| Latest Papers(RNA-Seq Part) |
1. Single-cell to pre-clinical evaluation of Trem2, Folr2, and Slc7a7 as macrophage-associated biomarkers for atherosclerosis
Örd T et al. Cardiovasc Res. 2025 Dec 18;121(16):2503-2519. doi: 10.1093/cvr/cvaf210.
2. Targeting of the m(6)A eraser ALKBH5 suppresses stemness and chemoresistance of colorectal cancer
Zhou H et al. Nat Commun. 2025 Dec 13. doi: 10.1038/s41467-025-67502-0. Online ahead of print.
3. A mouse organoid platform for modeling cerebral cortex development and cis-regulatory evolution in vitro
Medina-Cano D et al. Dev Cell. 2025 Dec 15;60(24):3544-3560.e8. doi: 10.1016/j.devcel.2025.08.001. Epub 2025 Aug 27.
4. TDP-43 dysfunction compromises UPF1-dependent mRNA metabolism in ALS
Alessandrini F et al. Neuron. 2025 Dec 12:S0896-6273(25)00848-7. doi: 10.1016/j.neuron.2025.11.001. Online ahead of print.
5. Mapping cis- and trans-regulatory target genes of human-specific deletions
Fair T et al. Nat Commun. 2025 Dec 20;16(1):11380. doi: 10.1038/s41467-025-67424-x.
6. CircZFAND6 suppresses gastric cancer metastasis and reduces resistance to TKI therapy
Deng ZJ et al. Mol Cancer. 2025 Dec 11;24(1):305. doi: 10.1186/s12943-025-02478-5.
7. Large-scale single-cell profiling of stem cells identifies redundant regulators of shoot development and yield trait variation
Xu X et al. Dev Cell. 2025 Dec 15;60(24):3514-3526.e7. doi: 10.1016/j.devcel.2025.07.024. Epub 2025 Aug 26.
8. Fatty acid-binding protein 5 aggravates psoriasis and psoriasis-like disease through ferroptosis
Mieczkowski K et al. Cell Death Differ. 2025 Dec 6. doi: 10.1038/s41418-025-01630-4. Online ahead of print.
9. Immune cell senescence drives responsiveness to immunotherapy in melanoma
Pantelis P et al. Mol Cancer. 2025 Dec 10;24(1):308. doi: 10.1186/s12943-025-02517-1.
10. Single cell transcriptional perturbome in pluripotent stem cell models
Balmas E et al. Mol Syst Biol. 2025 Dec 10. doi: 10.1038/s44320-025-00172-8. Online ahead of print.
11. Mid-gestational cell-type-specific transcriptomic signatures in the prefrontal and superior temporal cortex in Down syndrome
Niu RZ et al. Nat Commun. 2025 Dec 11;16(1):11249. doi: 10.1038/s41467-025-66109-9.
12. Histone Lactylation Promotes Pressure Overload-Induced Cardiac Hypertrophy and Heart Failure by Regulating TGFB2 Expression
Chen M et al. Circ Res. 2025 Dec 11. doi: 10.1161/CIRCRESAHA.125.326185. Online ahead of print.
13. RoCK and ROI: single-cell transcriptomics with multiplexed enrichment of selected transcripts and region-specific sequencing
Moro G et al. Nat Commun. 2025 Dec 10;16(1):10991. doi: 10.1038/s41467-025-66248-z.
14. scRepli-RamDA-seq: a multi-omics technology enabling the analysis of gene expression dynamics during S-phase
Poonperm R et al. Nat Commun. 2025 Dec 15;16(1):10902. doi: 10.1038/s41467-025-64688-1.
15. The phylotranscriptomic profile of angiosperm seed development follows a reverse hourglass pattern
Sami AA et al. Plant Cell. 2025 Dec 1;37(12):koaf266. doi: 10.1093/plcell/koaf266.
16. Integration of Short- and Long-Read RNA Sequencing Enables the Discovery of Circular RNAs
Swift SZ et al. Cancer Res. 2025 Dec 2. doi: 10.1158/0008-5472.CAN-25-1114. Online ahead of print.
17. Targeting OxLDL-mediated CD36 + CAF reprogramming potentiates PD-1 immunotherapy in osteosarcoma
Zeng A et al. Mol Cancer. 2025 Dec 18. doi: 10.1186/s12943-025-02516-2. Online ahead of print.
18. Clair3-RNA: a deep learning-based small variant caller for long-read RNA sequencing data
Zheng Z et al. Nat Commun. 2025 Dec 22;16(1):11553. doi: 10.1038/s41467-025-67237-y.
19. 3D chromatin-based variant-to-gene maps across 57 human cell types reveal the cellular and genetic architecture of autoimmune disease susceptibility
Trang KB et al. Genome Biol. 2025 Dec 8;26(1):414. doi: 10.1186/s13059-025-03880-4.
