Publications

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. Lesion attributes segmentation for melanoma detection with multi-task U-Net. IEEE International Symposium on Biomedical Imaging (ISBI), 2019.

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. Skin lesion segmentation with improved C-UNet networks. bioRxiv, 2018.

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. What evidence does deep learning model use to classify skin lesions?. arXiv, 2018.

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. A role for bacterial urease in gut dysbiosis and Crohn’s disease. Science Translational Medicine, 2017.

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. Inflammation, antibiotics, and diet as environmental stressors of the gut microbiome in pediatric Crohn’s disease. Cell Host Microbe, 2015.

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. Genome wide nucleosome mapping for HSV-1 shows nucleosomes are deposited at preferred positions during lytic infection. PLoS ONE, 2015.

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. Comparative effectiveness of nutritional and biological therapy in north american children with active Crohnʼs disease. Inflammatory Bowel Diseases, 2015.

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. Comparative metabolomics in vegans and omnivores reveal constraints on diet-dependent gut microbiota metabolite production. Gut, 2014.

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. Nonhematopoietically Derived DNA Is Shorter than Hematopoietically Derived DNA in Plasma: A Transplantation Model. Clinical Chemistry, 2012.

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. Genome-wide roles of Foxa2 in directing liver specification. Journal of Molecular Cell Biology, 2012.

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. A Novel YY1-miR-1 regulatory circuit in skeletal myogenesis revealed by genome-wide prediction of YY1-miRNA network. PLoS ONE, 2012.

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. SFRS7-mediated splicing of tau exon 10 is directly regulated by STOX1A in glial cells. PLoS ONE, 2011.

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. Noninvasive prenatal diagnosis of fetal trisomy 18 and trisomy 13 by maternal plasma DNA sequencing. PLoS ONE, 2011.

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. Genome-wide identification of TF-miRNA regulatory networks in myogenesis. IEEE International Conference on Bioinformatics and Biomedicine Workshops, 2011.

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. Methy-Pipe: An integrated bioinformatics data analysis pipeline for whole genome methylome analysis. IEEE International Conference on Bioinformatics and Biomedicine Workshops, 2010.

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. Maternal plasma DNA sequencing reveals the genome-wide genetic and mutational profile of the fetus. Science Translational Medicine, 2010.

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. Genome-wide mapping of SMAD target genes reveals the role of BMP signaling in embryonic stem cell fate determination. Genome Research, 2010.

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. Developmental systems biology flourishing on new technologies. Journal of Genetics and Genomics, 2008.

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