Works matching DE "RNA sequencing"

Results: 5000

Data standards for single‐cell RNA‐sequencing of paediatric cancer.

Published in:

Clinical & Translational Immunology, 2025, v. 14, n. 5, p. 1, doi. 10.1002/cti2.70033

By:

Xu, Xiaohan;
Saxon, John;
Soon, Megan Sioe Fei;
Lee, Colin YC;
Tuong, Zewen Kelvin

Publication type:

Article

Application of bioinformatics analysis to construct the prognostic model and immune-related gene characteristics of low-grade glioma.

Published in:

Discover Oncology, 2025, v. 16, n. 1, p. 1, doi. 10.1007/s12672-025-02639-4

By:

Liao, Peng;
Zhang, Xiaocui;
Yuan, Ruyan;
Tang, Tingjun;
Wang, Feng;
Geng, Baowei

Publication type:

Article

The role of RETN in stomach adenocarcinoma (STAD): insights from pan-cancer analysis of RNA-seq data based on the TCGA database.

Published in:

Discover Oncology, 2025, v. 16, n. 1, p. 1, doi. 10.1007/s12672-025-02755-1

By:

Deng, Yaxing;
Wang, Chenglin;
Yang, Rui;
Yang, Qingqiang

Publication type:

Article

Identification and Validation of Potential Immune‐Related Genes for Endometriosis.

Published in:

American Journal of Reproductive Immunology, 2025, v. 93, n. 5, p. 1, doi. 10.1111/aji.70091

By:

Zhang, Yi;
Wu, Lulu;
Yuan, Wanjing;
Ren, Zhen;
Tang, Li;
Kuang, Jilin;
Li, Lin;
Liang, Yingying

Publication type:

Article

Enhancing radiosensitivity of osteosarcoma by ITGB3 knockdown: a mechanism linked to enhanced osteogenic differentiation status through JNK/c-JUN/RUNX2 pathway activation.

Published in:

Journal of Experimental & Clinical Cancer Research (17569966), 2025, v. 44, n. 1, p. 1, doi. 10.1186/s13046-025-03417-4

By:

Lian, Qiujian;
Liu, Hu;
Li, Jingyan;
Luo, Cheng;
Liu, Chang;
Zhao, Haonan;
Dai, Peijun;
Wang, Bingxuan;
Zhou, Huipeng;
Jiang, Xin;
Wang, Zhiwei;
Qiao, Suchi

Publication type:

Article

Clarinet Plots: Alternative to Violin Plots to Display Zero-inflated Distribution of scRNA-seq Data.

Published in:

IPSJ Transactions on Bioinformatics, 2024, v. 17, p. 48, doi. 10.2197/ipsjtbio.17.48

By:

MAKITO OKU

Publication type:

Article

Detecting Fusion Genes in Long-Read Transcriptome Sequencing Data with FUGAREC.

Published in:

IPSJ Transactions on Bioinformatics, 2024, v. 17, p. 1, doi. 10.2197/ipsjtbio.17.1

By:

KEIGO MASUDA;
YOSHIAKI SOTA;
HIDEO MATSUDA

Publication type:

Article

STExplore: An Integrated Online Platform for Comprehensive Analysis and Visualization of Spatial Transcriptomics Data.

Published in:

Small Methods, 2025, v. 9, n. 5, p. 1, doi. 10.1002/smtd.202401272

By:

Wang, Yongtian;
Luo, Jintian;
Jiao, Shaoqing;
Xie, Xiaohan;
Wang, Tao;
Liu, Jie;
Shang, Xuequn;
Peng, Jiajie

Publication type:

Article

CDK16+ Luminal Progenitor Cell‐Like Tumor Cells Interacted with POSTN+ Cancer‐Associated Fibroblasts Associate with Chemo‐Resistance In Breast Cancer.

Published in:

Small Methods, 2025, v. 9, n. 5, p. 1, doi. 10.1002/smtd.202401192

By:

Ding, Xinyu;
Wu, Qi;
Du, Yanhua;
Ji, Meng‐meng;
Yang, Hua;
Hu, Qingsong;
Ye, Youqiong

Publication type:

Article

Spatially Aware Domain Adaptation Enables Cell Type Deconvolution from Multi‐Modal Spatially Resolved Transcriptomics.

