Works matching DE "RNA sequencing"

Results: 5000

Strong spontaneous tumor neoantigen responses induced by a natural human carcinogen.

Published in:

OncoImmunology, 2015, v. 4, n. 7, p. N.PAG, doi. 10.1080/2162402X.2015.1011492

By:

Creaney, Jenette;
Ma, Shaokang;
Sneddon, Sophie A;
Tourigny, Michelle R;
Dick, Ian M;
Leon, Justine S;
Khong, Andrea;
Fisher, Scott A;
Lake, Richard A;
Lesterhuis, W Joost;
Nowak, Anna K;
Leary, Shay;
Watson, Mark W;
Robinson, Bruce W

Publication type:

Article

A catalog of HLA type, HLA expression, and neo-epitope candidates in human cancer cell lines.

Published in:

OncoImmunology, 2014, v. 3, n. 8, p. N.PAG, doi. 10.4161/21624011.2014.954893

By:

Boegel, Sebastian;
Löwer, Martin;
Bukur, Thomas;
Sahin, Ugur;
Castle, John C

Publication type:

Article

Multi‐Omics Biomarkers for Predicting Efficacy of Biologic and Small‐Molecule Therapies in Adults With Inflammatory Bowel Disease: A Systematic Review.

Published in:

2025

By:

Chen, Liru;
Zhang, Chuhan;
Niu, Ruixuan;
Xiong, Shanshan;
He, Jinshen;
Wang, Yu;
Zhang, Pingxin;
Su, Fengyuan;
Liu, Zishan;
Zhou, Longyuan;
Mao, Ren;
Hu, Shixian;
Chen, Minhu;
Qiu, Yun;
Feng, Rui

Publication type:

Literature Review

Short tandem repeat variants are possibly associated with RNA secondary structure and gene expression.

Published in:

PLoS ONE, 2025, v. 20, n. 6, p. 1, doi. 10.1371/journal.pone.0326355

By:

Kinney, Nick;
Pathak, Dikshya;
Evans, Emma;
Arias, Paola

Publication type:

Article

Role of ADME genes in breast cancer prognosis: an analysis of risk scoring models based on multi-omics data.

Published in:

Frontiers in Oncology, 2025, p. 1, doi. 10.3389/fonc.2025.1582862

By:

Jin, Jie;
Zhao, Xueyun;
Deng, Miao;
Du, Lingyan

Publication type:

Article

Integrated machine learning and single-cell analysis reveal the prognostic and therapeutic potential of SUMOylation-related genes in ovarian cancer.

Published in:

Frontiers in Immunology, 2025, p. 1, doi. 10.3389/fimmu.2025.1577781

By:

Deng, Zhengrong;
Xu, Yicong;
Zhang, Peidong;
Peng, Yixiang;
Tan, Jiaxing;
Chen, Zihang;
Ma, Yimei

Publication type:

Article

Role of CD28+ PD-1+ Tc cells in immune response and prognosis prediction in hepatocellular carcinoma.

Published in:

Frontiers in Immunology, 2025, p. 1, doi. 10.3389/fimmu.2025.1576193

By:

Yang, Wuhan;
Pan, Teng;
Chen, Yaowen;
Guo, Hao;
Peng, Yaqi;
Wang, Chao;
Peng, Li;
Wang, Shubin

Publication type:

Article

Gene expression profiles identify key factors in inflammatory odontoblastic dental pulp stem cell differentiation via TNFα/C5L2.

Published in:

Frontiers in Genetics, 2025, p. 1, doi. 10.3389/fgene.2025.1592599

By:

Irfan, Muhammad;
Kim, Ji Hyun;
Sreekumar, Sreelekshmi;
Chung, Seung

Publication type:

Article

Revealing Potential Therapeutic Targets in Gastric Cancer through Inflammation and Protein-Protein Interaction Hub Networks.

