№ lp_2_2_05648
An academic methods section detailing dataset construction, preprocessing, model architecture, and evaluation procedures for an end-to-end computational framework for antigen-targeted T cell receptor design.
Authors: Chenao Li; Yaochi Guo; Xin Guan; Hui Chen; Yong Zhang; Pengyuan Yang; Jizhong Lou
Affiliations: State Key Laboratory of Epigenetic Regulation and Intervention, CAS Center for Excellence in Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China; University of Chinese Academy of Sciences, Beijing, China
Correspondence: [email protected]
Institutions: Chinese Academy of Sciences; Institute of Biophysics
Type of document: Scientific research methods section
Field: Computational immunology; protein sequence modeling; T cell receptor design
Datasets: Tpp; Tchard; McPAS-TCR; VDJdb; IEDB; 10x Genomics; ImmuneCODE; TBAdb; MIRA; NetTCR-2.0; TABR; PDB; STCRDab
Sample size: 157k positive samples; 300k negative samples; 519k entries in K1; 5,000 samples in K3; 600k natural CDR3β sequences; 260 bound and 86 unbound TCR structures
Methodology: Sequence generation model inspired by UniLM and BERT; binding and naturalness classifiers; structure prediction module
Data processing: Length filtering; de-duplication; train/validation/test splits; ROC-based threshold optimization
Geographical location: Beijing, China
Price: 8 / 10 USD
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