Search Results - "Yuan, Jiapei"

Recurrently deregulated lncRNAs in hepatocellular carcinoma by Yang, Yang, Chen, Lei, Gu, Jin, Zhang, Hanshuo, Yuan, Jiapei, Lian, Qiuyu, Lv, Guishuai, Wang, Siqi, Wu, Yang, Yang, Yu-Cheng T., Wang, Dongfang, Liu, Yang, Tang, Jing, Luo, Guijuan, Li, Yang, Hu, Long, Sun, Xinbao, Wang, Dong, Guo, Mingzhou, Xi, Qiaoran, Xi, Jianzhong, Wang, Hongyang, Zhang, Michael Q., Lu, Zhi John

“…Hepatocellular carcinoma (HCC) cells often invade the portal venous system and subsequently develop into portal vein tumour thrombosis (PVTT). Long noncoding…”
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Characterization of stress‐responsive lncRNAs in Arabidopsis thaliana by integrating expression, epigenetic and structural features by Di, Chao, Yuan, Jiapei, Wu, Yue, Li, Jingrui, Lin, Huixin, Hu, Long, Zhang, Ting, Qi, Yijun, Gerstein, Mark B, Guo, Yan, Lu, Zhi John

“…Recently, in addition to poly(A)+ long non‐coding RNAs (lncRNAs), many lncRNAs without poly(A) tails, have been characterized in mammals. However, the…”
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The effects of coagulation factors on the risk of endometriosis: a Mendelian randomization study by Li, Yan, Liu, Hongyan, Ye, Shuting, Zhang, Bumei, Li, Xiaopei, Yuan, Jiapei, Du, Yongrui, Wang, Jianmei, Yang, Yang

“…Endometriosis is recognized as a complex gynecological disorder that can cause severe pain and infertility, affecting 6-10% of all reproductive-aged women…”
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ChIPr: accurate prediction of cohesin-mediated 3D genome organization from 2D chromatin features by Abbas, Ahmed, Chandratre, Khyati, Gao, Yunpeng, Yuan, Jiapei, Zhang, Michael Q, Mani, Ram S

“…The three-dimensional genome organization influences diverse nuclear processes. Here we present Chromatin Interaction Predictor (ChIPr), a suite of regression…”
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A compendium of genetic variations associated with promoter usage across 49 human tissues by Yuan, Jiapei, Tong, Yang, Wang, Le, Yang, Xiaoxiao, Liu, Xiaochuan, Shu, Meng, Li, Zekun, Jin, Wen, Guan, Chenchen, Wang, Yuting, Zhang, Qiang, Yang, Yang

“…Promoters play a crucial role in regulating gene transcription. However, our understanding of how genetic variants influence alternative promoter selection is…”
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Mitochondrial Trafficking and Processing of Telomerase RNA TERC by Cheng, Ying, Liu, Peipei, Zheng, Qian, Gao, Ge, Yuan, Jiapei, Wang, Pengfeng, Huang, Jinliang, Xie, Leiming, Lu, Xinping, Tong, Tanjun, Chen, Jun, Lu, Zhi, Guan, Jisong, Wang, Geng

“…Mitochondrial dysfunctions play major roles in many diseases. However, how mitochondrial stresses are relayed to downstream responses remains unclear. Here we…”
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InPACT: a computational method for accurate characterization of intronic polyadenylation from RNA sequencing data by Liu, Xiaochuan, Chen, Hao, Li, Zekun, Yang, Xiaoxiao, Jin, Wen, Wang, Yuting, Zheng, Jian, Li, Long, Xuan, Chenghao, Yuan, Jiapei, Yang, Yang

“…Alternative polyadenylation can occur in introns, termed intronic polyadenylation (IPA), has been implicated in diverse biological processes and diseases, as…”
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Mitochondrion-processed TERC regulates senescence without affecting telomerase activities by Zheng, Qian, Liu, Peipei, Gao, Ge, Yuan, Jiapei, Wang, Pengfeng, Huang, Jinliang, Xie, Leiming, Lu, Xinping, Di, Fan, Tong, Tanjun, Chen, Jun, Lu, Zhi, Guan, Jisong, Wang, Geng

“…Mitochondrial dysfunctions play major roles in ageing. How mitochondrial stresses invoke downstream responses and how speci city of the signaling is achieved,…”
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An atlas of cell-type-specific interactome networks across 44 human tumor types by Li, Zekun, Liu, Gerui, Yang, Xiaoxiao, Shu, Meng, Jin, Wen, Tong, Yang, Liu, Xiaochuan, Wang, Yuting, Yuan, Jiapei, Yang, Yang

“…Biological processes are controlled by groups of genes acting in concert. Investigating gene-gene interactions within different cell types can help researchers…”
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DIPAN: Detecting personalized intronic polyadenylation derived neoantigens from RNA sequencing data by Liu, Xiaochuan, Jin, Wen, Bao, Dengyi, He, Tongxin, Wang, Wenhui, Li, Zekun, Yang, Xiaoxiao, Tong, Yang, Shu, Meng, Wang, Yuting, Yuan, Jiapei, Yang, Yang

