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RNA-Seq 관련 논문 및 바이오뉴스(2025년 12월)

이바이오젠

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Latest Papers(RNA-Seq Part)
1. Spatial Multiomics Defines a Shared Tumor Infiltrative Signature at the Resection Margin in High-Grade Gliomas
Pai B et al. Cancer Res. 2025 Nov 3;85(21):4233-4250. doi: 10.1158/0008-5472.CAN-24-4708.
 
2. Transcription factor BACH2 shapes tissue-resident memory T cell programs to promote HIV-1 persistence
Wei Y et al. Immunity. 2025 Nov 11;58(11):2878-2898.e11. doi: 10.1016/j.immuni.2025.07.022. Epub 2025 Aug 21.
 
3. Single-cell to pre-clinical evaluation of Trem2, Folr2, and Slc7a7 as macrophage-associated biomarkers for atherosclerosis
Örd T et al. Cardiovasc Res. 2025 Nov 7:cvaf210. doi: 10.1093/cvr/cvaf210. Online ahead of print.
 
4. Molecular profiling of brain endothelial cell to astrocyte endfoot communication in mouse and human
Hill SA et al. Nat Commun. 2025 Nov 6;16(1):9750. doi: 10.1038/s41467-025-65487-4.
 
5. HiJAKing the hematopoietic system: a low-frequency JAK2V617F clone drives myeloproliferative neoplasm pathology
Bonal DM et al. Blood. 2025 Nov 13;146(20):2428-2442. doi: 10.1182/blood.2024027125.
 
6. The Potential of the Gut Microbiota and Butyrate to Enhance CAR-T Cell Therapy in Non-Hodgkin Lymphoma
Garcia-Vicente R et al. Clin Cancer Res. 2025 Nov 13. doi: 10.1158/1078-0432.CCR-25-1676. Online ahead of print.
 
7. Genomic and epigenomic maps of mouse centromeres and pericentromeres
Chaudhry G et al. Nat Commun. 2025 Nov 3;16(1):9688. doi: 10.1038/s41467-025-64689-0.
 
8. SLC22A6-dependent lactylation of H3K9 aggravates endothelial dysfunction and atherosclerosis
Ma Y et al. Metabolism. 2025 Nov 4;175:156426. doi: 10.1016/j.metabol.2025.156426. Online ahead of print.
 
9. Systematic characterization of the composition and dynamics of processing body-associated mRNAs
Sun Z et al. Nat Commun. 2025 Nov 10;16(1):9867. doi: 10.1038/s41467-025-64848-3.
 
10. The phylotranscriptomic profile of angiosperm seed development follows a reverse hourglass pattern
Sami AA et al. Plant Cell. 2025 Nov 12:koaf266. doi: 10.1093/plcell/koaf266. Online ahead of print.
 
11. Highly functional and prolonged germinal center T follicular helper cell responses are associated with enhanced neutralizing antibody development
Marina-Zárate E et al. Immunity. 2025 Nov 7:S1074-7613(25)00462-5. doi: 10.1016/j.immuni.2025.10.008. Online ahead of print.
 
12. Cell type-specific inference from bulk RNA-sequencing data by integrating single-cell reference profiles via EPIC-unmix
Tang C et al. Genome Biol. 2025 Nov 20;26(1):395. doi: 10.1186/s13059-025-03847-5.
 
13. Deep-Learning Tool ScVital Enables Species-Agnostic Integration of Cancer Cell States
Rub J et al. Cancer Res. 2025 Nov 12. doi: 10.1158/0008-5472.CAN-24-4889. Online ahead of print.
 
14. Hypertension-induced neurovascular and cognitive dysfunction at single-cell resolution
Schaeffer SM et al. Neuron. 2025 Nov 14:S0896-6273(25)00799-8. doi: 10.1016/j.neuron.2025.10.018. Online ahead of print.
 
15. CanSig Benchmarks Methods for Reproducible Cancer Cell State Discovery from Single-Cell Transcriptomic Data
Barkmann F et al. Cancer Res. 2025 Nov 13. doi: 10.1158/0008-5472.CAN-25-0940. Online ahead of print.
 
16. 5-Formylcytosine is not a prevalent RNA modification in mammalian cells
Dehnen JA et al. Nat Commun. 2025 Nov 11;16(1):9925. doi: 10.1038/s41467-025-66090-3.
 
17. Gut microbial β-glucuronidases and their role in the microbiome-metabolite axis in colorectal cancer
Chen J et al. Nat Commun. 2025 Nov 27;16(1):10660. doi: 10.1038/s41467-025-65679-y.
 
18. Uli-epic: profiling RNA modifications from ultra-low input samples
He W et al. Genome Biol. 2025 Nov 11;26(1):384. doi: 10.1186/s13059-025-03857-3.
 
19. Cervicovaginal microbiome alters transcriptomic and chromatin accessibility signatures across cervicovaginal epithelial barriers
Anton L et al. Microbiome. 2025 Nov 25;13(1):238. doi: 10.1186/s40168-025-02223-6.
 
20. scKGBERT: a knowledge-enhanced foundation model for single-cell transcriptomics
Li Y et al. Genome Biol. 2025 Nov 24;26(1):402. doi: 10.1186/s13059-025-03862-6.
 
