User profiles for Atul J. Butte

Atul J. Butte

Director, Bakar Computational Health Sciences Institute, University of California, San …
Verified email at ucsf.edu
Cited by 59027

[HTML][HTML] Ten years of pathway analysis: current approaches and outstanding challenges

P Khatri, M Sirota, AJ Butte - PLoS computational biology, 2012 - journals.plos.org
Pathway analysis has become the first choice for gaining insight into the underlying biology
of differentially expressed genes and proteins, as it reduces complexity and has increased …

Exploiting drug–disease relationships for computational drug repositioning

JT Dudley, T Deshpande, AJ Butte - Briefings in bioinformatics, 2011 - academic.oup.com
Finding new uses for existing drugs, or drug repositioning, has been used as a strategy for
decades to get drugs to more patients. As the ability to measure molecules in high-throughput …

Ethnic differences in the relationship between insulin sensitivity and insulin response: a systematic review and meta-analysis

…, D Tojjar, S Yamada, K Toda, CJ Patel, AJ Butte - Diabetes …, 2013 - Am Diabetes Assoc
OBJECTIVE Human blood glucose levels have likely evolved toward their current point of
stability over hundreds of thousands of years. The robust population stability of this trait is …

Coordinated reduction of genes of oxidative metabolism in humans with insulin resistance and diabetes: Potential role of PGC1 and NRF1

ME Patti, AJ Butte, S Crunkhorn… - Proceedings of the …, 2003 - National Acad Sciences
Type 2 diabetes mellitus (DM) is characterized by insulin resistance and pancreatic β cell
dysfunction. In high-risk subjects, the earliest detectable abnormality is insulin resistance in …

Reference-based analysis of lung single-cell sequencing reveals a transitional profibrotic macrophage

…, RP Naikawadi, PJ Wolters, AR Abate, AJ Butte… - Nature …, 2019 - nature.com
Tissue fibrosis is a major cause of mortality that results from the deposition of matrix proteins
by an activated mesenchyme. Macrophages accumulate in fibrosis, but the role of specific …

[HTML][HTML] Scalable and accurate deep learning with electronic health records

…, AJ Butte, MD Howell, C Cui, GS Corrado, J Dean - NPJ digital …, 2018 - nature.com
Predictive modeling with electronic health record (EHR) data is anticipated to drive personalized
medicine and improve healthcare quality. Constructing predictive statistical models …

[HTML][HTML] xCell: digitally portraying the tissue cellular heterogeneity landscape

D Aran, Z Hu, AJ Butte - Genome biology, 2017 - Springer
Tissues are complex milieus consisting of numerous cell types. Several recent methods have
attempted to enumerate cell subsets from transcriptomes. However, the available methods …

[HTML][HTML] Personal omics profiling reveals dynamic molecular and medical phenotypes

…, P Snyder, TE Klein, RB Altman, AJ Butte… - Cell, 2012 - cell.com
Personalized medicine is expected to benefit from combining genomic information with regular
monitoring of physiological states by multiple high-throughput methods. Here, we present …

Mutual information relevance networks: functional genomic clustering using pairwise entropy measurements

AJ Butte, IS Kohane - Biocomputing 2000, 1999 - World Scientific
Increasing numbers of methodologies are available to find functional genomic clusters in
RNA expression data. We describe a technique that computes comprehensive pair-wise …

[PDF][PDF] Variation in the human immune system is largely driven by non-heritable influences

…, D Furman, S Shen-Orr, CL Dekker, GE Swan, AJ Butte… - Cell, 2015 - cell.com
There is considerable heterogeneity in immunological parameters between individuals, but
its sources are largely unknown. To assess the relative contribution of heritable versus non-…