RNA-Seq 관련 논문 및 바이오뉴스(2025년 6월)
이바이오젠
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Latest Papers(RNA-Seq Part)
1. Taurine from tumour niche drives glycolysis to promote leukaemogenesis
Sharma S et al. Nature. 2025 May 14. doi: 10.1038/s41586-025-09018-7. Online ahead of print.
2. Targeting symbionts by apolipoprotein L proteins modulates gut immunity
Yang T et al. Nature. 2025 May 14. doi: 10.1038/s41586-025-08990-4. Online ahead of print.
3. Spatial and multiomics analysis of human and mouse lung adenocarcinoma precursors reveals TIM-3 as a putative target for precancer interception
Zhu B et al. Cancer Cell. 2025 May 8:S1535-6108(25)00162-X. doi: 10.1016/j.ccell.2025.04.003. Online ahead of print.
4. Oncogene aberrations drive medulloblastoma progression, not initiation
Okonechnikov K et al. Nature. 2025 May 7. doi: 10.1038/s41586-025-08973-5. Online ahead of print.
5. scRNA-seq and scATAC-seq reveal that Sertoli cell mediates spermatogenesis disorders through stage-specific communications in non-obstructive azoospermia
Wang S et al. Elife. 2025 May 15;13:RP97958. doi: 10.7554/eLife.97958.
6. Worm Perturb-Seq: massively parallel whole-animal RNAi and RNA-seq
Zhang H et al. Nat Commun. 2025 May 23;16(1):4785. doi: 10.1038/s41467-025-60154-0.
7. Deep transcriptomics reveals cell-specific isoforms of pan-neuronal genes
Wolfe Z et al. Nat Commun. 2025 May 16;16(1):4507. doi: 10.1038/s41467-025-58296-2.
8. The resistance awakens: Diversity at the DNA, RNA, and protein levels informs engineering of plant immune receptors from Arabidopsis to crops
Sutherland CA et al. Plant Cell. 2025 May 9;37(5):koaf109. doi: 10.1093/plcell/koaf109.
9. Cancer-induced FOXP1 disrupts and reprograms skeletal-muscle circadian transcription in cachexia
Ducharme JB et al. Cell Rep. 2025 May 10;44(5):115689. doi: 10.1016/j.celrep.2025.115689. Online ahead of print.
10. Inborn errors of immunity underlie clonal T cell expansions in large granular lymphocyte leukemia
Bravo-Perez C et al. J Clin Invest. 2025 May 1;135(9):e184431. doi: 10.1172/JCI184431. eCollection 2025 May 1.
11. Heterogeneous pericoerulear neurons tune arousal and exploratory behaviours
Luskin AT et al. Nature. 2025 May 7. doi: 10.1038/s41586-025-08952-w. Online ahead of print.
12. Transcriptional and epigenetic rewiring by the NUP98::KDM5A fusion oncoprotein directly activates CDK12
Troester S et al. Nat Commun. 2025 May 19;16(1):4656. doi: 10.1038/s41467-025-59930-9.
13. ZAR1 and ZAR2 orchestrate the dynamics of maternal mRNA polyadenylation during mouse oocyte development
Wu YK et al. Genome Biol. 2025 May 8;26(1):120. doi: 10.1186/s13059-025-03593-8.
14. A multiomic analysis of Waldenstrom macroglobulinemia defines distinct disease subtypes
Gagler DC et al. Blood. 2025 May 7:blood.2024028164. doi: 10.1182/blood.2024028164. Online ahead of print.
15. Distinct systemic impacts of Aβ42 and Tau revealed by whole-organism snRNA-seq
Park YJ et al. Neuron. 2025 May 13:S0896-6273(25)00299-5. doi: 10.1016/j.neuron.2025.04.017. Online ahead of print.
16. 48-Hour and 24-Hour Time-lapse Single-nucleus Transcriptomics Reveal Cell-type specific Circadian Rhythms in Arabidopsis
Qin Y et al. Nat Commun. 2025 May 5;16(1):4171. doi: 10.1038/s41467-025-59424-8.
17. Molecular and spatial transcriptomic classification of midbrain dopamine neurons and their alterations in a LRRK2(G2019S) model of Parkinson's disease
Gaertner Z et al. Elife. 2025 May 12;13:RP101035. doi: 10.7554/eLife.101035.
18. snCED-seq: high-fidelity cryogenic enzymatic dissociation of nuclei for single-nucleus RNA-seq of FFPE tissues
Guo Y et al. Nat Commun. 2025 May 2;16(1):4101. doi: 10.1038/s41467-025-59464-0.
