Works matching DE "TRANSCRIPTOMES"

Results: 5000

Single-cell and bulk transcriptome sequencing identifies circadian rhythm disruption and cluster-specific clinical insights in colorectal tumorigenesis.

Published in:

Discover Oncology, 2025, v. 16, n. 1, p. 1, doi. 10.1007/s12672-025-02521-3

By:

Liu, Chen;
Liu, Jingyang;
Shao, Jing;
Zhao, Xiaoman;
Xie, Lin;
Shang, Mengyao;
Li, Ying;
Li, Weiming

Publication type:

Article

Molecular landscape of atherosclerotic plaque progression: insights from proteomics, single-cell transcriptomics and genomics.

Published in:

BMC Medicine, 2025, v. 23, n. 1, p. 1, doi. 10.1186/s12916-025-04058-2

By:

Wang, Chaonan;
Feng, Yuyao;
Liu, Xiaoyan;
Sun, Haidan;
Guo, Zhengguang;
Shao, Jiang;
Li, Kang;
Chen, Junye;
Shu, Keqiang;
Kong, Deqiang;
Wang, Jiaxian;
Li, Yiran;
Lei, Xiangling;
Li, Chen;
Liu, Bao;
Sun, Wei;
Lai, Zhichao

Publication type:

Article

Multi‐omics analyses reveal distinct molecular characteristics and transformation mechanisms of stage I–III micropapillary lung adenocarcinoma.

Published in:

Journal of Pathology, 2025, v. 266, n. 2, p. 204, doi. 10.1002/path.6416

By:

Qu, Yang;
Feng, Xiaoli;
Chen, Hanlin;
Tan, Fengwei;
Shao, Anqi;
Pang, Jiaohui;
Xue, Qi;
Zheng, Bo;
Zheng, Wei;
Ou, Qiuxiang;
Gao, Shugeng;
Shao, Kang

Publication type:

Article

Correction to: Transcriptomic analysis reveals potential roles of polyamine and proline metabolism in waterlogged peach roots inoculated with Funneliformis mosseae and Serendipita indica.

Published in:: Tree Physiology, 2025, v. 45, n. 4, p. 1, doi. 10.1093/treephys/tpaf040
Publication type:: Article

Integrated transcriptomic and metabolomic analyses reveal regulatory networks governing hub metabolic pathways in Fraxinus hupehensis seeds during germination.

Published in:

Tree Physiology, 2025, v. 45, n. 4, p. 1, doi. 10.1093/treephys/tpaf032

By:

Wei, Yifan;
Deng, Jing;
Tang, Huan;
Xu, Jia;
Zhou, Mingqin;
Ye, Jiabao

Publication type:

Article

棉花野生种质资源的育种应用研究与前景.

Published in:

Biotechnology Bulletin, 2025, v. 41, n. 4, p. 21, doi. 10.13560/j.cnki.biotech.bull.1985.2024-0890

By:

牛若宇;
高瞻;
熊显鹏;
祝德;
罗皓天;
马学远;
胡冠菁

Publication type:

Article

Integrating metabolomics and transcriptomics comprehensively reveals the global metabolic differences in three species of Nitraria berries.

Published in:

Scientific Reports, 2025, v. 15, n. 1, p. 1, doi. 10.1038/s41598-025-00445-0

By:

Li, Yanhong;
Wang, Shengyan;
Zhao, Qing;
Wang, Qian;
Yang, Zufan;
Jia, Qiangqiang

Publication type:

Article

Genome-Wide Temporal Gene Expression Reveals a Post-Reproductive Shift in the Nematode Caenorhabditis briggsae.

Published in:

Genome Biology & Evolution, 2025, v. 17, n. 4, p. 1, doi. 10.1093/gbe/evaf057

By:

van den Berg, Wouter;
Gupta, Bhagwati P

Publication type:

Article

Replicability of bulk RNA-Seq differential expression and enrichment analysis results for small cohort sizes.