Published in:

Small Methods, 2025, v. 9, n. 5, p. 1, doi. 10.1002/smtd.202401163

By:

Wang, Lequn;
Bai, Xiaosheng;
Zhang, Chuanchao;
Shi, Qianqian;
Chen, Luonan

Publication type:

Article

Single Cell Inference of Cancer Drug Response Using Pathway‐Based Transformer Network.

Published in:

Small Methods, 2025, v. 9, n. 5, p. 1, doi. 10.1002/smtd.202400991

By:

Yao, Yinghao;
Xu, Yuandong;
Zhang, Yaru;
Gui, Yuanyuan;
Bai, Qingshi;
Zhu, Zhengbiao;
Peng, Hui;
Zhou, Yijun;
Chen, Zhen Ji;
Sun, Jie;
Su, Jianzhong

Publication type:

Article

Single-cell and spatial transcriptomics reveal correlation between RNA methylation-related miRNA risk model and immune infiltration in hepatocellular carcinoma.

Published in:

Frontiers in Oncology, 2025, p. 1, doi. 10.3389/fonc.2025.1553239

By:

Su, Rong;
Du, Yong;
Tian, Pan;
Ma, Weifang;
Hui, Yongfeng;
Yang, Shaoqi

Publication type:

Article

Single cell RNA-sequencing identified CCR7+/RELB+/IRF1+ T cell responding for juvenile idiopathic arthritis pathogenesis.

Published in:

Frontiers in Immunology, 2025, p. 1, doi. 10.3389/fimmu.2025.1528446

By:

He, Lewei;
Gong, Xue;
Guo, Hui;
Zhou, Kaiyu;
Lan, Yue;
Lv, Mingyi;
Liu, Xiaoliang;
Lin, Sha;
Hua, Yimin;
Guo, Junling;
Fan, Zhenxin;
Li, Yifei

Publication type:

Article

A novel synonymous variant in the NF1 gene disrupting splicing contributes to neurofibromatosis pathogenesis.

Published in:

Frontiers in Genetics, 2025, p. 1, doi. 10.3389/fgene.2025.1572487

By:

Lin, Tao;
Chen, Zheyan;
Dong, Biwen;
Pan, Haojie;
Wang, Hai;
Zheng, Xianjue;
Chen, Kaixin;
Lai, Yanan;
Zhang, Chenhui;
Dong, Ye;
Xu, Zitong;
Lin, Menmen;
Xi, Xiujie;
Xia, Shuqi;
Wang, Yimin;
Wang, Wenhan;
Li, Xiaoqing;
Sun, Congcong;
Hu, Yanjun;
Xu, Fang

Publication type:

Article

Neuregulin 4: A Key Regulator in Suppressing Lung Adenocarcinoma Progression.

Published in:

Technology in Cancer Research & Treatment, 2025, p. 1, doi. 10.1177/15330338251344424

By:

Zhang, Shufan;
Xu, Tianhan;
Li, Simeng;
Tang, Liming;
Wang, Dongmei

Publication type:

Article

M-band wavelet-based multi-view clustering of cells.

Published in:

PLoS Computational Biology, 2025, v. 21, n. 5, p. 1, doi. 10.1371/journal.pcbi.1013060

By:

Liu, Tong;
Liu, Zihuan;
Sun, Wenke;
Shankar, Adeethyia;
Zhao, Yongzhong;
Wang, Xiaodi

Publication type:

Article

CD9 expression rivals IDH mutation as a prognostic marker in glioma: a novel nomogram approach.

Published in:

Frontiers in Neurology, 2025, p. 1, doi. 10.3389/fneur.2025.1507443

By:

Peng, Yue;
Ji, Qiang;
Guo, Xiangyu;
Zhang, Weichunbai;
Yang, Zixuan;
Li, Wenbin

Publication type:

Article

Single nuclei RNA-sequencing of adult brain neurons derived from type 2 neuroblasts reveals transcriptional complexity in the insect central complex.