20. CANTAO: guiding clustering and annotation in single-cell RNA sequencing using average overlap
Thai C et al. Mol Syst Biol. 2025 Dec 8. doi: 10.1038/s44320-025-00176-4. Online ahead of print.
21. Genome-scale transcriptome augmentation during Arabidopsis thaliana photomorphogenesis
Schivre G et al. Nat Commun. 2025 Dec 18;16(1):11228. doi: 10.1038/s41467-025-66359-7.
22. Promoting astrocyte-neuron triiodothyronine shuttling attenuates brain damage in neonatal hypoxic-ischemic encephalopathy
Yu G et al. J Neuroinflammation. 2025 Dec 2. doi: 10.1186/s12974-025-03641-x. Online ahead of print.
23. BPTF regulates androgen receptor activity by enhancing chromatin accessibility and stabilizing the AR-FOXA1 interaction
Jeon HY et al. Nat Commun. 2025 Dec 11. doi: 10.1038/s41467-025-67329-9. Online ahead of print.
24. Digital twins for in vivo metabolic flux estimations in patients with brain cancer
Meghdadi B et al. Cell Metab. 2025 Dec 1:S1550-4131(25)00482-6. doi: 10.1016/j.cmet.2025.10.022. Online ahead of print.
25. SPLiCR-seq: A CRISPR-Based Screening Platform for RNA splicing Identifies Novel Regulators of IRE1α-XBP1 Signaling Under ER Stress
Ying Q et al. Nat Commun. 2025 Dec 19. doi: 10.1038/s41467-025-67633-4. Online ahead of print.
26. Reconstructing epigenomic dynamics through a single-cell multi-epigenome data integration framework
Fujii T et al. Nat Commun. 2025 Dec 17;16(1):11006. doi: 10.1038/s41467-025-67016-9.
27. High throughput identification of genetic regulators of microglial inflammatory processes in Alzheimer's disease
Cardona CL et al. J Neuroinflammation. 2025 Dec 3;22(1):294. doi: 10.1186/s12974-025-03562-9.
28. SIDISH integrates single-cell and bulk transcriptomics to identify high-risk cells and guide precision therapeutics through in silico perturbation
Jolasun Y et al. Nat Commun. 2025 Dec 10;16(1):11271. doi: 10.1038/s41467-025-66162-4.
29. Long-read transcriptomics of a diverse human cohort reveals ancestry bias in gene annotation
Clavell-Revelles P et al. Nat Commun. 2025 Dec 3;16(1):10194. doi: 10.1038/s41467-025-66096-x.
30. Hic-5 drives epithelial mechanotransduction promoting a feed-forward cycle of bronchoconstriction
Mwase C et al. Nat Commun. 2025 Dec 12. doi: 10.1038/s41467-025-67210-9. Online ahead of print.
31. Egg-laying ChickenGTEx resource deciphers context-specific regulatory effects on fertility traits
Zhu D et al. Nat Commun. 2025 Dec 7. doi: 10.1038/s41467-025-67245-y. Online ahead of print.
32. Neurons undergo IFNγ-driven persistent epigenetic shifts and synaptopathy in encephalitis
Shammas G et al. Neuron. 2025 Dec 24:S0896-6273(25)00853-0. doi: 10.1016/j.neuron.2025.11.006. Online ahead of print.
33. BET inhibitor-based combinations targeting novel dependencies in MECOM-rearranged (r) AML
Birdwell CE et al. Leukemia. 2025 Dec 19. doi: 10.1038/s41375-025-02842-w. Online ahead of print.
34. Single-cell RNA-seq analysis of longitudinal CD4(+) T cell samples reveals cell-type-specific changes during early stages of type 1 diabetes
Biradar R et al. Genome Med. 2025 Dec 29;17(1):154. doi: 10.1186/s13073-025-01574-x.
35. Distinct mechanisms of transcriptomic habituation to repeated stress in the mouse hippocampus
Waag R et al. Nat Commun. 2025 Dec 22;16(1):11569. doi: 10.1038/s41467-025-67825-y.
36. Early peripheral blood gene expression predicts 90-day outcomes following subarachnoid hemorrhage
Knepp B et al. J Neuroinflammation. 2025 Dec 7;22(1):286. doi: 10.1186/s12974-025-03630-0.
37. Geometry-preserving vector field reconstruction of high-dimensional cell-state dynamics using ddHodge
Maehara K et al. Nat Commun. 2025 Dec 29;16(1):11342. doi: 10.1038/s41467-025-67782-6.
38. CRISPRi screening in cultured human astrocytes uncovers distal enhancers controlling genes dysregulated in Alzheimer's disease
Green NFO et al. Nat Neurosci. 2025 Dec 18. doi: 10.1038/s41593-025-02154-3. Online ahead of print.
39. Charting Immune Variation Through Genetics and Single-Cell Genomics
Powell JE et al. Gigascience. 2025 Dec 30:giaf161. doi: 10.1093/gigascience/giaf161. Online ahead of print.
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