Search Results - "Ji, Yanrong"

DNABERT: pre-trained Bidirectional Encoder Representations from Transformers model for DNA-language in genome by Ji, Yanrong, Zhou, Zhihan, Liu, Han, Davuluri, Ramana V

“…Abstract Motivation Deciphering the language of non-coding DNA is one of the fundamental problems in genome research. Gene regulatory code is highly complex…”
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In silico analysis of alternative splicing on drug-target gene interactions by Ji, Yanrong, Mishra, Rama K., Davuluri, Ramana V.

“…Identifying and evaluating the right target are the most important factors in early drug discovery phase. Most studies focus on one protein ignoring the…”
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Bronchoscopic Interventional Therapy Combined With Pembrolizumab in the Treatment of Pulmonary Large Cell Neuroendocrine Carcinoma: A Case Report by Fan, Yingyi, Wang, Yingying, Ji, Yanrong, Li, Shuang, Zhang, Jian, Hao, Xingliang

“…This study reports a significant clinical outcome following the use of bronchoscopic interventional therapy combined with pembrolizumab for treating pulmonary…”
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FTO-Dependent N 6 -Methyladenosine Modifications Inhibit Ovarian Cancer Stem Cell Self-Renewal by Blocking cAMP Signaling by Huang, Hao, Wang, Yinu, Kandpal, Manoj, Zhao, Guangyuan, Cardenas, Horacio, Ji, Yanrong, Chaparala, Anusha, Tanner, Edward J, Chen, Jianjun, Davuluri, Ramana V, Matei, Daniela

“…-Methyladenosine (m A) is the most abundant modification of mammalian mRNAs. RNA methylation fine tunes RNA stability and translation, altering cell fate. The…”
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Frizzled-7 Identifies Platinum-Tolerant Ovarian Cancer Cells Susceptible to Ferroptosis by Wang, Yinu, Zhao, Guangyuan, Condello, Salvatore, Huang, Hao, Cardenas, Horacio, Tanner, Edward J, Wei, JianJun, Ji, Yanrong, Li, Junjie, Tan, Yuying, Davuluri, Ramana V, Peter, Marcus E, Cheng, Ji-Xin, Matei, Daniela

“…Defining traits of platinum-tolerant cancer cells could expose new treatment vulnerabilities. Here, new markers associated with platinum-tolerant cells and…”
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Deep multi-omics integration by learning correlation-maximizing representation identifies prognostically stratified cancer subtypes by Ji, Yanrong, Dutta, Pratik, Davuluri, Ramana

“…Abstract Motivation Molecular subtyping by integrative modeling of multi-omics and clinical data can help the identification of robust and clinically…”
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Development of Informatics Methods for Analysis of Complex Gene Regulation and Transcriptome Diversity Data in Cancer by Ji, Yanrong

“…Mammalian transcriptional regulation is well-known to be complex and highly context dependent. Different genetic and epigenetic features, including single…”
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Abstract 2449: A novel function of FTO in ovarian cancer stem cells through m6A RNA demethylation by Huang, Hao, Wang, Yinu, Kandpal, Manoj, Zhao, Guangyuan, Cardenas, Horacio, Ji, Yanrong, Tanner, Edward, Chen, Jianjun, Davuluri, Ramana, Matei, Daniela

“…Abstract Introduction: N6-Methyladenosine (m6A) is the most abundant internal modification in mammalian messenger RNAs (mRNAs). Although previous studies have…”
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FTO-Dependent N6-Methyladenosine Modifications Inhibit Ovarian Cancer Stem Cell Self-Renewal by Blocking cAMP Signaling by Huang, Hao, Wang, Yinu, Kandpal, Manoj, Zhao, Guangyuan, Cardenas, Horacio, Ji, Yanrong, Chaparala, Anusha, Tanner, Edward J., Chen, Jianjun, Davuluri, Ramana V., Matei, Daniela

“…N 6 -Methyladenosine (m 6 A) is the most abundant modification of mammalian messenger RNAs (mRNA). RNA methylation fine tunes RNA stability and translation,…”
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A community effort to optimize sequence-based deep learning models of gene regulation by Rafi, Abdul Muntakim, Nogina, Daria, Penzar, Dmitry, Lee, Dohoon, Lee, Danyeong, Kim, Nayeon, Kim, Sangyeup, Kim, Dohyeon, Shin, Yeojin, Kwak, Il-Youp, Meshcheryakov, Georgy, Lando, Andrey, Zinkevich, Arsenii, Kim, Byeong-Chan, Lee, Juhyun, Kang, Taein, Vaishnav, Eeshit Dhaval, Yadollahpour, Payman, Kim, Sun, Albrecht, Jake, Regev, Aviv, Gong, Wuming, Kulakovskiy, Ivan V, Meyer, Pablo, de Boer, Carl G

“…A systematic evaluation of how model architectures and training strategies impact genomics model performance is needed. To address this gap, we held a DREAM…”
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Real-world Application of Racial and Ethnic Imputation and Cohort Balancing Techniques to Deliver Equitable Clinical Trial Recruitment by Craig, Kelly J, Ji, Yanrong Jerry, Zhang, Yuxin Chloe, Berk, Alexandra, Zaleski, Amanda, Abdelsamad, Omar, Coetzer, Henriette, Verbrugge, Dorothea J, Hua, Guangying

“…Enhancing diversity and inclusion in clinical trial recruitment, especially for historically marginalized populations including Black, Indigenous, and People…”
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IDH3α regulates one-carbon metabolism in glioblastoma by May, Jasmine L, Kouri, Fotini M, Hurley, Lisa A, Liu, Juan, Tommasini-Ghelfi, Serena, Ji, Yanrong, Gao, Peng, Calvert, Andrea E, Lee, Andrew, Chandel, Navdeep S, Davuluri, Ramana V, Horbinski, Craig M, Locasale, Jason W, Stegh, Alexander H

“…Mutation or transcriptional up-regulation of isocitrate dehydrogenases 1 and 2 ( and ) promotes cancer progression through metabolic reprogramming and…”
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DNABERT-2: Efficient Foundation Model and Benchmark For Multi-Species Genome by Zhou, Zhihan, Ji, Yanrong, Li, Weijian, Dutta, Pratik, Davuluri, Ramana, Liu, Han

“…Decoding the linguistic intricacies of the genome is a crucial problem in biology, and pre-trained foundational models such as DNABERT and Nucleotide…”
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Machine: The New Art Connoisseur by Zhu, Yucheng, Ji, Yanrong, Zhang, Yueying, Xu, Linxin, Zhou, Aven Le, Chan, Ellick

“…The process of identifying and understanding art styles to discover artistic influences is essential to the study of art history. Traditionally, trained…”
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