scDCMAC:adaptive feedback clustering of scRNA-seq data with deep gene correlation mining

Authors: Pang, Shanchen, Wang, Ruiqian, Wu, Wenhao, Li, Hengxiao, Wu, Jiarui, Zhang, Yuanyuan, Wang, Shudong

Source: 2024 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) Bioinformatics and Biomedicine (BIBM), 2024 IEEE International Conference on. :565-572 Dec, 2024

Relation: 2024 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)

Single-cell RNA sequencing analysis reveals transcriptional dynamics of immune cells during ovarian cancer metastasis

Authors: Yan, Yan, Wang, Yukun, Da, Yiru, Piao, Yongjun

Source: 2024 IEEE 9th International Conference on Data Science in Cyberspace (DSC) DSC Data Science in Cyberspace (DSC), 2024 IEEE 9th International Conference on. :770-777 Aug, 2024

Relation: 2024 IEEE 9th International Conference on Data Science in Cyberspace (DSC)

Early Detection of Malignant Cells in Gastric Lavage via Hexokinase 2 and Single-Cell Sequencing for Gastric Cancer Diagnosis

Authors: Qian P, Sun J, Zhao Z, Lu P

Source: Risk Management and Healthcare Policy, Vol Volume 18, Pp 1011-1021 (2025)

Subject Terms: copy number variation (cnv), early diagnosis, gastric cancer, single cell sequencing (scs), warburg effect, Public aspects of medicine, RA1-1270

File Description: electronic resource

Relation: https://www.dovepress.com/early-detection-of-malignant-cells-in-gastric-lavage-via-hexokinase-2--peer-reviewed-fulltext-article-RMHP; https://doaj.org/toc/1179-1594

Access URL: https://doaj.org/article/b2e2b8626d2647c68f5e37bd91ca1582

Development and validation of M2 macrophage-related genes in a prognostic model of lung adenocarcinoma based on bulk RNA and ScRNA datasets

Authors: Bolin Wang, Xiaofeng Zhou, Di Wu, Lu Gao, Zhihua Wan, Ruifeng Wu

Source: Discover Oncology, Vol 16, Iss 1, Pp 1-16 (2025)

Subject Terms: Lung adenocarcinoma, M2 macrophages, Single-cell sequencing, Risk score, Neoplasms. Tumors. Oncology. Including cancer and carcinogens, RC254-282

File Description: electronic resource

Relation: https://doaj.org/toc/2730-6011

Access URL: https://doaj.org/article/5ccdef13a9934acd8e0f72494200407a

Exploring the Association Between Immune Cell Phenotypes and Osteoporosis Mediated by Inflammatory Cytokines: Insights from GWAS and Single-Cell Transcriptomics

Authors: Kuang S, Ma X, Sun L, Wang C, Li Y, Wang G, Sun J, Zhou F, Zhang C

Source: ImmunoTargets and Therapy, Vol Volume 14, Pp 227-246 (2025)

Subject Terms: osteoporosis, immune cell phenotypes, inflammatory cytokines, mendelian randomization, single-cell sequencing, Immunologic diseases. Allergy, RC581-607

File Description: electronic resource

Relation: https://www.dovepress.com/exploring-the-association-between-immune-cell-phenotypes-and-osteoporo-peer-reviewed-fulltext-article-ITT; https://doaj.org/toc/2253-1556

Access URL: https://doaj.org/article/9d98b22a1ee046e58b75ef9a24029d92

Transcriptome combined with single-cell sequencing explored prognostic markers associated with T cell exhaustion characteristics in head and neck squamous carcinoma

Authors: Jie Liu, Penghui Li, Yuanyuan Zhang, Lian Zheng

Source: Scientific Reports, Vol 15, Iss 1, Pp 1-12 (2025)

Subject Terms: Head and neck squamous cell carcinoma, T cell exhaustion, Transcriptome, Single-cell sequencing, Prognosis, Medicine, Science