21. HPV integration in head and neck cancer: downstream splicing events and expression ratios linked with poor outcomes
Li S et al. Clin Cancer Res. 2025 Nov 21. doi: 10.1158/1078-0432.CCR-25-0645. Online ahead of print.
 
22. Intrahepatic donor microbiota-based metataxonomic signature detected in organ preservation solution enables prediction of short-term liver transplant outcomes
Lucas-Ruiz F et al. Gut. 2025 Nov 10;74(12):2058-2069. doi: 10.1136/gutjnl-2025-335986.
 
23. Cell line-matched reference enables high-precision functional genomics
Corda L et al. Nat Commun. 2025 Nov 20. doi: 10.1038/s41467-025-66155-3. Online ahead of print.
 
24. B-lineage commitment is dependent on a reversible epigenetic switch
Tingvall-Gustafsson J et al. Genes Dev. 2025 Nov 20. doi: 10.1101/gad.353002.125. Online ahead of print.
 
25. Clinicogenomic Characterization of Primary Sclerosing Cholangitis-Associated Biliary Tract Cancers
Wang X et al. Clin Cancer Res. 2025 Nov 18. doi: 10.1158/1078-0432.CCR-25-1834. Online ahead of print.
 
26. Deciphering cell-type-and temporally specific matrisome expression signatures in human cortical development and neurodevelopmental disorders via scRNA-seq meta-analysis
Gim DH et al. Nat Commun. 2025 Nov 11;16(1):9907. doi: 10.1038/s41467-025-64381-3.
 
27. A large-scale human toxicogenomics resource for drug-induced liver injury prediction
Bergen V et al. Nat Commun. 2025 Nov 13;16(1):9860. doi: 10.1038/s41467-025-65690-3.
 
28. The Ets2 super-enhancer modulates endothelial-mesenchymal transition during cardiac aging
Guo Z et al. Cardiovasc Res. 2025 Nov 18:cvaf242. doi: 10.1093/cvr/cvaf242. Online ahead of print.
 
29. Giant chromosomes of a tiny plant - the complete telomere-to-telomere genome assembly of the simple thalloid liverwort Apopellia endiviifolia (Jungermanniopsida, Marchantiophyta)
Szablińska-Piernik J et al. Gigascience. 2025 Nov 29:giaf145. doi: 10.1093/gigascience/giaf145. Online ahead of print.
 
30. Functional Genomics Link REST to Endothelial Plasticity and Atherosclerosis
Viskadourou M et al. Circ Res. 2025 Nov 26. doi: 10.1161/CIRCRESAHA.125.326628. Online ahead of print.
 
31. Dynamic transcriptional immune landscape in response to NK-cell therapy combined with gemcitabine plus S-1 in advanced pancreatic cancer: a phase 1b/2 trial
Tan Q et al. Signal Transduct Target Ther. 2025 Nov 21;10(1):381. doi: 10.1038/s41392-025-02488-1.
 
32. MRAP mediated adipocyte differentiation by thymic mesenchymal stromal cells contributes to thymic involution
Wang D et al. Nat Commun. 2025 Nov 20;16(1):10210. doi: 10.1038/s41467-025-64973-z.
 
33. Dnmt1 determines bone length by regulating energy metabolism of growth plate chondrocytes
Yanagihara Y et al. Nat Commun. 2025 Nov 4;16(1):9492. doi: 10.1038/s41467-025-65145-9.
 
34. Neuroectoderm-derived iris muscle characterization at the single-cell resolution in native human iris and a pluripotent stem cell eye model
Makovoz B et al. Nat Commun. 2025 Nov 27;16(1):10648. doi: 10.1038/s41467-025-65653-8.
 
35. Targeted complement inhibition ameliorates the pathological and cognitive outcomes in repetitive mild closed head injury
Mallah K et al. Signal Transduct Target Ther. 2025 Nov 20;10(1):378. doi: 10.1038/s41392-025-02466-7.
 
36. Characterizing heterogeneous cis-regulatory elements in gene regulatory programs associated with breast cancer
Hori C et al. Genome Med. 2025 Nov 27;17(1):145. doi: 10.1186/s13073-025-01562-1.
 
37. Comparative transcriptome atlas as an assistive modality for complex classification of rare kidney cancers
Jikuya R et al. Nat Commun. 2025 Nov 24;16(1):10340. doi: 10.1038/s41467-025-65303-z.
 
38. CDK12 Deficiency Induces BRD4S to Promote Cancer Metastasis by Enhancing Phase Separation and Chromatin Engagement
Li H et al. Cancer Res. 2025 Nov 25. doi: 10.1158/0008-5472.CAN-25-1761. Online ahead of print.
 
39. Disturbed flow induces reprogramming of endothelial cells to immune-like and foam cells under hypercholesterolaemia during atherogenesis
Park C et al. Cardiovasc Res. 2025 Nov 25:cvaf233. doi: 10.1093/cvr/cvaf233. Online ahead of print.
 
40. Impact of RAS/BRAF V600E mutations on the tumor immune microenvironment in mismatch repair deficient /microsatellite instability colorectal cancers
Salem ME et al. Clin Cancer Res. 2025 Nov 14. doi: 10.1158/1078-0432.CCR-25-2160. Online ahead of print.
 
 
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16. 암젠한림생명공학상에 김상우·부성호·오형철
 
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