Published in:

PLoS Computational Biology, 2025, v. 21, n. 5, p. 1, doi. 10.1371/journal.pcbi.1011630

By:

Degen, Peter Methys;
Medo, Matúš

Publication type:

Article

Identification of key transcription factors, including DAL80 and CRZ1, involved in heat and ethanol tolerance in Saccharomyces cerevisiae.

Published in:

Biotechnology for Biofuels & Bioproducts, 2025, v. 18, n. 1, p. 1, doi. 10.1186/s13068-025-02653-2

By:

Chen, Rong-Rong;
Wang, Li;
Ji, Xue-Xue;
Xie, Cai-Yun;
Tang, Yue-Qin

Publication type:

Article

Early Transcriptomic Profile of Mucosal Immune Responses in the Intestine of Japanese Puffer (Takifugu rubripes) Infected With Vibrio harveyi.

Published in:

Aquaculture Research, 2025, v. 2025, p. 1, doi. 10.1155/are/9921481

By:

Li, Yihao;
Ma, Hongli;
Guo, Zhixin;
Lu, Xiaocen;
Zhou, Peilin;
Cui, Yanhong;
Ye, Shigen

Publication type:

Article

Integrated metabolomics and transcriptomics analysis comprehensively revealed the underlying metabolite mechanism difference between Male and Female Eucommia ulmoides Oliver.

Published in:

BMC Plant Biology, 2025, v. 25, n. 1, p. 1, doi. 10.1186/s12870-025-06575-x

By:

Wang, Pei-lu;
You, Jin-ling;
Hua, Qian-ming;
Li, Hua-qiang;
Shi, Qi;
Li, Wen-long;
Sheng, Yun-jie;
Liu, Kao-hua;
He, Bing-qian;
Zhang, Qiao-yan;
Qin, Lu-ping;
Meng, Xiong-yu

Publication type:

Article

Oligodendroglia vulnerability in the human dorsal striatum in Parkinson's disease.

Published in:

Acta Neuropathologica, 2025, v. 149, n. 1, p. 1, doi. 10.1007/s00401-025-02884-5

By:

Barba-Reyes, Juan M.;
Harder, Lisbeth;
Marco Salas, Sergio;
Jaisa-aad, Methasit;
Muñoz-Castro, Clara;
Garma, Leonardo D.;
Rafati, Nima;
Nilsson, Mats;
Hyman, Bradley T.;
Serrano-Pozo, Alberto;
Muñoz-Manchado, Ana B.

Publication type:

Article

A coagulation-related long non-coding RNA signature to predict prognosis and immune features of breast cancer.

Published in:

Discover Oncology, 2025, v. 16, n. 1, p. 1, doi. 10.1007/s12672-025-02316-6

By:

Han, Yetao;
Hu, Mengsi;
Wang, Yanzhong;
Xu, Shoufang;
Jiang, Feiyu;
Wang, Yingjian;
Liu, Zhiwei

Publication type:

Article

Integrating analysis of multi-omics summary data identifies novel plasma protein biomarkers and drug targets for bladder cancer.

Published in:

Discover Oncology, 2025, v. 16, n. 1, p. 1, doi. 10.1007/s12672-025-02476-5

By:

Cao, Jinlong;
Chen, Siyu;
Wang, Jirong;
Fan, Xinpeng;
Liu, Shanhui;
Shan, Jiaqi;
Li, Xiaoran;
Yang, Li

Publication type:

Article

Resolving Deep Relationships and Revealing Ancient Whole-Genome Duplications in Pteridaceae using Transcriptomic Data.

Published in:

American Fern Journal, 2023, v. 113, n. 3, p. 191, doi. 10.1640/0002-8444-113.3.191

By:

Song, Michael J.;
Rothfels, Carl J.;
Schuettpelz, Eric;
Nitta, Joel;
Huiet, Layne;
Li, Fay-Wei;
Wefferling, Keir M.

Publication type:

Article

The Diagnostic Model of Ligusticum Chuanxiong Hort. Against Cerebral Stroke Using Network Pharmacology and Transcriptomics Analyses.