Published in:

eLife, 2025, p. 1

By:

Epiney, Derek G.;
Morales Chaya, Gonzalo;
Dillon, Noah R.;
Sen-Lin Lai;
Doe, Chris Q.

Publication type:

Article

scRNA-seq and scATAC-seq reveal that Sertoli cell mediates spermatogenesis disorders through stage-specific communications in non-obstructive azoospermia.

Published in:

eLife, 2025, p. 1

By:

Shimin Wang;
Hongxian Wang;
Bicheng Jin;
Hongli Yan;
Qingliang Zheng;
Dong Zhao

Publication type:

Article

Molecular and spatial transcriptomic classification of midbrain dopamine neurons and their alterations in a LRRK2G2019S model of Parkinson’s disease.

Published in:

eLife, 2025, p. 1, doi. 10.7554/eLife.101035

By:

Gaertner, Zachary;
Oram, Cameron;
Schneeweis, Amanda;
Schonfeld, Elan;
Bolduc, Cyril;
Chen, Chuyu;
Dombeck, Daniel;
Parisiadou, Loukia;
Poulin, Jean-Francois;
Awatramani, Rajeshwar

Publication type:

Article

Cancer‐associated fibroblast heterogeneity in chordoma†.

Published in:

Journal of Pathology, 2025, v. 266, n. 1, p. 5, doi. 10.1002/path.6420

By:

Henry, Jack C;
Cameron, Angus J M

Publication type:

Article

Multiomic spatial atlas shows deleted in malignant brain tumors 1 (DMBT1) glycoprotein is lost in colonic dysplasia.

Published in:

Journal of Pathology, 2025, v. 266, n. 1, p. 51, doi. 10.1002/path.6406

By:

Green, Emily H;
Kotrannavar, Subhag R;
Rutherford, Megan E;
Lunnemann, Hannah M;
Kaur, Harsimran;
Heiser, Cody N;
Ding, Hua;
Simmons, Alan J;
Liu, Xiao;
Lacy, D Borden;
Washington, M Kay;
Shrubsole, Martha J;
Liu, Qi;
Lau, Ken S;
Sears, Cynthia L;
Coffey, Robert J;
Drewes, Julia L;
Markham, Nicholas O

Publication type:

Article

Targeting SETD7 Rescues Diabetes-Induced Impairment of Angiogenic Response by Transcriptional Repression of Semaphorin-3G.

Published in:

Diabetes, 2025, v. 74, n. 6, p. 969, doi. 10.2337/db24-0997

By:

Mohammed, Shafeeq A.;
Gorica, Era;
Albiero, Mattia;
Karsai, Gergely;
Mengozzi, Alessandro;
Caravaggi, Carlo Maria;
Ambrosini, Samuele;
Masi, Stefano;
Vinci, Maria Cristina;
Dzemali, Omer;
Spinetti, Gaia;
Rajagopalan, Sanjay;
El-Osta, Assam;
Pelisek, Jaroslav;
Ruschitzka, Frank;
Fadini, Gian Paolo;
Costantino, Sarah;
Paneni, Francesco

Publication type:

Article

Targeting CD74 in microglia to modulate experimental cerebral ischemia and reperfusion injury: insights from Single-Cell and bulk transcriptomics.

Published in:

Molecular Brain, 2025, v. 18, n. 1, p. 1, doi. 10.1186/s13041-025-01197-8

By:

Cao, Chang;
Liu, Ting;
Peng, Lu;
Li, Lianxin;
Xu, Zhongmou;
Li, Xiang;
Chen, Gang;
Li, Haiying;
Bai, Lei

Publication type:

Article

Unveiling the hidden dance: SPP1 + macrophages identified in ulcerative colitis reveal crosstalk with CHI3L1 + fibroblasts.

Published in:

Journal of Translational Medicine, 2025, v. 23, n. 1, p. 1, doi. 10.1186/s12967-025-06565-5

By:

Zhou, Peiwen;
Tang, Tongyu;
Zhao, Pingwei;
Wang, Quan;
Hu, Xintong;
Si, Junzhuo;
Yang, Tianshi;
Zhou, Shuai;
An, Wenyan;
Jiang, Yanfang

Publication type:

Article

Metformin reverses 5-FU resistance induced by radiotherapy through mediating folate metabolism in colorectal cancer.

