Studies and tools using clustermole
Single-cell and spatial transcriptomics studies across several species and tissues have used clustermole for cell type annotation.
Human
Zhang X, Jia L, Yeziya T, et al.
Integrated Mendelian randomization and single-cell RNA sequencing
analyses reveal lactate metabolism as a key pathway in COVID-19-induced
pulmonary fibrosis.
Canadian Respiratory Journal. 2026.
doi:10.1155/carj/1049336
Wang T, Zhang L, Mei S, et al.
Single-cell RNA sequencing highlights the unique tumor microenvironment
of small cell neuroendocrine cervical carcinoma.
Journal of Translational Medicine. 2025.
doi:10.1186/s12967-024-05977-z
Zhang X, Deng X, Zhang L, et al.
Single-cell RNA sequencing analysis of lung cells in COVID-19 patients
with diabetes, hypertension, and comorbid diabetes-hypertension.
Frontiers in Endocrinology. 2023.
doi:10.3389/fendo.2023.1258646
Chen L, Jin S, Yang M, et al.
Integrated single cell and bulk RNA-seq analysis revealed
immunomodulatory effects of ulinastatin in sepsis: a multicenter cohort
study.
Frontiers in Immunology. 2022.
doi:10.3389/fimmu.2022.882774
Hong Y, Chen L, Sun J, et al.
Single-cell transcriptome profiling reveals heterogeneous neutrophils
with prognostic values in sepsis.
iScience. 2022.
doi:10.1016/j.isci.2022.105301
Zhang L, Tang C, Zhang M, et al.
Single cell meta-analysis of EndMT and EMT state in COVID-19.
Frontiers in Immunology. 2022.
doi:10.3389/fimmu.2022.976512
Mouse
Guldner IH, Wagner VP, Moran-Losada P, et al.
Ageing promotes microglial accumulation of slow-degrading synaptic
proteins.
Nature. 2026.
doi:10.1038/s41586-025-09987-9
Han X, Shen J, Yan J, et al.
Impaired nitrogenous waste clearance promotes hepatocellular
carcinoma.
Science Advances. 2026.
doi:10.1126/sciadv.aec0766
Rumyantseva A, Tippetts TS, Wilhalm A, et al.
Loss of the mitochondrial SAM transporter reveals a
lipoylation-dependent metabolic vulnerability in the postnatal
heart.
Science Advances. 2026.
doi:10.1126/sciadv.aeg8792
Zheng X, Dozmorov MG, Espinoza L, et al.
Inducible deletion of Ezh2 in CD4+ T cells inhibits kidney T cell
infiltration and prevents interstitial nephritis in MRL/lpr lupus-prone
mice.
iScience. 2024.
doi:10.1016/j.isci.2024.111114
Other species
Shivanna V, Escalona RD, Chuba C, et al.
Modulation of pulmonary IL-21 expression during latent TB and M.
tuberculosis/SIV coinfection.
JCI Insight. 2026.
doi:10.1172/jci.insight.199217
Sharan R, Zou Y, Singh B, et al.
Concurrent TB and HIV therapies control TB reactivation during
co-infection but not chronic immune activation.
Nature Communications. 2025.
doi:10.1038/s41467-025-67188-4
Klein B, Ciesielska A, Morán Losada P, et al.
Modified human mesenchymal stromal/stem cells restore cortical
excitability after focal ischemic stroke in rats.
Molecular Therapy. 2025.
doi:10.1016/j.ymthe.2024.12.006
Nurhidayat L, Benes V, Blom S, et al.
Tokay gecko tail regeneration involves temporally collinear expression
of HOXC genes and early expression of satellite cell markers.
BMC Biology. 2025.
doi:10.1186/s12915-024-02111-9
Zorc M, Dolinar M, Dovč P.
A single-cell transcriptome of bovine milk somatic cells.
Genes. 2024.
doi:10.3390/genes15030349
Tools and resources
Quan F, Liang X, Cheng M, et al.
Annotation of cell types (ACT): a convenient web server for cell type
annotation.
Genome Medicine. 2023.
doi:10.1186/s13073-023-01249-5
Li R, Zhang J, Li Z.
EasyCellType: marker-based cell-type annotation by automatically
querying multiple databases.
Bioinformatics Advances. 2023.
doi:10.1093/bioadv/vbad029
Add your publication
If you know of a peer-reviewed publication that explicitly uses clustermole or its marker database, please open an issue.
If you use clustermole in your work, please cite it.
citation("clustermole")