19. Chromatin state origins of uterine leiomyoma
Raisanen M et al. Nat Commun. 2025 May 8;16(1):4307. doi: 10.1038/s41467-025-59646-w.
20. Identification of leukemia-enriched signature through the development of a comprehensive pediatric single-cell atlas
Mumme HL et al. Nat Commun. 2025 May 2;16(1):4114. doi: 10.1038/s41467-025-59362-5.
21. A prognostic microRNA-based signature for localized clear cell renal cell carcinoma: the Bio-miR study
Pinto-Marin A et al. Br J Cancer. 2025 May 7. doi: 10.1038/s41416-025-03008-2. Online ahead of print.
22. A CRISPR/Cas9-based enhancement of high-throughput single-cell transcriptomics
Pandey AC et al. Nat Commun. 2025 May 19;16(1):4664. doi: 10.1038/s41467-025-59880-2.
23. Clemastine fumarate accelerates accumulation of disability in progressive multiple sclerosis by enhancing pyroptosis
Kocot J et al. J Clin Invest. 2025 May 15;135(10):e183941. doi: 10.1172/JCI183941. eCollection 2025 May 15.
24. CXCL12+ fibroblastic reticular cells in lymph nodes facilitate immune tolerance by regulating T cell-mediated alloimmunity
Yamamura Y et al. J Clin Invest. 2025 May 1;135(9):e182709. doi: 10.1172/JCI182709. eCollection 2025 May 1.
25. Multi-omic analysis reveals a CAF-stemness-governed classification in HCC liver transplant recipients beyond the Milan criteria
Ling S et al. Nat Commun. 2025 May 12;16(1):4392. doi: 10.1038/s41467-025-59745-8.
26. Multitissue single-cell analysis reveals differential cellular and molecular sensitivity between fructose and high-fat high-sucrose diets
Chen YW et al. Cell Rep. 2025 May 9;44(5):115690. doi: 10.1016/j.celrep.2025.115690. Online ahead of print.
27. TIMER3: an enhanced resource for tumor immune analysis
Cui H et al. Nucleic Acids Res. 2025 May 8:gkaf388. doi: 10.1093/nar/gkaf388. Online ahead of print.
28. SCIG: Machine learning uncovers cell identity genes in single cells by genetic sequence codes
Arulsamy K et al. Nucleic Acids Res. 2025 May 22;53(10):gkaf431. doi: 10.1093/nar/gkaf431.
29. Pan-Cancer Spatial Profiling Reveals Conserved Subtypes and Niches of Cancer-Associated Fibroblasts
Jieun Kim H et al. Cancer Res. 2025 May 29. doi: 10.1158/0008-5472.CAN-25-2181. Online ahead of print.
30. Single-cell ultra-high-throughput multiplexed chromatin and RNA profiling reveals gene regulatory dynamics
Lobato-Moreno S et al. Nat Methods. 2025 May 26. doi: 10.1038/s41592-025-02700-8. Online ahead of print.
31. Genomic evolution reshapes cell-type diversification in the amniote brain
Chen D et al. Dev Cell. 2025 May 8:S1534-5807(25)00252-7. doi: 10.1016/j.devcel.2025.04.014. Online ahead of print.
32. GPATCH4 functions as a regulator of nucleolar R-loops in hepatocellular carcinoma cells
Zhao YM et al. Nucleic Acids Res. 2025 May 22;53(10):gkaf438. doi: 10.1093/nar/gkaf438.
33. Simultaneous single-cell sequencing of RNA and DNA at scale with DEFND-seq
Olsen TR et al. Nat Rev Genet. 2025 May 12. doi: 10.1038/s41576-025-00853-y. Online ahead of print.
34. Myeloid cell genome-wide screen identifies variants associated with Mycobacterium tuberculosis-induced cytokine transcriptional responses
Ivie JJ et al. J Clin Invest. 2025 May 22:e179822. doi: 10.1172/JCI179822. Online ahead of print.
35. Peak analysis of cell-free RNA finds recurrently protected narrow regions with clinical potential
Bao P et al. Genome Biol. 2025 May 8;26(1):119. doi: 10.1186/s13059-025-03590-x.
36. Single microorganism RNA sequencing of microbiomes using smRandom-Seq
Xu Z et al. Nat Protoc. 2025 May 22. doi: 10.1038/s41596-025-01181-5. Online ahead of print.
37. Time-resolved single-cell atlas identifies the spatiotemporal transcription dynamics in vernalization response in Brassica rapa
Zhang Z et al. Cell Rep. 2025 May 15;44(5):115725. doi: 10.1016/j.celrep.2025.115725. Online ahead of print.
