Title RNA-Seq 관련 논문 및 바이오뉴스(2023년 3월)
Writer Admin
Date 2023-03-01
Attached File
Newsletter | Mar. 2023 BioResearch & Healthcare Creator
Recent Papers(RNA-Seq Part)

1. Evolutionary route of nasopharyngeal carcinoma metastasis and its clinical significance
Lin M et al. Nat Commun. 2023 Feb 4;14(1):610. doi: 10.1038/s41467-023-35995-2.

2. Meta-Analysis of Human Cancer Single-Cell RNA-Seq Datasets Using the IMMUcan Database
Camps J et al. Cancer Res. 2023 Feb 3;83(3):363-373. doi: 10.1158/0008-5472.CAN-22-0074.

3. Neurovascular adaptations modulating cognition, mood, and stress responses
Dion-Albert L et al. Trends Neurosci. 2023 Feb 17:S0166-2236(23)00021-8. doi: 10.1016/j.tins.2023.01.005. Online ahead of print.

4. The heart field transcriptional landscape at single-cell resolution
Kelly RG et al. Dev Cell. 2023 Feb 17:S1534-5807(23)00042-4. doi: 10.1016/j.devcel.2023.01.010. Online ahead of print.

5. Emergent dynamics of adult stem cell lineages from single nucleus and single cell RNA-Seq of Drosophila testes
Raz AA et al. Elife. 2023 Feb 16;12:e82201. doi: 10.7554/eLife.82201.

6. Nuclear receptor 5A2 regulation of Agrp underlies olanzapine-induced hyperphagia
Zapata RC et al. Mol Psychiatry. 2023 Feb 10. doi: 10.1038/s41380-023-01981-9. Online ahead of print.

7. Salmonella-liberated dietary L-arabinose promotes expansion in superspreaders
Ruddle SJ et al. Cell Host Microbe. 2023 Feb 13:S1931-3128(23)00042-2. doi: 10.1016/j.chom.2023.01.017. Online ahead of print.

8. Single-cell transcriptome profiling of the stepwise progression of head and neck cancer
Choi JH et al. Nat Commun. 2023 Feb 24;14(1):1055. doi: 10.1038/s41467-023-36691-x.

9. Pitfalls and opportunities for applying latent variables in single-cell eQTL analyses
Xue A et al. Genome Biol. 2023 Feb 23;24(1):33. doi: 10.1186/s13059-023-02873-5.

10. ASGARD is A Single-cell Guided Pipeline to Aid Repurposing of Drugs
He B et al. Nat Commun. 2023 Feb 22;14(1):993. doi: 10.1038/s41467-023-36637-3.

11. CoLoC-seq probes the global topology of organelle transcriptomes
Jeandard D et al. Nucleic Acids Res. 2023 Feb 22;51(3):e16. doi: 10.1093/nar/gkac1183.

12. Single-read tRNA-seq analysis reveals coordination of tRNA modification and aminoacylation and fragmentation
Hernandez-Alias X et al. Nucleic Acids Res. 2023 Feb 22;51(3):e17. doi: 10.1093/nar/gkac1185.

13. Single-cell transcriptome profiles of Drosophila fruitless-expressing neurons from both sexes
Palmateer CM et al. Elife. 2023 Feb 1;12:e78511. doi: 10.7554/eLife.78511.

14. LINE-1 retrotransposon expression in cancerous, epithelial and neuronal cells revealed by 5' single-cell RNA-Seq
McKerrow W et al. Nucleic Acids Res. 2023 Feb 6:gkad049. doi: 10.1093/nar/gkad049. Online ahead of print.

15. Cell lineage-specific mitochondrial resilience during mammalian organogenesis
Burr SP et al. Cell. 2023 Feb 17:S0092-8674(23)00093-4. doi: 10.1016/j.cell.2023.01.034. Online ahead of print.

16. The Transcriptome-Wide Mapping of 2-Methylthio-N(6)-isopentenyladenosine at Single-Base Resolution
Fang Z et al. J Am Chem Soc. 2023 Feb 23. doi: 10.1021/jacs.2c13894. Online ahead of print.

17. A variational algorithm to detect the clonal copy number substructure of tumors from scRNA-seq data
De Falco A et al. Nat Commun. 2023 Feb 25;14(1):1074. doi: 10.1038/s41467-023-36790-9.

18. Global chromatin landscapes identify candidate noncoding modifiers of cardiac rhythm
Bhattacharyya S et al. J Clin Invest. 2023 Feb 1;133(3):e153635. doi: 10.1172/JCI153635.