Published in:

Journal of Cancer, 2025, v. 16, n. 8, p. 2720, doi. 10.7150/jca.112218

By:

Wei Wu;
Guoliang Li;
Lixin Chai;
Yating Yin;
Xin Xu;
Chenlun Han;
Hongyong Liu;
Yi Cao;
Yumiao Wang;
Qunhao Guo;
Wenxuan Chen;
Peter Wang;
Zhijian Pan

Publication type:

Article

Plaque erosion risk and JAK2 V617F variant Free.

Published in:

European Heart Journal, 2025, v. 46, n. 23, p. 2205, doi. 10.1093/eurheartj/ehaf114

By:

Wang, Shengfang;
Luo, Xing;
Hu, Sining;
Zhao, Chen;
Sun, Qianhui;
Zeng, Ming;
Bao, Xiaoyi;
Wang, Yini;
Wu, Fangfang;
Yang, Yeqiu;
Lv, Ying;
Bai, Xiaoxuan;
Hao, Wei;
Liu, Minghao;
Yi, Boling;
Chen, Yuwu;
Meng, Wei;
Li, Ji;
Li, Man;
Huang, Jianxin

Publication type:

Article

RNA sequencing reveals circular RNA expression patterns in chronic intermittent hypoxia.

Published in:

Sleep & Biological Rhythms, 2025, v. 23, n. 3, p. 295, doi. 10.1007/s41105-025-00577-w

By:

Li, Cong;
Su, Tiantian;
Chen, Yuqin;
Yue, Lei;
Zhang, Yu;
Shi, Song;
Wei, Wenjia

Publication type:

Article

Nonparametric IPSS: fast, flexible feature selection with false discovery control Open Access.

Published in:

Bioinformatics, 2025, v. 41, n. 5, p. 1, doi. 10.1093/bioinformatics/btaf299

By:

Melikechi, Omar;
Dunson, David B;
Miller, Jeffrey W

Publication type:

Article

Popcorn: prediction of short coding and noncoding genomic sequences in prokaryotes Open Access.

Published in:

Bioinformatics, 2025, v. 41, n. 5, p. 1, doi. 10.1093/bioinformatics/btaf250

By:

Kyrouz, Alison;
Liu, Lian;
Qin, Lixin;
Tjaden, Brian

Publication type:

Article

scMUSCL: multi-source transfer learning for clustering scRNA-seq data Open Access.

Published in:

Bioinformatics, 2025, v. 41, n. 5, p. 1, doi. 10.1093/bioinformatics/btaf137

By:

Khoeini, Arash;
Sar, Funda;
Lin, Yen-Yi;
Collins, Colin;
Ester, Martin

Publication type:

Article

Insights of Phaseolus vulgaris ' response to infection by Uromyces appendiculatus using an RNA-seq approach.

Published in:

Frontiers in Plant Science, 2025, p. 1, doi. 10.3389/fpls.2025.1557954

By:

Makhumbila, Penny;
Rauwane, Molemi;
Muedi, Hangwani;
Figlan, Sandiswa

Publication type:

Article

From inserts to chips: microfluidic culture and 3D astrocyte co-culture drive functional and transcriptomic changes in hiPSC-derived endothelial cells.

Published in:

Fluids & Barriers of the CNS, 2025, v. 22, n. 1, p. 1, doi. 10.1186/s12987-025-00672-7

By:

Sonninen, Tuuli-Maria;
Peltonen, Sanni;
Kälvälä, Sara;
Nguyen, Hoang-Tuan;
Ruponen, Marika;
Singh, Prateek;
Lehtonen, Šárka

Publication type:

Article

Corrigendum: Inonotus obliquus (chaga) ameliorates folic acid-induced renal fibrosis in mice: the crosstalk analysis among PT cells, macrophages and T cells based on single-cell sequencing.

Published in:

2025

By:

Peng, Yueling;
Zhang, Yaling;
Wang, Rui;
Wang, Xinyu;
Liu, Xingwei;
Liao, Hui;
Li, Rongshan

Publication type:

Correction Notice

Inonotus obliquus (chaga) ameliorates folic acid-induced renal fibrosis in mice: the crosstalk analysis among PT cells, macrophages and T cells based on single-cell sequencing.