“…Intronic polyadenylation (IPA) refers to a particular type of alternative polyadenylation where a gene makes use of a polyadenylation site located within its…”
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scAPAatlas: an atlas of alternative polyadenylation across cell types in human and mouse by Yang, Xiaoxiao, Tong, Yang, Liu, Gerui, Yuan, Jiapei, Yang, Yang

“…Abstract Alternative polyadenylation (APA) has been widely recognized as a crucial step during the post-transcriptional regulation of eukaryotic genes. Recent…”
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Stress‐responsive regulation of long non‐coding RNA polyadenylation in Oryza sativa by Yuan, Jiapei, Li, Jingrui, Yang, Yang, Tan, Chang, Zhu, Yumin, Hu, Long, Qi, Yijun, Lu, Zhi John

“…Summary Recently, long non‐coding RNAs (lncRNAs) have been demonstrated to be involved in many biological processes of plants; however, a systematic study on…”
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Comprehensive characterization of somatic mutations associated with chimeric RNAs in human cancers by Wang, Yuting, Shu, Meng, Wang, Tianqiang, He, Tongxin, Yuan, Jiapei, Yang, Yang

“…Chimeric RNAs, which can arise from gene recombination at the DNA level or non‐canonical splicing events at the RNA level, have been identified as important…”
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eaQTLdb: An atlas of enhancer activity quantitative trait loci across cancer types by Yuan, Jiapei, Tong, Yang, Liu, Xiaochuan, Li, Mulin Jun, Zhang, Qiang, Yang, Yang

“…Enhancers are key regulatory elements that exert crucial roles in diverse biological processes, including tumorigenesis and cancer development. Active…”
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Systematic characterization of novel lncRNAs responding to phosphate starvation in Arabidopsis thaliana by Yuan, Jiapei, Zhang, Ye, Dong, Jinsong, Sun, Yuzhe, Lim, Boon L, Liu, Dong, Lu, Zhi John

“…Previously, several long non-coding RNAs (lncRNAs) were characterized as regulators in phosphate (Pi) starvation responses. However, systematic studies of…”
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Single-cell transcriptomic analysis of the immune microenvironment in pediatric acute leukemia by Yuan, Jiapei, Zhang, Jingliao, Zhao, Beibei, Liu, Fang, Liu, Tianfeng, Duan, Yongjuan, Chen, Yumei, Chen, Xiaojuan, Zou, Yao, Zhang, Li, Guo, Ye, Yang, Wenyu, Yang, Yang, Wei, Jun, Zhu, Xiaofan, Zhang, Yingchi

“…Relapse and treatment resistance pose significant challenges in the management of pediatric B cell acute lymphoblastic leukemia (B-ALL) and acute myeloid…”
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Comprehensive analysis of long non-coding RNAs highlights their spatio-temporal expression patterns and evolutional conservation in Sus scrofa by Tang, Zhonglin, Wu, Yang, Yang, Yalan, Yang, Yu-Cheng T., Wang, Zishuai, Yuan, Jiapei, Yang, Yang, Hua, Chaoju, Fan, Xinhao, Niu, Guanglin, Zhang, Yubo, Lu, Zhi John, Li, Kui

“…Despite modest sequence conservation and rapid evolution, long non-coding RNAs (lncRNAs) appear to be conserved in expression pattern and function. However,…”
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The landscape of RNA polymerase II-associated chromatin interactions in prostate cancer by Ramanand, Susmita G, Chen, Yong, Yuan, Jiapei, Daescu, Kelly, Lambros, Maryou Bk, Houlahan, Kathleen E, Carreira, Suzanne, Yuan, Wei, Baek, GuemHee, Sharp, Adam, Paschalis, Alec, Kanchwala, Mohammed, Gao, Yunpeng, Aslam, Adam, Safdar, Nida, Zhan, Xiaowei, Raj, Ganesh V, Xing, Chao, Boutros, Paul C, de Bono, Johann, Zhang, Michael Q, Mani, Ram S

“…Transcriptional dysregulation is a hallmark of prostate cancer (PCa). We mapped the RNA polymerase II-associated (RNA Pol II-associated) chromatin interactions…”
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Large-scale mapping of mammalian transcriptomes identifies conserved genes associated with different cell states by Yang, Yang, Yang, Yu-Cheng T, Yuan, Jiapei, Lu, Zhi John, Li, Jingyi Jessica

“…Distinguishing cell states based only on gene expression data remains a challenging task. This is true even for analyses within a species. In cross-species…”
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Prostate Cancer Transcriptomic Regulation by the Interplay of Germline Risk Alleles, Somatic Mutations, and 3D Genomic Architecture by Yuan, Jiapei, Houlahan, Kathleen E, Ramanand, Susmita G, Lee, Sora, Baek, GuemHee, Yang, Yang, Chen, Yong, Strand, Douglas W, Zhang, Michael Q, Boutros, Paul C, Mani, Ram S

“…Prostate cancer is one of the most heritable human cancers. Genome-wide association studies have identified at least 185 prostate cancer germline risk alleles,…”
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