File Description: electronic resource

Relation: https://doaj.org/toc/2045-2322

Access URL: https://doaj.org/article/876e5010376f41c482a5fe2c9d8fd6aa

A single-nucleus and spatial transcriptomic atlas of the COVID-19 liver reveals topological, functional, and regenerative organ disruption in patients

Authors: Yered Pita-Juarez, Dimitra Karagkouni, Nikolaos Kalavros, Johannes C. Melms, Sebastian Niezen, Toni M. Delorey, Adam L. Essene, Olga R. Brook, Deepti Pant, Disha Skelton-Badlani, Pourya Naderi, Pinzhu Huang, Liuliu Pan, Tyler Hether, Tallulah S. Andrews, Carly G. K. Ziegler, Jason Reeves, Andriy Myloserdnyy, Rachel Chen, Andy Nam, Stefan Phelan, Yan Liang, Mark Gregory, Shanshan He, Michael Patrick, Tushar Rane, Aster Wardhani, Amit Dipak Amin, Jana Biermann, Hanina Hibshoosh, Molly Veregge, Zachary Kramer, Christopher Jacobs, Yusuf Yalcin, Devan Phillips, Michal Slyper, Ayshwarya Subramanian, Orr Ashenberg, Zohar Bloom-Ackermann, Victoria M. Tran, James Gomez, Alexander Sturm, Shuting Zhang, Stephen J. Fleming, Sarah Warren, Joseph Beechem, Deborah Hung, Mehrtash Babadi, Robert F. Padera, Sonya A. MacParland, Gary D. Bader, Nasser Imad, Isaac H. Solomon, Eric Miller, Stefan Riedel, Caroline B. M. Porter, Alexandra-Chloé Villani, Linus T.-Y. Tsai, Winston Hide, Gyongyi Szabo, Jonathan Hecht, Orit Rozenblatt-Rosen, Alex K. Shalek, Benjamin Izar, Aviv Regev, Yury V. Popov, Z. Gordon Jiang, Ioannis S. Vlachos

Source: Genome Biology, Vol 26, Iss 1, Pp 1-46 (2025)

Subject Terms: SARS-CoV-2, COVID-19, Spatial transcriptomics, Single-nucleus sequencing, Liver, Single-cell sequencing, Biology (General), QH301-705.5, Genetics, QH426-470

File Description: electronic resource

Relation: https://doaj.org/toc/1474-760X

Access URL: https://doaj.org/article/5a3d94b9a9fb4b6ab7dd3d80ab4f997e

Advances in single-cell analysis, spatial profiling, and gene editing in cancer immunogenomics

Authors: Ruidong Xue, Jinghui Cheng, Ning Zhang

Source: Holistic Integrative Oncology, Vol 4, Iss 1, Pp 1-5 (2025)

Subject Terms: Single cell sequencing, Spatial resolution, CRISPR screening, Tumor immune microenvironment, Neoplasms. Tumors. Oncology. Including cancer and carcinogens, RC254-282

File Description: electronic resource

Relation: https://doaj.org/toc/2731-4529

Access URL: https://doaj.org/article/0071299e315a403b801060b52f53387d

Single‐cell transcriptomic sequencing identifies subcutaneous patient‐derived xenograft recapitulated medulloblastoma

Authors: Jiayu Gao, Yahui Zhao, Ziwei Wang, Fei Liu, Xuan Chen, Jialin Mo, Yifei Jiang, Yongqiang Liu, Peiyi Tian, Yanong Li, Kaiwen Deng, Xueling Qi, Dongming Han, Zijia Liu, Zhengtao Yang, Yixi Chen, Yujie Tang, Chunde Li, Hailong Liu, Jiankang Li, Tao Jiang

Source: Animal Models and Experimental Medicine, Vol 8, Iss 3, Pp 458-472 (2025)

Subject Terms: experimental models, medulloblastoma, single‐cell sequencing, sPDX, Medicine (General), R5-920

File Description: electronic resource

Relation: https://doaj.org/toc/2576-2095

Access URL: https://doaj.org/article/1f8c9ec69c8f41a78f18018483f78792

PRMT5 highly expressed on CD16 + CD56- natural killer cells is correlated with NK cells exhaustion in colorectal cancer mesenchyme