Published in:

Journal of Integrative Neuroscience, 2023, v. 22, n. 6, p. 1, doi. 10.31083/j.jin2206149

By:

Jinfeng Zhang;
Chongyin Cai;
Ying Luo;
Yan Wu;
Fanghui Qiu

Publication type:

Article

Transcriptome Evidence Reveals Mitochondrial Unfolded Protein Response Participate in SH-SY5Y Cells Exposed to Manganese.

Published in:

Journal of Integrative Neuroscience, 2022, v. 21, n. 5, p. 1, doi. 10.31083/j.jin2105127

By:

Shixuan Zhang;
Li Chen;
Tian Chen;
Yuanyuan Zhang;
Junxiang Ma;
Hongyun Ji;
Caixia Guo;
Zhongxin Xiao;
Jie Li;
Piye Niu

Publication type:

Article

SREBP and central nervous system disorders: genetic overlaps revealed by in silico analysis.

Published in:

Journal of Integrative Neuroscience, 2022, v. 21, n. 3, p. 1, doi. 10.31083/j.jin2103095

By:

Ang, Mary Jasmin;
Changjong Moon

Publication type:

Article

Identification of a novel immune-related lncRNA signature to predict prognostic outcome and therapeutic efficacy of LGG.

Published in:

Journal of Integrative Neuroscience, 2022, v. 21, n. 2, p. 1, doi. 10.31083/j.jin2102055

By:

Dongdong Wu;
Xuning Wang;
Yonggan Xue;
Caihong Sun;
Meng Zhang

Publication type:

Article

Transcriptomic profile of epileptic children treated with ketogenic therapies.

Published in:

Journal of Integrative Neuroscience, 2022, v. 21, n. 1, p. 1, doi. 10.31083/j.jin2101031

By:

Ruiz-Herrero, Jana;
Olaso-Gonzalez, Gloria;
Serna, Eva;
Cañedo-Villarroya, Elvira;
Correas, Angela G.;
Gambini, Juan;
Gomez-Cabrera, Mari Carmen;
Pedrón-Giner, Consuelo;
Vina, Jose

Publication type:

Article

Gene representation bias in spatial transcriptomics.

Published in:

Journal of Bioinformatics & Computational Biology, 2024, v. 22, n. 3, p. 1, doi. 10.1142/S0219720024500070

By:

Li, Xinling;
Qiu, Peng

Publication type:

Article

Transcriptomic meta-analysis reveals biomarker pairs and key pathways in Tetralogy of Fallot.

Published in:

Journal of Bioinformatics & Computational Biology, 2022, v. 20, n. 4, p. 1, doi. 10.1142/S0219720022400042

By:

Charles, Sona;
Sreekumar, J;
Natarajan, Jeyakumar

Publication type:

Article

Transforming OMIC features for classification using siamese convolutional networks.

Published in:

Journal of Bioinformatics & Computational Biology, 2022, v. 20, n. 3, p. 1, doi. 10.1142/S0219720022500135

By:

Wang, Qian;
Duan, Meiyu;
Fan, Yusi;
Liu, Shuai;
Ren, Yanjiao;
Huang, Lan;
Zhou, Fengfeng

Publication type:

Article

Identification of jointly correlated gene sets.

Published in:

Journal of Bioinformatics & Computational Biology, 2018, v. 16, n. 5, p. N.PAG, doi. 10.1142/S021972001840019X

By:

Ren, Yuanfang;
Ay, Ahmet;
Gerke, Travis A.;
Kahveci, Tamer

Publication type:

Article

Discovery of novel antimicrobial peptides: A transcriptomic study of the sea anemone Cnidopus japonicus.

Published in:

Journal of Bioinformatics & Computational Biology, 2018, v. 16, n. 2, p. -1, doi. 10.1142/S0219720018400061

By:

Grafskaia, Ekaterina N.;
Polina, Nadezhda F.;
Babenko, Vladislav V.;
Kharlampieva, Daria D.;
Bobrovsky, Pavel A.;
Manuvera, Valentin A.;
Farafonova, Tatyana E.;
Anikanov, Nikolay A.;
Lazarev, Vassili N.