Published in:

Molecular Medicine, 2025, v. 31, n. 1, p. 1, doi. 10.1186/s10020-025-01206-5

By:

Wang, Shuxuan;
Lin, Yanyan;
Zhao, Qianqian;
Chen, Huanliang;
Du, Shisuo;
Zeng, Zhaochong

Publication type:

Article

Whole genome sequencing and phylogenetic relative of a pure virulent Newcastle disease virus isolated from an outbreak in northeast Iran.

Published in:

Letters in Applied Microbiology, 2025, v. 78, n. 4, p. 1, doi. 10.1093/lambio/ovaf049

By:

Khabiri, Aliakbar;
Toroghi, Reza;
Mohammadabadi, Mohammadreza;
Tabatabaeizadeh, Seyed-Elias

Publication type:

Article

Single cell RNA sequencing of haematopoietic cells in fresh and frozen human atheroma tissue.

Published in:

Cardiovascular Research, 2025, v. 121, n. 3, p. 396, doi. 10.1093/cvr/cvaf014

By:

Ahmad, Herra;
Gopakumar, Jayakrishnan;
Nachun, Daniel C;
Ma, Lisa;
D'Addabbo, Jessica;
Huang, Xianxi;
Koyano, Tiffany;
Boyd, Jack;
Woo, Yi-Ping Joseph;
Fong, Robyn;
Aalami, Oliver;
Nguyen, Patricia K;
Jaiswal, Siddhartha

Publication type:

Article

Senescent CD8+ T cells: a novel risk factor in atrial fibrillation.

Published in:

Cardiovascular Research, 2025, v. 121, n. 1, p. 97, doi. 10.1093/cvr/cvae222

By:

Li, Xiang;
Bao, Yangyang;
Zhang, Ning;
Lin, Changjian;
Xie, Yun;
Wei, Yue;
Luo, Qingzhi;
Liu, Jingmeng;
Sha, Zimo;
Wu, Guanhua;
Zhou, Taojie;
Chen, Qiujing;
Ling, Tianyou;
Pan, Wenqi;
Lu, Lin;
Wu, Liqun;
Dai, Yang;
Jin, Qi

Publication type:

Article

Multi-layered apoplastic barrier underlying the ability of Na+ exclusion in Vigna marina.

Published in:

Plant & Cell Physiology, 2025, v. 66, n. 4, p. 554, doi. 10.1093/pcp/pcaf005

By:

Wang, Fanmiao;
Tanoi, Keitaro;
Yamauchi, Takaki;
Naito, Ken

Publication type:

Article

Whole Genome Sequencing and Artificial Intelligence in the New Era of Precision Pediatric Oncology.

Published in:

Paediatria Croatica, 2025, v. 69, p. 12, doi. 10.13112/pc.1043

By:

Brlek, Petar;
Primorac, Dragan

Publication type:

Article

Scmaskgan: masked multi-scale CNN and attention-enhanced GAN for scRNA-seq dropout imputation.

Published in:

BMC Bioinformatics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12859-025-06138-9

By:

Wu, You;
Xu, Li;
Cong, Xiaohong;
Li, Hanxiao;
Li, Yanli

Publication type:

Article

Pyroptosis drives tumor progression and immune evasion in Hepatocellular Carcinoma: a single-cell and spatial transcriptomic study.

Published in:

Discover Oncology, 2025, v. 16, n. 1, p. 1, doi. 10.1007/s12672-025-02421-6

By:

Tao, Siyu;
Yang, Yunhao

Publication type:

Article

The antineoplastic effects of nuciferine on hepatocellular carcinoma are associated with suppression of the HER2-AKT/ERK1/2 signaling pathway.

