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  1. Article

    Open Access

    Author Correction: Lipid exposure activates gene expression changes associated with estrogen receptor negative breast cancer

    Shivangi Yadav, Ranya Virk, Carolina H. Chung in npj Breast Cancer (2023)

  2. Article

    Open Access

    Lipid exposure activates gene expression changes associated with estrogen receptor negative breast cancer

    Improved understanding of local breast biology that favors the development of estrogen receptor negative (ER−) breast cancer (BC) would foster better prevention strategies. We have previously shown that overex...

    Shivangi Yadav, Ranya Virk, Carolina H. Chung in npj Breast Cancer (2022)

  3. Article

    Open Access

    Prediction of functional microexons by transfer learning

    Microexons are a particular kind of exon of less than 30 nucleotides in length. More than 60% of annotated human microexons were found to have high levels of sequence conservation, suggesting their potential f...

    Qi Cheng, Bo He, Chengkui Zhao, Hongyuan Bi, Duojiao Chen, Shuangze Han in BMC Genomics (2021)

  4. No Access

    Article

    Nonlinear relationship between chromatin accessibility and estradiol-regulated gene expression

    Chromatin accessibility is central to basal and inducible gene expression. Through ATAC-seq experiments in estrogen receptor-positive (ER+) breast cancer cell line MCF-7 and integration with multi-omics data, ...

    Duojiao Chen, Taylor M. Parker, Poornima Bhat-Nakshatri, **aona Chu in Oncogene (2021)

  5. Article

    Open Access

    Improving alignment accuracy on homopolymer regions for semiconductor-based sequencing technologies

    Ion Torrent and Ion Proton are semiconductor-based sequencing technologies that feature rapid sequencing speed and low upfront and operating costs, thanks to the avoidance of modified nucleotides and optical m...

    Weixing Feng, Sen Zhao, Dingkai Xue, Fengfei Song, Ziwei Li, Duojiao Chen in BMC Genomics (2016)