Publication type:

Article

Integrating multiple statistical indices to measure the stability of photosynthetic pigment content and composition in Brassica juncea (L.) Czern germplasm under varying environmental conditions.

Published in:

Photosynthesis Research, 2024, v. 162, n. 1, p. 63, doi. 10.1007/s11120-024-01116-3

By:

Ansari, Aaftab Alam;
Akhatar, Javed;
Sharma, Sanjula;
Banga, Surinder Singh;
Atri, Chhaya

Publication type:

Article

Photosynthetic characterization and expression profiles of sugarcane infected by Sugarcane mosaic virus (SCMV).

Published in:

Photosynthesis Research, 2021, v. 150, n. 1-3, p. 279, doi. 10.1007/s11120-019-00706-w

By:

Akbar, Sehrish;
Yao, Wei;
Yu, Kai;
Qin, Lifang;
Ruan, Miaohong;
Powell, Charles A.;
Chen, Baoshan;
Zhang, Muqing

Publication type:

Article

Transcriptome expression profiles reveal response mechanisms to drought and drought-stress mitigation mechanisms by exogenous glycine betaine in maize.

Published in:

Biotechnology Letters, 2022, v. 44, n. 3, p. 367, doi. 10.1007/s10529-022-03221-6

By:

Bai, Mingxing;
Zeng, Wenjing;
Chen, Fenqi;
Ji, Xiangzhuo;
Zhuang, Zelong;
Jin, Bingbing;
Wang, Jiliang;
Jia, Luhui;
Peng, Yunling

Publication type:

Article

Genomic and Transcriptomic Diversification of Flagellin Genes Provides Insight into Environmental Adaptation and Phylogeographic Characteristics in Aeromonas hydrophila.

Published in:

Microbial Ecology, 2024, v. 87, n. 1, p. 1, doi. 10.1007/s00248-024-02373-4

By:

Roh, HyeongJin;
Kannimuthu, Dhamotharan

Publication type:

Article

Comparative Transcriptomic and Proteomic Analyses Provide New Insights into the Tolerance to Cyclic Dehydration in a Lichen Phycobiont.

Published in:

Microbial Ecology, 2023, v. 86, n. 3, p. 1725, doi. 10.1007/s00248-023-02213-x

By:

del Campo, Eva M.;
Gasulla, Francisco;
Hell, Aline F.;
González-Hourcade, María;
Casano, Leonardo M.

Publication type:

Article

Transcriptomic analysis reveals potential roles of polyamine and proline metabolism in waterlogged peach roots inoculated with Funneliformis mosseae and Serendipita indica.

Published in:

Tree Physiology, 2025, v. 45, n. 2, p. 1, doi. 10.1093/treephys/tpaf013

By:

Liang, Sheng-Min;
Abeer, Hashem;
Abd_Allah, Elsayed Fathi;
Wu, Qiang-Sheng

Publication type:

Article

The Trx–Prx redox pathway and PGR5/PGRL1-dependent cyclic electron transfer play key regulatory roles in poplar drought stress.

Published in:

Tree Physiology, 2025, v. 45, n. 2, p. 1, doi. 10.1093/treephys/tpaf004

By:

Guangxin, Ji;
Zheyuan, Wang;
Jiaqi, Song;
Hongrui, Zhang;
Kexin, Wang;
Jingjing, Xu;
Nan, Sun;
Tanhang, Zhang;
Siyue, Qi;
Changjun, Ding;
Huihui, Zhang

Publication type:

Article

Modulation of polar auxin transport identifies the molecular determinants of source–sink carbon relationships and sink strength in poplar.

Published in:

Tree Physiology, 2024, v. 44, n. 13, p. 82, doi. 10.1093/treephys/tpad073

By:

Balasubramanian, Vimal K;
Rivas-Ubach, Albert;
Winkler, Tanya;
Mitchell, Hugh;
Moran, James;
Ahkami, Amir H

Publication type:

Article

Pathophysiology and transcriptomic responses of Pinus armandii defenses to ophiostomatoid fungi.

