Title RNA-Seq 관련 논문 및 바이오뉴스(2023년 5월)
Writer Admin
Date 2023-05-01
Attached File
Newsletter | May. 2023 BioResearch & Healthcare Creator
Recent Papers(RNA-Seq Part)

1. Comparison of transformations for single-cell RNA-seq data
Ahlmann-Eltze C et al. Nat Methods. 2023 Apr 10. doi: 10.1038/s41592-023-01814-1. Online ahead of print.

2. Single-cell RNA-seq of heart reveals intercellular communication drivers of myocardial fibrosis in diabetic cardiomyopathy
Li W et al. Elife. 2023 Apr 3;12:e80479. doi: 10.7554/eLife.80479.

3. Understanding cell fate acquisition in stem-cell-derived pancreatic islets using single-cell multiome-inferred regulomes
Zhu H et al. Dev Cell. 2023 Apr 3:S1534-5807(23)00107-7. doi: 10.1016/j.devcel.2023.03.011. Online ahead of print.

4. Identification of cell barcodes from long-read single-cell RNA-seq with BLAZE
You Y et al. Genome Biol. 2023 Apr 6;24(1):66. doi: 10.1186/s13059-023-02907-y.

5. A relay velocity model infers cell-dependent RNA velocity
Li S et al. Nat Biotechnol. 2023 Apr 3. doi: 10.1038/s41587-023-01728-5. Online ahead of print.

6. Cellcano: supervised cell type identification for single cell ATAC-seq data
Ma W et al. Nat Commun. 2023 Apr 3;14(1):1864. doi: 10.1038/s41467-023-37439-3.

7. Consequences and opportunities arising due to sparser single-cell RNA-seq datasets
Bouland GA et al. Genome Biol. 2023 Apr 21;24(1):86. doi: 10.1186/s13059-023-02933-w.

8. Predictive and robust gene selection for spatial transcriptomics
Covert I et al. Nat Commun. 2023 Apr 12;14(1):2091. doi: 10.1038/s41467-023-37392-1.

9. RIP-PEN-seq identifies a class of kink-turn RNAs as splicing regulators
Li B et al. Nat Biotechnol. 2023 Apr 10. doi: 10.1038/s41587-023-01749-0. Online ahead of print.

10. GRaNIE and GRaNPA: inference and evaluation of enhancer-mediated gene regulatory networks
Kamal A et al. Mol Syst Biol. 2023 Apr 19:e11627. doi: 10.15252/msb.202311627. Online ahead of print.

11. Multimodal charting of molecular and functional cell states via in situ electro-sequencing
Li Q et al. Cell. 2023 Apr 15:S0092-8674(23)00286-6. doi: 10.1016/j.cell.2023.03.023. Online ahead of print.

12. Viewing both sides of the coin for infectious disease diagnosis
Strouts FR et al. J Clin Invest. 2023 Apr 17;133(8):e169242. doi: 10.1172/JCI169242.

13. Decoding the molecular crosstalk between grafted stem cells and the stroke-injured brain
Azevedo-Pereira RL et al. Cell Rep. 2023 Apr 10;42(4):112353. doi: 10.1016/j.celrep.2023.112353. Online ahead of print.

14. Tissue-specific regulation of gene expression via unproductive splicing
Mironov A et al. Nucleic Acids Res. 2023 Apr 24;51(7):3055-3066. doi: 10.1093/nar/gkad161.

15. SpliceTools, a suite of downstream RNA splicing analysis tools to investigate mechanisms and impact of alternative splicing
Flemington EK et al. Nucleic Acids Res. 2023 Apr 24;51(7):e42. doi: 10.1093/nar/gkad111.

16. Looping in on splicing: CRIC-seq uncovers PTBP1's long-range RNA regulatory rules
Iosub IA et al. Mol Cell. 2023 Apr 20;83(8):1206-1207. doi: 10.1016/j.molcel.2023.03.020.

17. SMAD3 promotes expression and activity of the androgen receptor in prostate cancer
Jeon HY et al. Nucleic Acids Res. 2023 Apr 11;51(6):2655-2670. doi: 10.1093/nar/gkad043.

18. Single-nucleus RNA-sequencing of autosomal dominant Alzheimer disease and risk variant carriers
Brase L et al. Nat Commun. 2023 Apr 21;14(1):2314. doi: 10.1038/s41467-023-37437-5.

19. Structural insights into RNase J that plays an essential role in Mycobacterium tuberculosis RNA metabolism
Bao L et al. Nat Commun. 2023 Apr 20;14(1):2280. doi: 10.1038/s41467-023-38045-z.

20. Stem cell competition driven by the Axin2-p53 axis controls brain size during murine development
Sun XL et al. Dev Cell. 2023 Apr 6:S1534-5807(23)00132-6. doi: 10.1016/j.devcel.2023.03.016. Online ahead of print.