Published in:

Frontiers in Pharmacology, 2025, p. 1, doi. 10.3389/fphar.2025.1556739

By:

Peng, Yueling;
Zhang, Yaling;
Wang, Rui;
Wang, Xinyu;
Liu, Xingwei;
Liao, Hui;
Li, Rongshan

Publication type:

Article

Metabolic profiling of glioblastoma and identification of G0S2 as a metabolic target.

Published in:

Frontiers in Oncology, 2025, p. 1, doi. 10.3389/fonc.2025.1572040

By:

Kang, Jianlei;
Xu, Yujie;
Zhao, Qitai;
Wang, Ying;
He, Zhenyan;
Xu, Xin

Publication type:

Article

Single-cell transcriptome profiling reveals dynamic cell populations and immune infiltration in cerebral cavernous malformation.

Published in:

Frontiers in Immunology, 2025, p. 1, doi. 10.3389/fimmu.2025.1592343

By:

Han, Zhiguang;
Lei, Chengxu;
Zhou, Zhenyu;
Liu, Yutong;
Zhao, Yuanli;
He, Shihao

Publication type:

Article

FKBP5 promotes osteogenic differentiation of mesenchymal stem cells through type-I interferon pathway Inhibition.

Published in:

Cellular & Molecular Life Sciences, 2025, v. 82, n. 1, p. 1, doi. 10.1007/s00018-025-05754-1

By:

Tang, Jun;
Li, Ming;
Chen, Yuanquan;
Liang, Yuwei;
Yan, Wenbin;
Ning, Qing;
Deng, Hao;
Liu, Huatao;
Li, Yuxi;
Huang, Lin

Publication type:

Article

Identification of immune subtypes associated with the prognosis in skull base chordoma.

Published in:

Acta Neuropathologica Communications, 2025, v. 13, n. 1, p. 1, doi. 10.1186/s40478-025-02053-5

By:

Xiong, Yujia;
Li, Mingxuan;
Niu, Guangyi;
Xu, Tianyi;
Li, Chuzhong;
Ma, Tianshun;
Zhang, Tianhao;
Koka, Hela;
Hao, Lili;
Zhang, Yazhuo;
Bai, Jiwei;
Yang, Xiaohong R.

Publication type:

Article

A CD8+ T Cell Infiltration–Driven Prognostic Signature for Gastric Cancer: Bridging Tumor Immunity and Clinical Outcomes.

Published in:

International Journal of Genomics, 2025, v. 2025, p. 1, doi. 10.1155/ijog/6629479

By:

Qian, Yiting;
Sun, Bo;
Lai, Linying;
Xu, Fengying;
Liu, Ruilin;
Yang, Wenzhuo;
Zhao, Songyun

Publication type:

Article

Resolving spatial subclonal genomic heterogeneity of loss of heterozygosity and extrachromosomal DNA in gliomas.

Published in:

Nature Communications, 2025, v. 16, n. 1, p. 1, doi. 10.1038/s41467-025-59805-z

By:

Webb, Michelle G.;
Chow, Frances;
McCullough, Carmel G.;
Zhang, Bohan;
Lee, John J. Y.;
Bassiouni, Rania;
Garrett III, Norman E.;
Hurth, Kyle;
Carpten, John D.;
Zada, Gabriel;
Craig, David W.

Publication type:

Article

Computational Analysis of GPCR Networks in Opioid Use Disorder: From Transcriptomics to Drug Discovery.

Published in:

Pathobiology Research, 2025, v. 28, n. 2, p. 35

By:

Sadr, Narjes Khatoun Shabani;
Mirzaei, Mahsa;
Behmanesh, Mehrdad

Publication type:

Article

Sparse deconvolution of cell type medleys in spatial transcriptomics.