Published in:

Tree Physiology, 2024, v. 44, n. 6, p. 1, doi. 10.1093/treephys/tpae056

By:

Wang, Huimin;
Liu, Ya;
Wang, Tiantian;
Liu, Duanchong;
Lu, Quan

Publication type:

Article

Comparative transcriptomics of the chilling stress response in two Asian mangrove species, Bruguiera gymnorhiza and Rhizophora apiculata.

Published in:

Tree Physiology, 2024, v. 44, n. 3, p. 1, doi. 10.1093/treephys/tpae019

By:

Short, Aidan W;
Sebastian, John Sunoj V;
Huang, Jie;
Wang, Guannan;
Dassanayake, Maheshi;
Finnegan, Patrick M;
Parker, John D;
Cao, Kun-Fang;
Wee, Alison K S

Publication type:

Article

The impact of insect egg deposition on Pinus sylvestris transcriptomic and phytohormonal responses to larval herbivory.

Published in:

Tree Physiology, 2024, v. 44, n. 2, p. 1, doi. 10.1093/treephys/tpae008

By:

Hundacker, Janik;
Linda, Tom;
Hilker, Monika;
Lortzing, Vivien;
Bittner, Norbert

Publication type:

Article

Transcriptome and photosynthetic analyses provide new insight into the molecular mechanisms underlying heat stress tolerance in Rhododendron × pulchrum Sweet.

Published in:

Tree Physiology, 2024, v. 44, n. 1, p. 1, doi. 10.1093/treephys/tpad133

By:

Cheng, Hefeng;
Wan, Ziyun;
Xu, Yanxia;
Shen, Jianshuang;
Li, Xueqin;
Jin, Songheng

Publication type:

Article

Novel insights into the role of leaf in the cutting process of Camellia sinensis using physiological, biochemical and transcriptome analyses.

Published in:

Tree Physiology, 2023, v. 43, n. 11, p. 2031, doi. 10.1093/treephys/tpad101

By:

Zhang, Hong;
Chen, Binrui;
Zhao, Xiaoyi;
Hu, Jing;
Dong, Zhijie;
Xiao, Hui;
Yuan, Yanwen;
Guo, Fei;
Wang, Yu;
Ni, Dejiang;
Wang, Pu

Publication type:

Article

Transcriptomic and physiological comparison of Shatangju (Citrus reticulata) and its late-maturing mutant provides insights into auxin regulation of citrus fruit maturation.

Published in:

Tree Physiology, 2023, v. 43, n. 10, p. 1841, doi. 10.1093/treephys/tpad089

By:

Lv, Yuanda;
Ren, Shuang;
Wu, Bo;
Jiang, Caizhong;
Jiang, Bo;
Zhou, Birong;
Zhong, Guangyan;
Zhong, Yun;
Yan, Huaxue

Publication type:

Article

Transcriptomic and metabolomic analyses unveil the growth advantage mechanism conferred by heterosis of Michelia 'Zhongshanhanxiao'.

Published in:

Tree Physiology, 2023, v. 43, n. 8, p. 1454, doi. 10.1093/treephys/tpad046

By:

Chen, Tingting;
Wang, Zhiquan;
Wang, Junjie;
Liu, Jiaqi;
Zhang, Rui;
Jia, Xiaoyu;
Yu, Chaoguang;
Yin, Yunlong;
Creech, David

Publication type:

Article

Physiological and transcriptomic characterization of cadmium toxicity in Moso bamboo (Phyllostachys edulis), a non-timber forest species.

Published in:

Tree Physiology, 2023, v. 43, n. 7, p. 1250, doi. 10.1093/treephys/tpad028

By:

Yang, Fan;
Chang, Yu Zhen;
Zheng, Yi Ting;
Pan, Xianyu;
Ji, Haibao;
Shao, Ji Feng

Publication type:

Article

Transcriptomic analysis reveals differentially expressed genes associated with pine wood nematode resistance in resistant Pinus thunbergii.

