Full list can be found at Google Scholar.
V-SVA: an R Shiny application for detecting and annotating hidden sources of variation in single-cell RNA-seq data. Bioinformatics. 2020.
Sestrins induce natural killer function in senescent-like CD8+ T cells. Nature Immunology. 2020.
Sexual-dimorphism in human immune system aging. Nature Communications. 2020.
BiFET: sequencing Bias-free transcription factor Footprint Enrichment Test. Nucleic Acids Research. 2019.
Multiomic Profiling Identifies cis-Regulatory Networks Underlying Human Pancreatic β Cell Identity and Function. Cell Reports. 2019.
Detection of correlated hidden factors from single cell transcriptomes using Iteratively Adjusted-SVA (IA-SVA). Scientific Reports. 2018.
A neural network based model effectively predicts enhancers from clinical ATAC-seq samples. Scientific Reports. 2018.
Type 2 Diabetes Associated Genetic Variants Regulate Chromatin Accessibility in Human Islets. Diabetes. 2018.
A common Type 2 Diabetes Risk Variant Potentiates Activity of an Evolutionarily Conserved Islet Stretch Enhancer and Increases C2CD4A and C2CD4B expression. AJHG 2018.
I-ATAC: interactive pipeline for the management and pre-processing of ATAC-seq samples. PeerJ 2018.
Aging epigenetics: changes and challenges. Book chapter in Epigenetics of Aging and Longevity, Elsevier. 2018
Chromatin interaction networks revealed unique connectivity patterns of broad H3K4me3 domains and super enhancers in 3D chromatin. Scientific Reports. 2017.
Alpha TC1 and Beta-TC-6 genomic profiling uncovers both shared and distinct transcriptional regulatory features with their primary islet counterparts. Scientific Reports. 2017.
The chromatin accessibility signature of human immune aging stems from CD8+ T cells. JEM. 2017.
Genomics of Islet (Dys)function and Type 2 Diabetes. Trends in Genetics. 2017.
Computational inference of a genomic pluripotency signature in human and mouse stem cells. Biology Direct, 2016.
Leukemia cell of origin identified by chromatin landscape of bulk tumour cells. 2016. Nature Communications. 2016.
QuIN: A Web Server for Querying and Visualizing Chromatin Interaction Networks. PLOS Computational Biology. 2016.
The tandem duplicator phenotype as a distinct genomic configuration in cancer. PNAS. 2016.
Computational inference of H3K4me3 and H3K27ac domain length. PeerJ. 2016.
Transcriptional Regulation of the Pancreatic Islet: Implications for Islet Function. Current Diabetes Report. 2015.
Cell-specific gene promoters are marked by broader spans of H3K4me3 and are associated with robust gene expression patterns. Epigenomics. 2015.
Broad H3K4me3 domains promote transcriptional stability at key cell identity and function genes. Cell. 2014.
FOXO3 shares common targets with ASCL1 genome-wide and inhibits ASCL1-dependent neurogenesis. Cell Reports. 2013.
Expansion of oligodendrocyte progenitor cells following SIRT1 inactivation in the adult brain. Nature Cell Biology. 2013.
Discovering Regulatory DNA Elements Using Chromatin Signatures and Artificial Neural Network. Bioinformatics. 2010.
Combinatorial chromatin modification patterns in the human genome revealed by subspace clustering. Nucleic Acids Research. 2011.
Predicting functionality of protein-DNA interactions by integrating diverse evidence. Bioinformatics. 2009.
Construction of a Reference Gene Association Network from Multiple Profiling Data: Application to HIV Data Analysis. Bioinformatics. 2009.