Published in:

PLoS Computational Biology, 2025, v. 21, n. 6, p. 1, doi. 10.1371/journal.pcbi.1013169

By:

Erdogan, Nuray Sogunmez;
Eroglu, Deniz

Publication type:

Article

The Nanopore Chief Officer: An Interview with Clive Brown.

Published in:

GEN Biotechnology, 2025, v. 4, n. 3, p. 107, doi. 10.1089/genbio.2025.0022

By:

Brown, Clive;
Davies, Kevin

Publication type:

Article

Single-cell and bulk RNA analysis identifies EMT-associated CAF signatures and prognostic model in lung adenocarcinoma.

Published in:

Discover Oncology, 2025, v. 16, n. 1, p. 1, doi. 10.1007/s12672-025-02951-z

By:

An, He;
An, Ping

Publication type:

Article

Single-cell transcriptomics identify a chemotherapy-resistance related cluster overexpressed CLIC3 in ovarian cancer.

Published in:

Discover Oncology, 2025, v. 16, n. 1, p. 1, doi. 10.1007/s12672-025-02882-9

By:

Li, Zhefeng;
Li, Jie;
Li, Yue;
Yi, Junjie;
Zhao, Xiaoting;
Yue, Wentao

Publication type:

Article

Augmenting precision medicine via targeted RNA-Seq detection of expressed mutations.

Published in:

NPJ Precision Oncology, 2025, v. 9, n. 1, p. 1, doi. 10.1038/s41698-025-00993-8

By:

Li, Dan;
Li, Jianying;
Johann Jr, Donald J.;
Butler, Daniel;
Chen, Guangchun;
Foox, Jonathan;
Gong, Binsheng;
Jones, Wendell;
Kreil, David P.;
Kusko, Rebecca;
Łabaj, Paweł P.;
Lucas, Anne Bergstrom;
Mason, Christopher E.;
Mozsary, Christopher;
Novoradovskaya, Natalia;
Pabón-Peña, Carlos;
Pan, Bohu;
Richmond, Todd A.;
Maestro, Roberta;
Ebrahim Sahraeian, Sayed Mohammad

Publication type:

Article

SugiExDB: data repository for Cryptomeria japonica RNA-sequencing read counts in TogoDB.

Published in:

Journal of Wood Science, 2025, v. 71, n. 1, p. 1, doi. 10.1186/s10086-025-02205-0

By:

Takata, Naoki;
Sato, Ryosuke;
Nagano, Soichiro;
Ueno, Saneyoshi

Publication type:

Article

Construction of a combined disease-syndrome animal model of dilated cardiomyopathy with heart failure toxin syndrome and study on potential biomarkersEnhanced Publication.

Published in:

Journal of Beijing University of Traditional Chinese Medicine, 2025, v. 48, n. 5, p. 613, doi. 10.3969/j.issn.1006-2157.2025.05.004

By:

Feng, JIANG;
Jiayang, TANG;
Xiangyi, QIAN;
Hai, PAN;
Aolong, HE;
Xiaoqi, WEI;
Jinling, XIAO;
Wei, WANG;
Shuzhen, GUO

Publication type:

Article

Mechanisms of organotropism in breast cancer and predicting metastasis to distant organs using deep learning.

Published in:

Discover Oncology, 2025, v. 16, n. 1, p. 1, doi. 10.1007/s12672-025-02905-5

By:

Xiao, Meizhu;
Fu, Zhijin;
Li, Yanjiao;
Zhang, Min;
Zhang, Denan;
Liu, Lei;
Jin, Qing;
Chen, Xiujie;
Xie, Hongbo

Publication type:

Article

Identification of mitophagy-related biomarkers in severe acute pancreatitis: integration of WGCNA, machine learning algorithms and scRNA-seq.

Published in:

Frontiers in Immunology, 2025, p. 1, doi. 10.3389/fimmu.2025.1594085

By:

Xie, Xiaozhou;
Wang, Zheng;
Zhang, Haoyu;
Lu, Jiongdi;
Cao, Feng;
Li, Fei

Publication type:

Article

Exploring the role of neutrophils in inflammatory pain hypersensitivity via single-cell transcriptome profiling.

