Title RNA-Seq 관련 논문 및 바이오뉴스(2023년 2월)
Writer Admin
Date 2023-02-01
Attached File
Newsletter | Feb. 2023 BioResearch & Healthcare Creator
Recent Papers(RNA-Seq Part)

1. Identification of astrocyte regulators by nucleic acid cytometry
Clark IC et al. Nature. 2023 Jan 4. doi: 10.1038/s41586-022-05613-0. Online ahead of print.

2. Integrated single-cell profiling dissects cell-state-specific enhancer landscapes of human tumor-infiltrating CD8(+) T cells
Riegel D et al. Mol Cell. 2023 Jan 11:S1097-2765(22)01212-6. doi: 10.1016/j.molcel.2022.12.029. Online ahead of print.

3. A chromosome-scale epigenetic map of the Hydra genome reveals conserved regulators of cell state
Cazet JF et al. Genome Res. 2023 Jan 13:gr.277040.122. doi: 10.1101/gr.277040.122. Online ahead of print.

4. Droplet-based transcriptome profiling of individual synapses
Niu M et al. Nat Biotechnol. 2023 Jan 16. doi: 10.1038/s41587-022-01635-1. Online ahead of print.

5. scm(6)A-seq reveals single-cell landscapes of the dynamic m(6)A during oocyte maturation and early embryonic development
Yao H et al. Nat Commun. 2023 Jan 19;14(1):315. doi: 10.1038/s41467-023-35958-7.

6. Complexities of mammalian transcriptome revealed by targeted RNA enrichment techniques
Xu D et al. Trends Genet. 2023 Jan 19:S0168-9525(22)00313-4. doi: 10.1016/j.tig.2022.12.004. Online ahead of print.

7. Integrative single-cell analysis reveals transcriptional and epigenetic regulatory features of clear cell renal cell carcinoma
Yu Z et al. Cancer Res. 2023 Jan 6:CAN-22-2224. doi: 10.1158/0008-5472.CAN-22-2224. Online ahead of print.

8. Transcriptome-wide profiling and quantification of N(6)-methyladenosine by enzyme-assisted adenosine deamination
Xiao YL et al. Nat Biotechnol. 2023 Jan 2. doi: 10.1038/s41587-022-01587-6. Online ahead of print.

9. Extru-seq: a method for predicting genome-wide Cas9 off-target sites with advantages of both cell-based and in vitro approaches
Kwon J et al. Genome Biol. 2023 Jan 10;24(1):4. doi: 10.1186/s13059-022-02842-4.

10. Absolute scaling of single-cell transcriptomes identifies pervasive hypertranscription in adult stem and progenitor cells
Kim YK et al. Cell Rep. 2023 Jan 11;42(1):111978. doi: 10.1016/j.celrep.2022.111978. Online ahead of print.

11. Transformer for one stop interpretable cell type annotation
Chen J et al. Nat Commun. 2023 Jan 14;14(1):223. doi: 10.1038/s41467-023-35923-4.

12. Bacterial droplet-based single-cell RNA-seq reveals antibiotic-associated heterogeneous cellular states
Ma P et al. Cell. 2023 Jan 24:S0092-8674(23)00002-8. doi: 10.1016/j.cell.2023.01.002. Online ahead of print.

13. A DLG1-ARHGAP31-CDC42 axis is essential for the intestinal stem cell response to fluctuating niche Wnt signaling
Castillo-Azofeifa D et al. Cell Stem Cell. 2023 Jan 5:S1934-5909(22)00492-1. doi: 10.1016/j.stem.2022.12.008. Online ahead of print.

14. Epigenomic charting and functional annotation of risk loci in renal cell carcinoma
Nassar AH et al. Nat Commun. 2023 Jan 21;14(1):346. doi: 10.1038/s41467-023-35833-5.

15. A cellular hierarchy of Notch and Kras signaling controls cell fate specification in the developing mouse salivary gland
Chatzeli L et al. Dev Cell. 2023 Jan 23;58(2):94-109.e6. doi: 10.1016/j.devcel.2022.12.009.

16. Dysregulation of alternative splicing contributes to multiple myeloma pathogenesis
Song S et al. Br J Cancer. 2023 Jan 2. doi: 10.1038/s41416-022-02124-7. Online ahead of print.

17. Defining the age-dependent and tissue-specific circadian transcriptome in male mice
Wolff CA et al. Cell Rep. 2023 Jan 9;42(1):111982. doi: 10.1016/j.celrep.2022.111982. Online ahead of print.

18. Probabilistic embedding, clustering, and alignment for integrating spatial transcriptomics data with PRECAST
Liu W et al. Nat Commun. 2023 Jan 18;14(1):296. doi: 10.1038/s41467-023-35947-w.

19. Multimodal mapping of cell types and projections in the central nucleus of the amygdala
Wang Y et al. Elife. 2023 Jan 20;12:e84262. doi: 10.7554/eLife.84262. Online ahead of print.

20. The meningeal transcriptional response to traumatic brain injury and aging
Bolte AC et al. Elife. 2023 Jan 3;12:e81154. doi: 10.7554/eLife.81154.

21. Remodeling of maternal mRNA through poly(A) tail orchestrates human oocyte-to-embryo transition
Liu Y et al. Nat Struct Mol Biol. 2023 Jan 16. doi: 10.1038/s41594-022-00908-2. Online ahead of print.

22. The aryl hydrocarbon receptor cell intrinsically promotes resident memory CD8(+) T cell differentiation and function
Dean JW et al. Cell Rep. 2023 Jan 4;42(1):111963. doi: 10.1016/j.celrep.2022.111963. Online ahead of print.

