Subclonal reconstruction from bulk tumor DNA sequencing has become a pillar of cancer
evolution studies, providing insight into the clonality and relative ordering of mutations and …

A genome-scale genetic interaction map was constructed by examining 5.4 million gene-gene
pairs for synthetic genetic interactions, generating quantitative genetic interaction profiles …

RNA –protein interactions differ from DNA –protein interactions because of the central role
of RNA secondary structure. Some RNA ‐binding domains ( RBDs ) recognize their target …

RNA-binding proteins are key regulators of gene expression, yet only a small fraction have
been functionally characterized. Here we report a systematic analysis of the RNA motifs …

MicroRNAs (miRNAs) regulate a large proportion of mammalian genes by hybridizing to
targeted messenger RNAs (mRNAs) and down-regulating their translation into protein. Although …

Cancer develops through a process of somatic evolution 1 , 2 . Sequencing data from a single
biopsy represent a snapshot of this process that can reveal the timing of specific genomic …

Most homeodomains are unique within a genome, yet many are highly conserved across vast
evolutionary distances, implying strong selection on their precise DNA-binding specificities…

We demonstrate that paired expression profiles of microRNAs (miRNAs) and mRNAs can
be used to identify functional miRNA-target relationships with high precision. We used a …

Genomic analyses often involve scanning for potential transcription factor (TF) binding sites
using models of the sequence specificity of DNA binding proteins. Many approaches have …

Background Vertebrates share the same general body plan and organs, possess related
sets of genes, and rely on similar physiological mechanisms, yet show great diversity in …