Published in:

Frontiers in Immunology, 2025, p. 1, doi. 10.3389/fimmu.2025.1552993

By:

Ding, Kai;
Liu, Xing;
Zeng, Bin;
Liu, Songyu;
Zhang, Lu;
Li, Bo;
Zhou, Jinyi;
Su, Xiaosan;
Wang, Jun

Publication type:

Article

Development and validation of a transcription factor regulatory network‐based signature for individualized prognostic risk in lung adenocarcinoma.

Published in:

International Journal of Cancer, 2025, v. 156, n. 12, p. 2440, doi. 10.1002/ijc.35375

By:

Wang, Kai;
Xiang, Jun;
Zhou, Jun;
Chen, Congcong;
Wang, Zhoufeng;
Qin, Na;
Zhu, Meng;
Bi, Lingfeng;
Gong, Linnan;
Yang, Liu;
Chen, Yingjia;
Xu, Xianfeng;
Dai, Juncheng;
Ma, Hongxia;
Hu, Zhibin;
Li, Weimin;
Wang, Cheng;
Jin, Guangfu;
Shen, Hongbing

Publication type:

Article

ORM1 促肝细胞增殖的作用及其机制探索.

Published in:

Journal of Pharmaceutical Practice & Service, 2025, v. 43, n. 5, p. 222, doi. 10.12206/j.issn.2097-2024.202410014

By:

杨金润;
黎翔;
孙旸

Publication type:

Article

Unraveling the Nectar Secretion Pathway and Floral-Specific Expression of SWEET and CWIV Genes in Five Dandelion Species Through RNA Sequencing.

Published in:

Plants (2223-7747), 2025, v. 14, n. 11, p. 1718, doi. 10.3390/plants14111718

By:

Claude, Sivagami-Jean;
Park, Sunmi;
Park, Seong-Jun;
Park, SeonJoo

Publication type:

Article

Hormonal and Transcriptomic Insights into Inflorescence Stalk Elongation in Oil Palm.

Published in:

Plants (2223-7747), 2025, v. 14, n. 11, p. 1715, doi. 10.3390/plants14111715

By:

Shi, Peng;
Htwe, Yin Min;
Zhang, Dapeng;
Li, Zhiying;
Yu, Qun;
He, Xiangman;
Yang, Jing;
Wang, Yong

Publication type:

Article

Biomarkers Related to Interferon-γ Pathway in Myocardial Ischemia–Reperfusion Injury and the Potential Molecular Mechanisms.

Published in:

Cardiovascular Toxicology, 2025, v. 25, n. 7, p. 1067, doi. 10.1007/s12012-025-09999-x

By:

Jia, Fang;
Jiang, Wei;
Zhang, Yan;
Zhang, Lisha;
Han, Tuo;
Liu, Danmeng;
Xue, Jiahong;
Deng, Fuxue

Publication type:

Article

Genome-wide quantitative dissection of an arthropod segmented body plan at single-cell resolution.

Published in:

Communications Biology, 2025, v. 8, n. 1, p. 1, doi. 10.1038/s42003-025-08335-x

By:

Akaiwa, Takanori;
Oda, Hiroki;
Akiyama-Oda, Yasuko

Publication type:

Article

Unveiling the Therapeutic Potential of Baicalin in Intervertebral Disc Degeneration: Integrative Bulk and Single-Cell Transcriptome Analysis with Experimental Validation of PANoptosis Inhibition.

Published in:

Journal of Inflammation Research, 2025, v. 18, p. 6963, doi. 10.2147/JIR.S519179

By:

Wang, Xiaoqiang;
Gao, Silong;
Zhou, Daqian;
Cai, Weiye;
Lv, Jiale;
Wei, Zhangchao;
Song, Chao;
Shan, Xubin;
Liu, Zongchao

Publication type:

Article

Molecular Mechanisms of Biochanin A in AML Cells: Apoptosis Induction and Pathway-Specific Regulation in U937 and THP-1.