23. The Prmt5-Vasa module is essential for spermatogenesis in Bombyx mori
Yang X et al. PLoS Genet. 2023 Jan 12;19(1):e1010600. doi: 10.1371/journal.pgen.1010600. eCollection 2023 Jan.

24. Auxin-inducible degron 2 system deciphers functions of CTCF domains in transcriptional regulation
Hyle J et al. Genome Biol. 2023 Jan 26;24(1):14. doi: 10.1186/s13059-022-02843-3.

25. Sortilin enhances fibrosis and calcification in aortic valve disease by inducing interstitial cell heterogeneity
Iqbal F et al. Eur Heart J. 2023 Jan 20:ehac818. doi: 10.1093/eurheartj/ehac818. Online ahead of print.

26. Ribosomal RNA (rRNA) sequences from 33 globally distributed mosquito species for improved metagenomics and species identification
Koh C et al. Elife. 2023 Jan 23;12:e82762. doi: 10.7554/eLife.82762. Online ahead of print.

27. Adaptation to glucose starvation is associated with molecular reorganization of the circadian clock in Neurospora crassa
Szőke A et al. Elife. 2023 Jan 10;12:e79765. doi: 10.7554/eLife.79765.

28. STAT3 promotes RNA polymerase III-directed transcription by controlling the miR-106a-5p/TP73 axis
Zhang C et al. Elife. 2023 Jan 19;12:e82826. doi: 10.7554/eLife.82826.

29. A systems biology approach identifies the role of dysregulated PRDM6 in the development of hypertension
Gunawardhana KL et al. J Clin Invest. 2023 Jan 5:e160036. doi: 10.1172/JCI160036. Online ahead of print.

30. Web-accessible application for identifying pathogenic transcripts with RNA-seq: Increased sensitivity in diagnosis of neurodevelopmental disorders
Dekker J et al. Am J Hum Genet. 2023 Jan 17:S0002-9297(22)00549-3. doi: 10.1016/j.ajhg.2022.12.015. Online ahead of print.

31. β-actin mediated H3K27ac changes demonstrate the link between compartment switching and enhancer-dependent transcriptional regulation
Mahmood SR et al. Genome Biol. 2023 Jan 25;24(1):18. doi: 10.1186/s13059-023-02853-9.

32. Accounting for cis-regulatory constraint prioritizes genes likely to affect species-specific traits
Starr AL et al. Genome Biol. 2023 Jan 19;24(1):11. doi: 10.1186/s13059-023-02846-8.

33. Uncovering perturbations in human hematopoiesis associated with healthy aging and myeloid malignancies at single cell resolution
Ainciburu M et al. Elife. 2023 Jan 11;12:e79363. doi: 10.7554/eLife.79363. Online ahead of print.

34. Initiation of HIV-1 Gag lattice assembly is required for recognition of the viral genome packaging signal
Lei X et al. Elife. 2023 Jan 23;12:e83548. doi: 10.7554/eLife.83548. Online ahead of print.

35. Combined modelling of mRNA decay dynamics and single-molecule imaging in the Drosophila embryo uncovers a role for P-bodies in 5' to 3' degradation
Forbes Beadle L et al. PLoS Biol. 2023 Jan 17;21(1):e3001956. doi: 10.1371/journal.pbio.3001956. eCollection 2023 Jan.

36. Liver-resident CD8+ T cells in viral hepatitis: not always good guys
Luxenburger H et al. J Clin Invest. 2023 Jan 3;133(1):e165033. doi: 10.1172/JCI165033.

37. Network analysis of large-scale ImmGen and Tabula Muris datasets highlights metabolic diversity of tissue mononuclear phagocytes
Gainullina A et al. Cell Rep. 2023 Jan 27;42(2):112046. doi: 10.1016/j.celrep.2023.112046. Online ahead of print.

38. Genome-wide mapping of protein-DNA damage interaction by PADD-seq
Zhu Y et al. Nucleic Acids Res. 2023 Jan 30:gkad008. doi: 10.1093/nar/gkad008. Online ahead of print.

39. Role of MR1-driven signals and amphiregulin on the recruitment and repair function of MAIT cells during skin wound healing
du Halgouet A et al. Immunity. 2023 Jan 10;56(1):78-92.e6. doi: 10.1016/j.immuni.2022.12.004.

40. The Drosophila Fab-7 boundary modulates Abd-B gene activity by guiding an inversion of collinear chromatin organization and alternate promoter use
Moniot-Perron L et al. Cell Rep. 2023 Jan 4;42(1):111967. doi: 10.1016/j.celrep.2022.111967. Online ahead of print.

41. Multimodal single-cell and whole-genome sequencing of small, frozen clinical specimens
Wang Y et al. Nat Genet. 2023 Jan;55(1):19-25. doi: 10.1038/s41588-022-01268-9. Epub 2023 Jan 9.

42. Neighbor-specific gene expression revealed from physically interacting cells during mouse embryonic development
Kim J et al. Proc Natl Acad Sci U S A. 2023 Jan 10;120(2):e2205371120. doi: 10.1073/pnas.2205371120. Epub 2023 Jan 3.

43. PCIF1-mediated deposition of 5'-cap N(6),2'-O-dimethyladenosine in ACE2 and TMPRSS2 mRNA regulates susceptibility to SARS-CoV-2 infection
Wang L et al. Proc Natl Acad Sci U S A. 2023 Jan 31;120(5):e2210361120. doi: 10.1073/pnas.2210361120. Epub 2023 Jan 23.

44. Time series transcriptome analysis implicates the circadian clock in the Drosophila melanogaster female's response to sex peptide
Delbare SYN et al. Proc Natl Acad Sci U S A. 2023 Jan 31;120(5):e2214883120. doi: 10.1073/pnas.2214883120. Epub 2023 Jan 27.

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