Qiwen Hu, Ph.D.
Qiwen Hu , PhD
Research Fellow in Biomedical Informatics
Address: Harvard Medical School Countway Lib 10 Shattuck St Boston, MA 02115
Mentor: Peter Kharchenko, PhD

Qiwen Hu received her PhD in Bioinformatics from North Carolina State University, where she studied translational regulation in plant genomes. Hu developed machine learning and statistical approaches based on high-throughput sequencing datasets to identify regulatory elements that affect transcription and translation, then continued to develop machine learning-based methods to extract regulatory signals from addicted brain and developmental tissues when worked at University Pennsylvania. She also worked on developing and evaluating deep learning model on single-cell datasets. At DBMI, she is expanding the research focus by integrating single-cell image, epigenetic and RNA-seq datasets to discover novel cell type patterns and regulatory elements from nascent brain and other tissues.  

Dissecting Tissue-Specific Transcriptomic Responses from Leaf and Roots under Salt Stress in Petunia hybrida Mitchell.
Authors: Villarino GH, Hu Q, Scanlon MJ, Mueller L, Bombarely A, Mattson NS.
Genes (Basel)
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Histone posttranslational modifications predict specific alternative exon subtypes in mammalian brain.
Authors: Hu Q, Kim EJ, Feng J, Grant GR, Heller EA.
PLoS Comput Biol
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Transcriptomic Signature of the SHATTERPROOF2 Expression Domain Reveals the Meristematic Nature of Arabidopsis Gynoecial Medial Domain.
Authors: Villarino GH, Hu Q, Manrique S, Flores-Vergara M, Sehra B, Robles L, Brumos J, Stepanova AN, Colombo L, Sundberg E, Heber S, Franks RG.
Plant Physiol
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Genome-Wide Search for Translated Upstream Open Reading Frames in Arabidopsis Thaliana.
Authors: Hu Q, Merchante C, Stepanova AN, Alonso JM, Heber S.
IEEE Trans Nanobioscience
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Gene-specific translation regulation mediated by the hormone-signaling molecule EIN2.
Authors: Merchante C, Brumos J, Yun J, Hu Q, Spencer KR, Enríquez P, Binder BM, Heber S, Stepanova AN, Alonso JM.
Cell
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High-throughput RNA sequencing of pseudomonas-infected Arabidopsis reveals hidden transcriptome complexity and novel splice variants.
Authors: Howard BE, Hu Q, Babaoglu AC, Chandra M, Borghi M, Tan X, He L, Winter-Sederoff H, Gassmann W, Veronese P, Heber S.
PLoS One
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Pacific Symposium on Biocomputing 2019
Authors: Qiwen Hu and Casey S
Pacific Symposium on Biocomputing 2019