Published in:

Tree Physiology, 2023, v. 43, n. 6, p. 995, doi. 10.1093/treephys/tpad018

By:

Wang, Xin-Yu;
Wu, Xiao-Qin;
Wen, Tong-Yue;
Feng, Ya-Qi;
Zhang, Yan

Publication type:

Article

Spatiotemporal, physiological and transcriptomic dynamics of wild jujube seedlings under saline conditions.

Published in:

Tree Physiology, 2023, v. 43, n. 5, p. 832, doi. 10.1093/treephys/tpad001

By:

He, Aobing;
Ma, Zhibo;
Li, Yunfei;
Huang, Chen;
Yong, Jean Wan Hong;
Huang, Jian

Publication type:

Article

Physiological and transcriptome analyses of the effects of excessive water deficit on malic acid accumulation in apple.

Published in:

Tree Physiology, 2023, v. 43, n. 5, p. 851, doi. 10.1093/treephys/tpac149

By:

Wang, Ping;
Lu, Shixiong;
Cao, Xuejing;
Ma, Zonghuan;
Chen, Baihong;
Mao, Juan

Publication type:

Article

Natural annual transcriptome dynamics of Eucalyptus reveal seasonal adaptation of tropical/sub-tropical trees.

Published in:

Tree Physiology, 2023, v. 43, n. 4, p. 658, doi. 10.1093/treephys/tpac136

By:

Dai, Xiaokang;
Lin, Ying;
Zhou, Tingting;
Li, Yue;
Liao, Xiaoli;
Cao, Jianbo;
Ding, Jihua

Publication type:

Article

Contrasting transcriptomic patterns reveal a genomic basis for drought resilience in the relict fir Abies pinsapo Boiss.

Published in:

Tree Physiology, 2023, v. 43, n. 2, p. 315, doi. 10.1093/treephys/tpac115

By:

Cobo-Simón, Irene;
Maloof, Julin N;
Li, Ruijuan;
Amini, Hajar;
Méndez-Cea, Belén;
García-García, Isabel;
Gómez-Garrido, Jèssica;
Esteve-Codina, Anna;
Dabad, Marc;
Alioto, Tyler;
Wegrzyn, Jill L;
Seco, José Ignacio;
Linares, Juan Carlos;
Gallego, Francisco Javier

Publication type:

Article

Anatomical observation and transcriptome analysis of buds reveal the association between the AP2 gene family and reproductive induction in hybrid larch (Larix kaempferi × Larix olgensis).

Published in:

Tree Physiology, 2023, v. 43, n. 1, p. 118, doi. 10.1093/treephys/tpac111

By:

Hao, Jun-Fei;
Wang, Chen;
Gu, Chen-Rui;
Xu, Dai-Xi;
Zhang, Lei;
Zhang, Han-Guo

Publication type:

Article

Integrated microRNA and transcriptome profiling reveals the regulatory network of embryo abortion in jujube.

Published in:

Tree Physiology, 2023, v. 43, n. 1, p. 142, doi. 10.1093/treephys/tpac098

By:

Du, Jiangtao;
Shi, Qianqian;
Liu, Yu;
Shi, Guozhao;
Li, Xi;
Li, Xingang

Publication type:

Article

Comparative physiological and transcriptome analysis reveals the potential mechanism of selenium accumulation and tolerance to selenate toxicity of Broussonetia papyrifera.

Published in:

Tree Physiology, 2022, v. 42, n. 12, p. 2578, doi. 10.1093/treephys/tpac095

By:

Chen, Qiangwen;
Yu, Li;
Chao, Wei;
Xiang, Juan;
Yang, Xiaoyan;
Ye, Jiabao;
Liao, Xiaoli;
Zhou, Xian;
Rao, Shen;
Cheng, Shuiyuan;
Cong, Xin;
Xiao, Bo;
Xu, Feng

Publication type:

Article