Deep learning in Genomics

TRAFICA: An Open Chromatin Language Model to Improve Transcription Factor Binding Affinity Prediction
An open chromatin language model for transcription factor-DNA binding affinity prediction by integrating ATAC-seq data and in vitro binding profiles, achieving state-of-the-art performance.
Yu Xu 许煜, Lu Zhang, et al
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TRAFICA: An Open Chromatin Language Model to Improve Transcription Factor Binding Affinity Prediction
Mitigation of Multi-scale Biases in Cell-type Deconvolution for Spatially Resolved Transcriptomics Using HarmoDecon
A semi-supervised deep learning model for spatial cell-type deconvolution that mitigates multi-scale biases in spatially resolved transcriptomics.
Zirui Wang, Ke Xu, Yang Liu, Yu Xu 许煜, Lu Zhang
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