Authors: Zunzhen Nie, Juanjuan Chang, Zhiqin Yang, Kaixuan Zeng, Yuangang Liu, Qian Tu, Chao Wang, Qingguo Yan, Hai Shi, Ying Guo

Source: Cancer Immunology, Immunotherapy, Vol 74, Iss 4, Pp 1-15 (2025)

Subject Terms: CD16 + CD56- NK cells, Multiplex immunohistochemistry, Colorectal cancer, PRMT5, SIGIRR, Single-cell sequencing, Neoplasms. Tumors. Oncology. Including cancer and carcinogens, RC254-282

File Description: electronic resource

Relation: https://doaj.org/toc/1432-0851

Access URL: https://doaj.org/article/e82f1c12d4734987893843697dd2bdaa

Immunological profile of lactate metabolism-related genes in Psoriasis a comprehensive analysis based on bulk and single-cell RNA sequencing data

Authors: Si-yu Liu, Juan Lv, Fangqing Li, Yi-xuan Zhang

Source: Scientific Reports, Vol 15, Iss 1, Pp 1-13 (2025)

Subject Terms: Lacate metabolism, Psoriasis, Immune infiltration, RNA-seq, Single cell sequencing, Medicine, Science

File Description: electronic resource

Relation: https://doaj.org/toc/2045-2322

Access URL: https://doaj.org/article/ff91b77427d0468da9f423abb7050800

Comprehensive analysis of lipid metabolic signatures identified CEBPD promotes breast cancer cell proliferation

Authors: Yu Zhao, Huan He, Linyan Huang, Linna Yu

Source: Scientific Reports, Vol 15, Iss 1, Pp 1-15 (2025)

Subject Terms: BRCA, Adipocytes, Single-cell sequencing, CEBPD, Cell proliferation, Medicine, Science

File Description: electronic resource

Relation: https://doaj.org/toc/2045-2322

Access URL: https://doaj.org/article/707401197d1c4cd4bfb0c178884414ba

Comprehensive analysis and experimental validation of disulfidptosis-associated prognostic signature and immune microenvironment characterization of gastric cancer

Authors: Huangjie Zhang, Jinguo Hu, Yuanqiang Li, Yanyang Liu, Huize Shen, Zeng Wang, Qinglin Li

Source: Cancer Immunology, Immunotherapy, Vol 74, Iss 4, Pp 1-18 (2025)

Subject Terms: Disulfidptosis, Gastric cancer, Single-cell sequencing analysis, Prognostic model, Immune filtration characterization, APC11, Neoplasms. Tumors. Oncology. Including cancer and carcinogens, RC254-282

File Description: electronic resource

Relation: https://doaj.org/toc/1432-0851

Access URL: https://doaj.org/article/a3c50c5100af4751961d1dbb4c427332

Combining single-cell ATAC and RNA sequencing for supervised cell annotation

Authors: Jaidip Gill, Abhijit Dasgupta, Brychan Manry, Natasha Markuzon

Source: BMC Bioinformatics, Vol 26, Iss 1, Pp 1-18 (2025)

Subject Terms: RNA, ATAC, Machine learning, Cell annotation, Single-cell sequencing, Computer applications to medicine. Medical informatics, R858-859.7, Biology (General), QH301-705.5

File Description: electronic resource

Relation: https://doaj.org/toc/1471-2105

Access URL: https://doaj.org/article/c117225665804912b8784e8163426b47

Integration of Single Cell and Bulk RNA-Sequencing Reveals Key Genes and Immune Cell Infiltration to Construct a Predictive Model and Identify Drug Targets in Endometriosis

Authors: Zhang H, Fang Y, Luo D, Li YH

Source: Journal of Inflammation Research, Vol Volume 18, Pp 2783-2804 (2025)

Subject Terms: endometriosis, eutopic endometrium, transcriptomics, single-cell sequencing, predictive model, immune cell infiltration, Pathology, RB1-214, Therapeutics. Pharmacology, RM1-950