19. Plasma proteins related to inflammatory diet predict future cognitive impairment
Duggan MR et al. Mol Psychiatry. 2023 Feb 3. doi: 10.1038/s41380-023-01975-7. Online ahead of print.

20. Single-cell Deconvolution of a Specific Malignant Cell Population as a Poor Prognostic Biomarker in Low-risk Clear Cell Renal Cell Carcinoma Patients
Saout JR et al. Eur Urol. 2023 Feb 15:S0302-2838(23)02580-0. doi: 10.1016/j.eururo.2023.02.008. Online ahead of print.

21. Complex hierarchical structures in single-cell genomics data unveiled by deep hyperbolic manifold learning
Tian T et al. Genome Res. 2023 Feb 27. doi: 10.1101/gr.277068.122. Online ahead of print.

22. SMAD3 promotes expression and activity of the androgen receptor in prostate cancer
Jeon HY et al. Nucleic Acids Res. 2023 Feb 2:gkad043. doi: 10.1093/nar/gkad043. Online ahead of print.

23. Batch alignment of single-cell transcriptomics data using deep metric learning
Yu X et al. Nat Commun. 2023 Feb 21;14(1):960. doi: 10.1038/s41467-023-36635-5.

24. Kinetic networks identify TWIST2 as a key regulatory node in adipogenesis
Dutta AB et al. Genome Res. 2023 Feb 21:gr.277559.122. doi: 10.1101/gr.277559.122. Online ahead of print.

25. SampleQC: robust multivariate, multi-cell type, multi-sample quality control for single-cell data
Macnair W et al. Genome Biol. 2023 Feb 10;24(1):23. doi: 10.1186/s13059-023-02859-3.

26. Species-specific regulation of XIST by the JPX/FTX orthologs
Rosspopoff O et al. Nucleic Acids Res. 2023 Feb 2:gkad029. doi: 10.1093/nar/gkad029. Online ahead of print.

27. Origin and Evolution of Marsupial-specific Imprinting Clusters Through Lineage-specific Gene Duplications and Acquisition of Promoter Differential Methylation
Cao W et al. Mol Biol Evol. 2023 Feb 3;40(2):msad022. doi: 10.1093/molbev/msad022.

28. Long-read sequencing identifies novel structural variations in colorectal cancer
Xu L et al. PLoS Genet. 2023 Feb 22;19(2):e1010514. doi: 10.1371/journal.pgen.1010514. Online ahead of print.

29. A transcriptome atlas of leg muscles from healthy human volunteers reveals molecular and cellular signatures associated with muscle location
Abbassi-Daloii T et al. Elife. 2023 Feb 6;12:e80500. doi: 10.7554/eLife.80500. Online ahead of print.

30. Evolutionarily distinct and sperm-specific supersized chromatin loops are marked by Helitron transposons in Xenopus tropicalis
Shi Z et al. Cell Rep. 2023 Feb 22;42(3):112151. doi: 10.1016/j.celrep.2023.112151. Online ahead of print.

31. Transcellular chaperone signaling is an intercellular stress-response distinct from the HSF-1-mediated heat shock response
Miles J et al. PLoS Biol. 2023 Feb 13;21(2):e3001605. doi: 10.1371/journal.pbio.3001605. eCollection 2023 Feb.

32. Unique DUOX2(+)ACE2(+) small cholangiocytes are pathogenic targets for primary biliary cholangitis
Li X et al. Nat Commun. 2023 Feb 9;14(1):29. doi: 10.1038/s41467-022-34606-w.

33. Single-nucleus RNA sequencing in ischemic cardiomyopathy reveals common transcriptional profile underlying end-stage heart failure
Simonson B et al. Cell Rep. 2023 Feb 14;42(2):112086. doi: 10.1016/j.celrep.2023.112086. Online ahead of print.

34. A systems biology approach identifies the role of dysregulated PRDM6 in the development of hypertension
Gunawardhana KL et al. J Clin Invest. 2023 Feb 15;133(4):e160036. doi: 10.1172/JCI160036.

35. Single-cell sequencing of entorhinal cortex reveals widespread disruption of neuropeptide networks in Alzheimer's disease
Li M et al. Alzheimers Dement. 2023 Feb 24. doi: 10.1002/alz.12979. Online ahead of print.

36. Alternative polyadenylation transcriptome-wide association study identifies APA-linked susceptibility genes in brain disorders
Cui Y et al. Nat Commun. 2023 Feb 3;14(1):583. doi: 10.1038/s41467-023-36311-8.

