Publications by authors named "Alireza Sahaf Naeini"
Article Synopsis
- Tumoroscope is a new probabilistic model that accurately identifies cancer clones and their locations in tumors using pathological images, whole exome sequencing, and spatial transcriptomics data, achieving near single-cell resolution.
- Unlike previous methods, Tumoroscope effectively resolves the proportions of different cancer clones within spatial transcriptomics spots.
- The model has been applied to prostate and breast cancer datasets, revealing spatial patterns of clone distribution and allowing the analysis of clone-specific gene expression.
The human genome is regulated in a multi-dimensional way. While biophysical factors like Non-specific Transcription factor Binding Affinity (nTBA) act at DNA sequence level, other factors act above sequence levels such as histone modifications and 3-D chromosomal interactions. This multidimensionality of regulation requires many of these factors for a proper understanding of the regulatory landscape of the human genome.
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