File Description: electronic resource

Relation: https://www.dovepress.com/integration-of-single-cell-and-bulk-rna-sequencing-reveals-key-genes-a-peer-reviewed-fulltext-article-JIR; https://doaj.org/toc/1178-7031

Access URL: https://doaj.org/article/c86ecdce096c44aaad4d861d0e6a863b

Integrated bulk and single-cell RNA sequencing to identify potential biomarkers in intervertebral disc degeneration

Authors: Chunyang Fan, Wei Xu, Xuefeng Li, Jiale Wang, Wei He, Meng Shen, Di Hua, Yao Zhang, Ye Gu, Xiexing Wu, Haiqing Mao

Source: European Journal of Medical Research, Vol 30, Iss 1, Pp 1-16 (2025)

Subject Terms: Intervertebral disc degeneration, Bioinformatics, Single-cell sequencing, MRNA, Medicine

File Description: electronic resource

Relation: https://doaj.org/toc/2047-783X

Access URL: https://doaj.org/article/c4297497ef244531b0326b4ab16bcd27

Cryoablation-induced modulation of Treg cells and the TGF-β pathway in lung adenocarcinoma: implications for increased antitumor immunity

Authors: Shicheng Lin, Dianna Liu, Tianyu Liang, Yaoxue Zhuang, Xiaofan Wang, Shengmao Ma, Quanwang Li, Kaiwen Hu

Source: BMC Medicine, Vol 23, Iss 1, Pp 1-18 (2025)

Subject Terms: Cryoablation, Tregs, TGF-β pathway, Single-cell sequencing, Immune responses, Medicine

File Description: electronic resource

Relation: https://doaj.org/toc/1741-7015

Access URL: https://doaj.org/article/dd04b467211549208c877b2d25fae02a

CCR7 in esophageal squamous cell carcinoma: an identification from single-cell and bulk transcriptome sequencing

Authors: Yang Yu, Qian Zhao, Hongguang Cui, Liang Song

Source: Discover Oncology, Vol 16, Iss 1, Pp 1-15 (2025)

Subject Terms: Esophageal squamous cell carcinoma, CC-chemokine receptor 7, Single-cell sequencing, Bulk transcriptome sequencing, Neoplasms. Tumors. Oncology. Including cancer and carcinogens, RC254-282

File Description: electronic resource

Relation: https://doaj.org/toc/2730-6011

Access URL: https://doaj.org/article/12f5c96b19de421e9fd76275ee394b07

Role of CD4+ T cells in cancer immunity: a single-cell sequencing exploration of tumor microenvironment

Authors: Qi An, Li Duan, Yuanyuan Wang, Fuxin Wang, Xiang Liu, Chao Liu, Qinyong Hu

Source: Journal of Translational Medicine, Vol 23, Iss 1, Pp 1-17 (2025)

Subject Terms: Single-cell sequencing, CD4+ T cells, Tumor microenvironment, Immunotherapy, Medicine

File Description: electronic resource

Relation: https://doaj.org/toc/1479-5876

Access URL: https://doaj.org/article/a775b42706894a30aee74f1a458249e7

uN2CpolyG-mediated p65 nuclear sequestration suppresses the NF-κB-NLRP3 pathway in neuronal intranuclear inclusion disease

Authors: Yu Shen, Kaiyan Jiang, Dandan Tan, Min Zhu, Yusen Qiu, Pencheng Huang, Wenquan Zou, Jianwen Deng, Zhaoxia Wang, Ying Xiong, Daojun Hong

Source: Cell Communication and Signaling, Vol 23, Iss 1, Pp 1-18 (2025)

Subject Terms: Neuronal intranuclear inclusion disease, CGG repeat expansion, NF-κB pathway, NLRP3 inflammasome, Autophagy, Single-cell sequencing, Medicine, Cytology, QH573-671

File Description: electronic resource

Relation: https://doaj.org/toc/1478-811X

Access URL: https://doaj.org/article/8cdcfab28050401eb98d0a6e63d8bb38