38. Integrated single-cell multiome analysis reveals muscle fiber-type gene regulatory circuitry modulated by endurance exercise
Rubenstein AB et al. Genome Res. 2025 May 20:gr.280051.124. doi: 10.1101/gr.280051.124. Online ahead of print.
39. Deciphering the role of RNA in regulating CTCF's DNA binding affinity in leukemia cells
Hyle J et al. Genome Biol. 2025 May 12;26(1):126. doi: 10.1186/s13059-025-03582-x.
40. Charting the regulatory landscape of TP53 on transposable elements in cancer
Qu X et al. Genome Res. 2025 May 13. doi: 10.1101/gr.279398.124. Online ahead of print.
41. Precise measurement of molecular phenotypes with barcode-based CRISPRi systems
Lobel JH et al. Genome Biol. 2025 May 25;26(1):142. doi: 10.1186/s13059-025-03610-w.
42. SlideCNA: spatial copy number alteration detection from Slide-seq-like spatial transcriptomics data
Zhang D et al. Genome Biol. 2025 May 2;26(1):112. doi: 10.1186/s13059-025-03573-y.
43. Large-scale transcriptome mining enables macrocyclic diversification and improved bioactivity of the stephanotic acid scaffold
Wang X et al. Nat Commun. 2025 May 6;16(1):4198. doi: 10.1038/s41467-025-59428-4.
44. Regulatory network analysis of Dclk1 gene expression reveals a tuft cell-ILC2 axis that inhibits pancreatic tumor progression
Valenti G et al. Cell Rep. 2025 May 22;44(6):115734. doi: 10.1016/j.celrep.2025.115734. Online ahead of print.
45. Checkpoint kinase Wee1 activation drives inflammation and hypertrophy through the protein kinase B/phosphoinositide 3-kinases-nuclear factor κB pathway in cardiomyocytes
Wang M et al. Eur Heart J. 2025 May 21:ehaf349. doi: 10.1093/eurheartj/ehaf349. Online ahead of print.
46. Engineered vasculature induces functional maturation of pluripotent stem cell-derived islet organoids
Jun Y et al. Dev Cell. 2025 May 20:S1534-5807(25)00262-X. doi: 10.1016/j.devcel.2025.04.024. Online ahead of print.
47. Control of replication and gene expression by ADP-ribosylation of DNA in Mycobacterium tuberculosis
Butler RE et al. EMBO J. 2025 May 8. doi: 10.1038/s44318-025-00451-y. Online ahead of print.
48. Nuclear m(6)A modification regulates satellite transcription and chromosome segregation
Huang C et al. Nat Chem Biol. 2025 May 22. doi: 10.1038/s41589-025-01900-9. Online ahead of print.
49. The gene regulatory mechanisms shaping the heterogeneity of venom production in the Cape coral snake
Nachtigall PG et al. Genome Biol. 2025 May 19;26(1):130. doi: 10.1186/s13059-025-03602-w.
50. DIGGER 2.0: digging into the functional impact of differential splicing on human and mouse disorders
Albrecht E et al. Nucleic Acids Res. 2025 May 8:gkaf384. doi: 10.1093/nar/gkaf384. Online ahead of print.
51. The impact of PCR duplication on RNAseq data generated using NovaSeq 6000, NovaSeq X, AVITI, and G4 sequencers
Zajac N et al. Genome Biol. 2025 May 28;26(1):145. doi: 10.1186/s13059-025-03613-7.
52. SRSF10 regulates oligodendrocyte differentiation during mouse central nervous system development by modulating pre-mRNA splicing
Mu Y et al. Nucleic Acids Res. 2025 May 22;53(10):gkaf455. doi: 10.1093/nar/gkaf455.
53. Comparative analysis of the syncytiotrophoblast in placenta tissue and trophoblast organoids using snRNA sequencing
Keenen MM et al. Elife. 2025 May 27;13:RP101170. doi: 10.7554/eLife.101170.
54. Splicing of erythroid transcription factor is associated with therapeutic response in myelodysplastic syndromes
Aluri S et al. J Clin Invest. 2025 May 27:e189266. doi: 10.1172/JCI189266. Online ahead of print.
55. Transcriptomic and proteomic ramifications of segmental amplification in Escherichia coli
Fritts RK et al. Proc Natl Acad Sci U S A. 2025 May 20;122(20):e2422424122. doi: 10.1073/pnas.2422424122. Epub 2025 May 15.
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