58 citations · 113 across the 11 of their papers we have counts for
11 papers
Modeling Transient Changes in Circadian Rhythms
Ziyu Zhao, Dae-Sung Hwangbo, Sumit Saurabh +4
The circadian clock can adapt itself to external cues, but the molecular mechanisms and regulatory networks governing circadian oscillations' transient adjustments are still largel…
Stroke recovery phenotyping through network trajectory approaches and graph neural networks
Sanjukta Krishnagopal, Keith Lohse, Robynne Braun
Stroke is a leading cause of neurological injury characterized by impairments in multiple neurological domains including cognition, language, sensory and motor functions. Clinical…
Time-lagged Ordered Lasso for network inference
Phan Nguyen, Rosemary Braun
Accurate gene regulatory networks can be used to explain the emergence of different phenotypes, disease mechanisms, and other biological functions. Many methods have been proposed…
Single nucleotide polymorphisms that modulate microRNA regulation of gene expression in tumors
Gary Wilk, Rosemary Braun
Genome-wide association studies (GWAS) have identified single nucleotide polymorphisms (SNPs) associated with trait diversity and disease susceptibility, yet the functional propert…
Integrative analysis reveals disrupted pathways regulated by microRNAs in cancer
Gary Wilk, Rosemary Braun
MicroRNAs (miRNAs) are small endogenous regulatory molecules that modulate gene expression post-transcriptionally. Although differential expression of miRNAs have been implicated i…
Semi-supervised network inference using simulated gene expression dynamics
Phan Nguyen, Rosemary Braun
Motivation: Inferring the structure of gene regulatory networks from high--throughput datasets remains an important and unsolved problem. Current methods are hampered by problems s…
Network-based identification of disease genes in expression data: the GeneSurrounder method
Sahil D. Shah, Rosemary Braun
The advent of high--throughput transcription profiling technologies has enabled identification of genes and pathways associated with disease, providing new avenues for precision me…
Network Methods for Pathway Analysis of Genomic Data
Rosemary Braun, Sahil Shah
Rapid advances in high-throughput technologies have led to considerable interest in analyzing genome-scale data in the context of biological pathways, with the goal of identifying…
Pathways of Distinction Analysis: a new technique for multi-SNP analysis of GWAS data
Rosemary Braun, Kenneth Buetow
Genome-wide association studies have become increasingly common due to advances in technology and have permitted the identification of differences in single nucleotide polymorphism…
Partition Decoupling for Multi-gene Analysis of Gene Expression Profiling Data
Rosemary Braun, Gregory Leibon, Scott Pauls +1
We present the extention and application of a new unsupervised statistical learning technique--the Partition Decoupling Method--to gene expression data. Because it has the ability…
Needles in the Haystack: Identifying Individuals Present in Pooled Genomic Data
Rosemary Braun, William Rowe, Carl Schaefer +2
Recent publications have described and applied a novel metric that quantifies the genetic distance of an individual with respect to two population samples, and have suggested that…