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Open AccessDissecting tumor microenvironment from spatially resolved transcriptomics data by heterogeneous graph learning
Spatially resolved transcriptomics (SRT) has enabled precise dissection of tumor-microenvironment (TME) by analyzing its intracellular molecular networks and intercellular cell-cell communication (CCC). Howeve...
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Open AccessGNNMF: a multi-view graph neural network for ATAC-seq motif finding
The Assay for Transposase-Accessible Chromatin using sequencing (ATAC-seq) utilizes the Transposase Tn5 to probe open chromatic, which simultaneously reveals multiple transcription factor binding sites (TFBSs)...
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Open AccessElucidating tumor heterogeneity from spatially resolved transcriptomics data by multi-view graph collaborative learning
Spatially resolved transcriptomics (SRT) technology enables us to gain novel insights into tissue architecture and cell development, especially in tumors. However, lacking computational exploitation of biologi...
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Open AccessRevealing the transcriptomic complexity of switchgrass by PacBio long-read sequencing
Switchgrass (Panicum virgatum L.) is an important bioenergy crop widely used for lignocellulosic research. While extensive transcriptomic analyses have been conducted on this species using short read-based sequen...