Published in:

International Journal of Molecular Sciences, 2025, v. 26, n. 11, p. 5317, doi. 10.3390/ijms26115317

By:

Wu, Pei-Shan;
Yen, Jui-Hung;
Chen, Pei-Yi;
Wu, Ming-Jiuan

Publication type:

Article

Transcriptome Analysis Reveals Co-Expression Regulation of Sugar Transport and Signaling Networks in Initiating Stolon-to-Tuber Transition in Potato.

Published in:

International Journal of Molecular Sciences, 2025, v. 26, n. 11, p. 5278, doi. 10.3390/ijms26115278

By:

Hu, Jun;
Hu, Jinxue;
Duan, Shaoguang;
Xiang, Congchao;
Duan, Yanfeng;
Zhang, Shuqing;
Li, Guangcun

Publication type:

Article

Integrative Single-Cell and Bulk RNA Sequencing Identifies a Glycolysis-Related Prognostic Signature for Predicting Prognosis in Pancreatic Cancer.

Published in:

International Journal of Molecular Sciences, 2025, v. 26, n. 11, p. 5105, doi. 10.3390/ijms26115105

By:

Wu, Nan;
Zhou, Chong;
Yan, Xu;
Liu, Ziang;
Jiang, Ruohan;
Luo, Yuzhou;
Jiang, Ping;
Mu, Yu;
Xiao, Shan;
Huang, Xien;
Zhou, Yunzhen;
Sun, Donglin;
Jin, Yan

Publication type:

Article

Short- and Long-Term Endothelial Inflammation Have Distinct Effects and Overlap with Signatures of Cellular Senescence.

Published in:

Cells (2073-4409), 2025, v. 14, n. 11, p. 806, doi. 10.3390/cells14110806

By:

Belakova, Barbora;
Basílio, José;
Campos-Medina, Manuel;
Sommer, Anna F. P.;
Gielecińska, Adrianna;
Resch, Ulrike;
Schmid, Johannes A.

Publication type:

Article

Therapeutic Potential of Human Amniotic Membrane-Derived Mesenchymal Stem Cell Conditioned Medium in Combating Oxidative Stress and Age-Related Female Infertility.

Published in:

Cells (2073-4409), 2025, v. 14, n. 11, p. 801, doi. 10.3390/cells14110801

By:

Ra, Kihae

Publication type:

Article

Molecular Fingerprint of Endocannabinoid Signaling in the Developing Paraventricular Nucleus of the Hypothalamus as Revealed by Single-Cell RNA-Seq and In Situ Hybridization.

Published in:

Cells (2073-4409), 2025, v. 14, n. 11, p. 788, doi. 10.3390/cells14110788

By:

Tretiakov, Evgenii O.;
Hevesi, Zsófia;
Böröczky, Csenge;
Alpár, Alán;
Harkany, Tibor;
Keimpema, Erik

Publication type:

Article

The cGAS/STING Pathway: Friend or Foe in Regulating Cardiomyopathy.

Published in:

Cells (2073-4409), 2025, v. 14, n. 11, p. 778, doi. 10.3390/cells14110778

By:

Wang, Weiyue;
Gao, Yuanxu;
Lee, Hyun Kyoung;
Yu, Albert Cheung-Hoi;
Kipp, Markus;
Kaddatz, Hannes;
Zhan, Jiangshan

Publication type:

Article

Deciphering the prognostic landscape of triple‐negative breast cancer: A focus on immune‐related hub genes and therapeutic implications.

Published in:

Biotechnology & Applied Biochemistry, 2025, v. 72, n. 3, p. 825, doi. 10.1002/bab.2700

By:

Krishnamoorthy, HemaNandini Rajendran;
Karuppasamy, Ramanathan

Publication type:

Article