Supporting information: DepoScope: Accurate phage depolymerase annotation and domain delineation using large language models
Supporting information: DepoScope: Accurate phage depolymerase annotation and domain delineation using large language models
S1 Table. (Tab A) List of selected Interproscan entries associated with either E.C.4.4.2 or E.C.3.2.1 and a catalytic activity. (Tab B) Annotation of the proteins used for to filter in the sequences clustered with affinity propagation. (Tab C) Entries PD fold database. (Tab D) Annotation of the proteins used for the negative set of the training data. (Tab E) Metrics of Deposcope on the evaluation dataset across different clustering values. (Tab F) Manually added Triple Helices. (Tab G) Detailed benchmarking results of PhageDPO, DePP and DepoScope on the Pires 2016 dataset. (Tab H) Manual analysis of the FPs and FNs in the benchmark.(XLSX)
S1 Fig. t-SNE representation of the PD domain fold. ESM-2 embedding representations were computed for each PD domain fold of the training dataset. (DOCX)
S1 Data. Predicted structures of the FPs and FNs in the benchmark.(ZIP)
Peer reviewed
selected citations These citations are derived from selected sources.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).0 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.Average influence This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).Average impulse This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.Average
Citations provided by BIP!Popularity provided by BIP!