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her2-binding-prediction

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metadata
dataset_info:
  features:
    - name: vh
      dtype: string
    - name: vl
      dtype: string
    - name: label
      dtype:
        class_label:
          names:
            '0': non-binder
            '1': binder
  splits:
    - name: train
      num_bytes: 4428189
      num_examples: 18223
    - name: eval
      num_bytes: 553554
      num_examples: 2278
    - name: test
      num_bytes: 553554
      num_examples: 2278
  download_size: 415916
  dataset_size: 5535297

HER2 binding dataset

HER2 binding antibodies have been obtained from the Github repo for Mason et al. (2021).

Labels for antibody sequences were generated using scripts in the above Github repo. The number of negatives and positives were balanced through random undersampling using imbalanced-learn, and sequences were deduplicated.

The dataset has:

  • 39108 antibodies in total
  • 22779 antibodies after undersampling and deduplication
  • 18223 in the training set, 2278 in the evaluation set, and 2278 in the test set.

Example

vh_full vl_full label
EVQ... DIQ... 1
EVQ... DIQ... 0
EVQ... DIQ... 0
EVQ... DIQ... 1

References