Published in:

Discover Oncology, 2025, v. 16, n. 1, p. 1, doi. 10.1007/s12672-025-02695-w

By:

Li, Tiantian;
Wang, Weidong;
Zhu, Mingwei;
Dong, Tianxiu;
Jiang, Jian;
Li, Zizhuo;
An, Tingting;
Chen, Xi;
Mao, Yingxuan;
Chen, Yaodong;
Yang, Xiuhua

Publication type:

Article

Single-cell transcriptomic landscape reveals complex cellular heterogeneity and dysregulated signaling pathways in nasopharyngeal carcinoma.

Published in:

Discover Oncology, 2025, v. 16, n. 1, p. 1, doi. 10.1007/s12672-025-02506-2

By:

Zhang, Xiaoyan;
Guan, Zuojia;
Xu, Zhan

Publication type:

Article

HSD17B1-mediated trophoblast differentiation lowers estrogen levels in early-onset preeclampsia.

Published in:

Scientific Reports, 2025, v. 15, n. 1, p. 1, doi. 10.1038/s41598-025-02490-1

By:

Zheng, Shu;
Feng, Wei;
Sun, Zewen;
Xu, Peng;
Dong, Shuai;
Pan, Lin;
Shen, Huimin;
He, Jin;
Chen, Peng;
Shu, Chang

Publication type:

Article

The unique hypertrophic and fibrotic features of neonatal right ventricle in response to pressure overload.

Published in:

Scientific Reports, 2025, v. 15, n. 1, p. 1, doi. 10.1038/s41598-025-01427-y

By:

Xiao, Yingying;
Xue, Yiting;
Li, Debao;
Ye, Lincai;
Wang, Zheng;
Zheng, Sixie;
Ruan, Peisen;
Chen, Hao;
Hong, Haifa

Publication type:

Article

Vanillic acid's potential to enhance AdeIJK, AdeFGH, and AdeABC efflux pump substrates in Acinetobacter baumannii.

Published in:

Biologia, 2025, v. 80, n. 6, p. 1579, doi. 10.1007/s11756-025-01925-4

By:

Saral Sariyer, Ayşegül;
Sariyer, Emrah

Publication type:

Article

FOXM1, a super enhancer-associated gene, is related to poorer prognosis and gemcitabine resistance in pancreatic cancer.

Published in:

Cell Biochemistry & Biophysics, 2025, v. 83, n. 2, p. 2441, doi. 10.1007/s12013-024-01653-7

By:

Jiang, Jian;
Shen, Tianci;
Chen, Dan;
Dai, Zihao;
Wang, Xuelong;
Meng, Qiang;
Yang, Zhuo;
Zhang, Di;
Guo, Xiaoyi;
Xu, Jianqiang;
Gu, Jiangning;
Wang, Changmiao

Publication type:

Article

Investigation of the Significance of Blood Signatures on Sepsis‐Induced Acute Lung Injury in Sepsis Within 24 Hours.

Published in:

International Journal of Genomics, 2025, v. 2025, p. 1, doi. 10.1155/ijog/5684300

By:

Fang, Zaojun;
Wang, Yuanyuan;
Xu, Lingqi;
Lin, Ying;
Zhang, Biao;
Chen, Jiaping;
Mohammadi, Saeed

Publication type:

Article

Advances in spatial transcriptomics and its application in the musculoskeletal system.

Published in:

Bone Research, 2025, v. 13, n. 1, p. 1, doi. 10.1038/s41413-025-00429-w

By:

Wang, Haoyu;
Cheng, Peng;
Wang, Juan;
Lv, Hongzhi;
Han, Jie;
Hou, Zhiyong;
Xu, Ren;
Chen, Wei

Publication type:

Article

USP2 inhibition unleashes CD47-restrained phagocytosis and enhances anti-tumor immunity.

Published in:

Nature Communications, 2025, v. 16, n. 1, p. 1, doi. 10.1038/s41467-025-59621-5

By:

Dai, Panpan;
Sun, Yishuang;
Huang, Zhengrong;
Liu, Yu-Tong;
Gao, Minling;
Liu, Hai-Ming;
Shi, Jie;
He, Chuan;
Xiang, Bolin;
Yao, Yingmeng;
Yu, Haisheng;
Xu, Gaoshan;
Kong, Lijun;
Xiao, Xiangling;
Wang, Xiyong;
Zhang, Xue;
Xiong, Wenjun;
Hu, Jing;
Lin, Dandan;
Zhong, Bo

Publication type:

Article

Spatiotemporal dynamic changes of meningeal microenvironment influence meningeal lymphatic function following subarachnoid hemorrhage: from inflammatory response to tissue remodeling.