37. The Chlamydomonas Genome Project, version 6: Reference assemblies for mating-type plus and minus strains reveal extensive structural mutation in the laboratory
Craig RJ et al. Plant Cell. 2023 Feb 20;35(2):644-672. doi: 10.1093/plcell/koac347.

38. A DNA methylation signature for the prediction of tumour recurrence in stage II colorectal cancer
Li M et al. Br J Cancer. 2023 Feb 24. doi: 10.1038/s41416-023-02155-8. Online ahead of print.

39. Reproducing extracellular matrix adverse remodelling of non-ST myocardial infarction in a large animal model
Contessotto P et al. Nat Commun. 2023 Feb 22;14(1):995. doi: 10.1038/s41467-023-36350-1.

40. Sterile liver injury induces a protective tissue-resident cDC1-ILC1 circuit through cDC1-intrinsic cGAS-STING-dependent IL-12 production
Hildreth AD et al. Cell Rep. 2023 Feb 18;42(2):112141. doi: 10.1016/j.celrep.2023.112141. Online ahead of print.

41. An antibody-drug conjugate targeting GPR56 demonstrates efficacy in preclinical models of colorectal cancer
Jacob J et al. Br J Cancer. 2023 Feb 9. doi: 10.1038/s41416-023-02192-3. Online ahead of print.

42. Actin-dependent astrocytic infiltration is a key step for axon defasciculation during remodeling
Marmor-Kollet N et al. Cell Rep. 2023 Feb 14;42(2):112117. doi: 10.1016/j.celrep.2023.112117. Online ahead of print.

43. eRNA profiling uncovers the enhancer landscape of oesophageal adenocarcinoma and reveals new deregulated pathways
Ahmed I et al. Elife. 2023 Feb 20;12:e80840. doi: 10.7554/eLife.80840. Online ahead of print.

44. Mutation of the polyadenylation complex subunit CstF77 reveals that mRNA 3' end formation and HSP101 levels are critical for a robust heat stress response
Kim M et al. Plant Cell. 2023 Feb 20;35(2):924-941. doi: 10.1093/plcell/koac351.

45. Type 2 diabetes candidate genes, including PAX5, cause impaired insulin secretion in human pancreatic islets
Bacos K et al. J Clin Invest. 2023 Feb 15;133(4):e163612. doi: 10.1172/JCI163612.

46. Neutral amino acid transporter SLC38A2 protects renal medulla from hyperosmolarity-induced ferroptosis
Du C et al. Elife. 2023 Feb 1;12:e80647. doi: 10.7554/eLife.80647.

47. Tracking the evolution of esophageal squamous cell carcinoma under dynamic immune selection by multi-omics sequencing
Cui S et al. Nat Commun. 2023 Feb 17;14(1):892. doi: 10.1038/s41467-023-36558-1.

48. Transcriptome age of individual cell types in Caenorhabditis elegans
Ma F et al. Proc Natl Acad Sci U S A. 2023 Feb 28;120(9):e2216351120. doi: 10.1073/pnas.2216351120. Epub 2023 Feb 22.

49. SpliceVault predicts the precise nature of variant-associated mis-splicing
Dawes R et al. Nat Genet. 2023 Feb;55(2):324-332. doi: 10.1038/s41588-022-01293-8. Epub 2023 Feb 6.

50. Remodeling of colon plasma cell repertoire within ulcerative colitis patients
Scheid JF et al. J Exp Med. 2023 Apr 3;220(4):e20220538. doi: 10.1084/jem.20220538. Epub 2023 Feb 8.

51. mRNA ageing shapes the Cap2 methylome in mammalian mRNA
Despic V et al. Nature. 2023 Feb;614(7947):358-366. doi: 10.1038/s41586-022-05668-z. Epub 2023 Feb 1.

52. High-throughput droplet-based analysis of influenza A virus genetic reassortment by single-virus RNA sequencing
Chen KY et al. Proc Natl Acad Sci U S A. 2023 Feb 7;120(6):e2211098120. doi: 10.1073/pnas.2211098120. Epub 2023 Feb 2.

53. Additive efficacy of a bispecific anti-TNF/IL-6 nanobody compound in translational models of rheumatoid arthritis
Biesemann N et al. Sci Transl Med. 2023 Feb;15(681):eabq4419. doi: 10.1126/scitranslmed.abq4419. Epub 2023 Feb 1.

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