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Dissection of core promoter syntax through single nucleotide resolution modeling of transcription initiation (CLIPNET models)

Authors: He, Adam; Danko, Charles;

Dissection of core promoter syntax through single nucleotide resolution modeling of transcription initiation (CLIPNET models)

Abstract

Model weights for CLIPNET. Chromosomes in fold 0 were held out for all models. The 9 remaining folds were used to train models such that data fold i was withheld from training for model i (for assignments, see data_fold_assignments.csv). The models assume a 2-hot encoding of DNA (A=[2, 0, 0, 0], C=[0, 2, 0, 0], ..., Y=[0, 1, 0, 1], ...). Processed data used for model training and to reproduce figures in our CLIPNET paper (preprint here) are archived at DOI 10.5281/zenodo.10597357 Model weights are also available for download via HuggingFace.

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citations
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
0
Average
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Average