDs. |
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Notes: |
Please note that this repository does not include labeled maps. We have provided a collection of scripts in our GitHub repository specifically designed to generate the label maps (amino acid types, atom types, and secondary structure types). These label maps, in combination with the normalized density map, are intended for training and testing AI-based models to build protein structures from cryo-EM density maps, as detailed in the Cryo2StructData paper (https://doi.org/10.1038/s41597-024-03299-9) . |
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Methodology and Processing |
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Sources Statement |
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Documentation and Access to Sources: |
The source code and instructions to reproduce our results are freely available at https://github.com/BioinfoMachineLearning/cryo2struct |
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Data Access |
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Other Study Description Materials |
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Related Materials |
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The source code and instructions to reproduce our results are freely available at https://github.com/BioinfoMachineLearning/cryo2struct |
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Related Studies |
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The original cryo-EM density map are available in EMDataBank (https://www.emdataresource.org/) and the corresponding protein structure are available in Protein Data Bank (https://www.rcsb.org/) . |
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Label: |
EMD_0.zip |
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Text: |
Cryo-EM density maps of EMD-IDs starting with 0. |
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Notes: |
application/zip |
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Label: |
EMD_1.zip |
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Text: |
Cryo-EM density maps of EMD-IDs starting with 1. |
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Notes: |
application/zip |
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Label: |
EMD_2.zip |
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Text: |
Cryo-EM density maps of EMD-IDs starting with 2. |
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Notes: |
application/zip |
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Label: |
EMD_3.zip |
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Text: |
Cryo-EM density maps of EMD-IDs starting with 3. |
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Notes: |
application/zip |
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Label: |
EMD_4.zip |
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Text: |
Cryo-EM density maps of EMD-IDs starting with 4. |
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Notes: |
application/zip |
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Label: |
EMD_5.zip |
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Text: |
Cryo-EM density maps of EMD-IDs starting with 5. |
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Notes: |
application/zip |
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Label: |
EMD_6.zip |
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Text: |
Cryo-EM density maps of EMD-IDs starting with 6. |
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Notes: |
application/zip |
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Label: |
EMD_7.zip |
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Text: |
Cryo-EM density maps of EMD-IDs starting with 7. |
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Notes: |
application/zip |
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Label: |
EMD_8.zip |
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Text: |
Cryo-EM density maps of EMD-IDs starting with 8. |
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Notes: |
application/zip |
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Label: |
EMD_9.zip |
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Text: |
Cryo-EM density maps of EMD-IDs starting with 9. |
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Notes: |
application/zip |