Published in:

Journal of Neuroinflammation, 2025, v. 22, n. 1, p. 1, doi. 10.1186/s12974-025-03460-0

By:

Zhu, Bingrui;
Liu, Changming;
Luo, Ming;
Chen, Jiarui;
Tian, Sixuan;
Zhan, Tiantong;
Liu, Yibo;
Zhang, Haocheng;
Wang, Zhen;
Zhang, Jianmin;
Fang, Yuanjian;
Chen, Sheng;
Wang, Xiaoyu

Publication type:

Article

Metabolism-associated marker gene-based predictive model for prognosis, targeted therapy, and immune landscape in ovarian cancer: an integrative analysis of single-cell and bulk RNA sequencing with spatial transcriptomics.

Published in:

BMC Women's Health, 2025, v. 25, n. 1, p. 1, doi. 10.1186/s12905-025-03750-y

By:

Ling, Lele;
Li, Bingrong;
Ke, Boliang;
Hu, Yinjie;
Zhang, Kaiyong;
Li, Siwen;
Liu, Te;
Liu, Peng;
Zhang, Bimeng

Publication type:

Article

Sialyltransferase gene signature as a predictor of prognosis and therapeutic response in kidney renal clear cell carcinoma.

Published in:

Discover Oncology, 2025, v. 16, n. 1, p. 1, doi. 10.1007/s12672-025-02566-4

By:

Liu, Huiyu;
Zhou, Changwei;
Yan, Zaichun;
Yang, Hairong;
Zhao, Yun;
Tian, Rui;
Bo, Xuejun;
Zhao, Leizuo;
Ren, Wei

Publication type:

Article

DNA测序技术在底栖有孔虫监测中的研究进展.

Published in:

Advances in Earth Science (1001-8166), 2025, v. 40, n. 3, p. 303, doi. 10.11867/j.issn.1001-8166.2025.024

By:

宋静文;
李铁军;
郭远明;
乔玲

Publication type:

Article

A multi-view graph convolutional network framework based on adaptive adjacency matrix and multi-strategy fusion mechanism for identifying spatial domains Open Access.

Published in:

Bioinformatics, 2025, v. 41, n. 4, p. 1, doi. 10.1093/bioinformatics/btaf172

By:

Fu, Yuhan;
Nan, Mengdi;
Ren, Qing;
Chen, Xiang;
Gao, Jie

Publication type:

Article

adverSCarial: assessing the vulnerability of single-cell RNA-sequencing classifiers to adversarial attacks Open Access.

Published in:

Bioinformatics, 2025, v. 41, n. 4, p. 1, doi. 10.1093/bioinformatics/btaf168

By:

Fievet, Ghislain;
Broséus, Julien;
Meyre, David;
Hergalant, Sébastien

Publication type:

Article

ISOLATION AND SCREENING OF PHOSPHATE AND POTASH SOLUBILIZING BACTERIA FROM RHIZOSPHERE SOIL OF MAIZE AND COTTON.

Published in:

Suranaree Journal of Science & Technology, 2025, v. 32, n. 2, p. 1, doi. 10.55766/sujst3933

By:

Victoriya, Alish Kiruba;
Kumar, Sasidharan Satheesh;
Rajesh, Shubhiksha;
Muthusamy, Deepika;
Moorthy, Sabari Rani Ganesh;
Devendran, Kishore

Publication type:

Article

RNA degradation patterns in cardiac tissues kept at different time intervals and temperatures before RNA sequencing.

Published in:

PLoS ONE, 2025, v. 20, n. 5, p. 1, doi. 10.1371/journal.pone.0323786

By:

Jacobsen, Stine Bøttcher;
Tfelt-Hansen, Jacob;
Smerup, Morten Holdgaard;
Morling, Niels;
Andersen, Jeppe Dyrberg

Publication type:

Article