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README.md
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# Dataset Description
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## Dataset Summary
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This dataset was derived from the Los Alamos National Laboratory HIV sequence (LANL) database.
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It contains 5,510 unique V3 sequences, each annotated with its corresponding bodysite that it was associated with.
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Supported Tasks and Leaderboards: None
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Languages: English
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## Dataset Structure
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### Data Instances
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Data Instances: Each column represents the protein amino acid sequence of the HIV V3 loop.
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The ID field indicates the Genbank reference ID for future cross-referencing.
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There are 2,935 total V3 sequences, with 91% being CCR5 tropic and 23% CXCR4 tropic.
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Data Fields: ID, sequence, fold, periphery-tcell, periphery-monocyte, CNS, lung, breast-milk, gastric, male-genitals, female-genitals, umbilical-cord, organ
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Data Splits: None
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## Dataset Creation
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Curation Rationale:
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Initial Data Collection and Normalization: Dataset was downloaded and curated on 12/20/2021.
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## Considerations for Using the Data
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Social Impact of Dataset: This dataset can be used to study the mechanism by which HIV V3 loops allow for study of HIV compartmentalization.
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Discussion of Biases: DDue to the sampling nature of this database, it is predominantly composed of subtype B sequences from North America and Europe with only minor contributions of Subtype C, A, and D.
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Currently, there was no effort made to balance the performance across these classes.
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As such, one should consider refinement with additional sequences to perform well on non-B sequences.
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Additionally, this dataset is highly biased to peripheral T-cells.
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## Additional Information:
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- Dataset Curators: Will Dampier
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- Citation Information: TBA
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---
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license: mit
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