User profiles for Farhan N. Damani

Farhan Damani

Machine Learning Scientist, Dyno Tx
Verified email at dynotx.com
Cited by 1176

The impact of structural variation on human gene expression

…, EK Tsang, X Li, Y Kim, T Hadzic, FN Damani… - Nature …, 2017 - nature.com
Structural variants (SVs) are an important source of human genetic diversity, but their
contribution to traits, disease and gene regulation remains unclear. We mapped cis expression …

[HTML][HTML] The impact of rare variation on gene expression across tissues

X Li, Y Kim, EK Tsang, JR Davis, FN Damani, C Chiang… - Nature, 2017 - nature.com
Rare genetic variants are abundant in humans and are expected to contribute to individual
disease risk 1, 2, 3, 4. While genetic association studies have successfully identified common …

Co-expression networks reveal the tissue-specific regulation of transcription and splicing

…, C Chiang, DF Conrad, NJ Cox, FN Damani… - Genome …, 2017 - genome.cshlp.org
Gene co-expression networks capture biologically important patterns in gene expression
data, enabling functional analyses of genes, discovery of biomarkers, and interpretation of …

Identifying cis-mediators for trans-eQTLs across many human tissues using genomic mediation analysis

…, C Chiang, DF Conrad, NJ Cox, FN Damani… - Genome …, 2017 - genome.cshlp.org
The impact of inherited genetic variation on gene expression in humans is well-established.
The majority of known expression quantitative trait loci (eQTLs) impact expression of local …

Genetic effects on gene expression across human tissues

DA Laboratory, NIHC Fund, BCS Site—NDRI… - …, 2017 - pubmed.ncbi.nlm.nih.gov
Characterization of the molecular function of the human genome and its variation across
individuals is essential for identifying the cellular mechanisms that underlie human genetic traits …

Bayesian reaction optimization as a tool for chemical synthesis

BJ Shields, J Stevens, J Li, M Parasram, F Damani… - Nature, 2021 - nature.com
Reaction optimization is fundamental to synthetic chemistry, from optimizing the yield of
industrial processes to selecting conditions for the preparation of medicinal candidates 1 . …

Black box recursive translations for molecular optimization

F Damani, V Sresht, S Ra - arXiv preprint arXiv:1912.10156, 2019 - arxiv.org
Machine learning algorithms for generating molecular structures offer a promising new
approach to drug discovery. We cast molecular optimization as a translation problem, where the …

Discrete object generation with reversible inductive construction

A Seff, W Zhou, F Damani, A Doyle… - Advances in neural …, 2019 - proceedings.neurips.cc
The success of generative modeling in continuous domains has led to a surge of interest in
generating discrete data such as molecules, source code, and graphs. However, …

Improving genetic diagnosis in Mendelian disease with transcriptome sequencing

…, PB Kang, AH Beggs, KN North… - Science translational …, 2017 - science.org
Exome and whole-genome sequencing are becoming increasingly routine approaches in
Mendelian disease diagnosis. Despite their success, the current diagnostic rate for genomic …

Beyond the training set: an intuitive method for detecting distribution shift in model-based optimization

F Damani, DH Brookes, T Sternlieb, C Webster… - arXiv preprint arXiv …, 2023 - arxiv.org
Model-based optimization (MBO) is increasingly applied to design problems in science and
engineering. A common scenario involves using a fixed training set to train models, with the …