City Of Hope National Medical Center

Whether colorectal cancer recurs after resection has been judged mainly from routine pathology such as lymphovascular invasion, perineural invasion, tumor budding and Ki-67. AlphaFISH pairs a sequencing-free nanoprobe biochip with a transformer model to read 41 host transcripts and 51 bacterial genera across 149 colorectal biopsies, and in 28 patients followed for one year after surgery it predicted recurrence or metastasis with an AUC of 0.81, against 0.45 for the combined routine clinical markers. The result comes from a preprint that has not been peer reviewed, on a limited sample.

Whether colorectal cancer recurs after resection has been judged mainly from routine pathology such as lymphovascular invasion, perineural invasion, tumor budding and Ki-67. AlphaFISH pairs a sequencing-free nanoprobe biochip with a transformer model to read 41 host transcripts and 51 bacterial genera across 149 colorectal biopsies, and in 28 patients followed for one year after surgery it predicted recurrence or metastasis with an AUC of 0.81, against 0.45 for the combined routine clinical markers. The result comes from a preprint that has not been peer reviewed, on a limited sample.

Whether a T cell receptor recognizes a given antigen has usually been settled by binding assays or tetramer staining, one receptor at a time. Researchers instead used AlphaFold 3 to predict the peptide-MHC-receptor triad and scored the predicted alignment error at the receptor-peptide-MHC interface. On held-out sets excluded from training, the antigen-centric area under the ROC curve had a median of 0.92 for class I and 0.81 for class II, 0.24 to 0.33 AUC units above the earlier AF2-multimer model.

Whether a T cell receptor recognizes a given antigen has usually been settled by binding assays or tetramer staining, one receptor at a time. Researchers instead used AlphaFold 3 to predict the peptide-MHC-receptor triad and scored the predicted alignment error at the receptor-peptide-MHC interface. On held-out sets excluded from training, the antigen-centric area under the ROC curve had a median of 0.92 for class I and 0.81 for class II, 0.24 to 0.33 AUC units above the earlier AF2-multimer model.