21. Long noncoding RNA HIKER regulates erythropoiesis in Monge's disease via CSNK2B
Azad P et al. J Clin Invest. 2023 Apr 6:e165831. doi: 10.1172/JCI165831. Online ahead of print.

22. Genome-wide mapping of protein-DNA damage interaction by PADD-seq
Zhu Y et al. Nucleic Acids Res. 2023 Apr 11;51(6):e32. doi: 10.1093/nar/gkad008.

23. Targeting PPAR-gamma counteracts tumour adaptation to immune-checkpoint blockade in hepatocellular carcinoma
Xiong Z et al. Gut. 2023 Apr 5:gutjnl-2022-328364. doi: 10.1136/gutjnl-2022-328364. Online ahead of print.

24. FXR1 regulates vascular smooth muscle cell cytoskeleton, VSMC contractility, and blood pressure by multiple mechanisms
St Paul A et al. Cell Rep. 2023 Apr 11;42(4):112381. doi: 10.1016/j.celrep.2023.112381. Online ahead of print.

25. Chi3l1 is a modulator of glioma stem cell states and a therapeutic target in glioblastoma
Guetta-Terrier C et al. Cancer Res. 2023 Apr 27:CAN-21-3629. doi: 10.1158/0008-5472.CAN-21-3629. Online ahead of print.

26. Dandelion uses the single-cell adaptive immune receptor repertoire to explore lymphocyte developmental origins
Suo C et al. Nat Biotechnol. 2023 Apr 13. doi: 10.1038/s41587-023-01734-7. Online ahead of print.

27. Integrated host/microbe metagenomics enables accurate lower respiratory tract infection diagnosis in critically ill children
Mick E et al. J Clin Invest. 2023 Apr 3;133(7):e165904. doi: 10.1172/JCI165904.

28. Esearch3D: propagating gene expression in chromatin networks to illuminate active enhancers
Heer M et al. Nucleic Acids Res. 2023 Apr 6:gkad229. doi: 10.1093/nar/gkad229. Online ahead of print.

29. FIPRESCI: droplet microfluidics based combinatorial indexing for massive-scale 5'-end single-cell RNA sequencing
Li Y et al. Genome Biol. 2023 Apr 6;24(1):70. doi: 10.1186/s13059-023-02893-1.

30. NSD2 E1099K drives relapse in pediatric acute lymphoblastic leukemia by disrupting 3D chromatin organization
Narang S et al. Genome Biol. 2023 Apr 4;24(1):64. doi: 10.1186/s13059-023-02905-0.

31. Inverse agonists of RAR/RXR signaling as lineage-specific anti-tumor agents against human Adenoid Cystic Carcinoma
Viragova S et al. J Natl Cancer Inst. 2023 Apr 11:djad062. doi: 10.1093/jnci/djad062. Online ahead of print.

32. Surveillance of SARS-CoV-2 at the Huanan Seafood Market
Liu WJ et al. Nature. 2023 Apr 5. doi: 10.1038/s41586-023-06043-2. Online ahead of print.

33. Dissecting the polygenic basis of atherosclerosis via disease-associated cell state signatures
Örd T et al. Am J Hum Genet. 2023 Apr 11:S0002-9297(23)00097-6. doi: 10.1016/j.ajhg.2023.03.013. Online ahead of print.

34. The Long Non-coding RNA Carmn is a Critical Regulator of Gastrointestinal Smooth Muscle Contractile Function and Motility
He X et al. Gastroenterology. 2023 Apr 6:S0016-5085(23)00583-8. doi: 10.1053/j.gastro.2023.03.229. Online ahead of print.

35. Identifying a dynamic transcriptomic landscape of the cynomolgus macaque placenta during pregnancy at single-cell resolution
Jiang X et al. Dev Cell. 2023 Apr 8:S1534-5807(23)00108-9. doi: 10.1016/j.devcel.2023.03.012. Online ahead of print.

36. Comparative analysis of dimension reduction methods for cytometry by time-of-flight data
Wang K et al. Nat Commun. 2023 Apr 1;14(1):1836. doi: 10.1038/s41467-023-37478-w.

37. Emergence of division of labor in tissues through cell interactions and spatial cues
Adler M et al. Cell Rep. 2023 Apr 20;42(5):112412. doi: 10.1016/j.celrep.2023.112412. Online ahead of print.

38. Oncogenic role and target properties of the lysine-specific demethylase KDM1A in chronic lymphocytic leukemia
Jiang Q et al. Blood. 2023 Apr 6:blood.2022017230. doi: 10.1182/blood.2022017230. Online ahead of print.

39. The small and large intestine contain related mesenchymal subsets that derive from embryonic Gli1(+) precursors
Pærregaard SI et al. Nat Commun. 2023 Apr 21;14(1):2307. doi: 10.1038/s41467-023-37952-5.

40. Insplico: effective computational tool for studying splicing order of adjacent introns genome-wide with short and long RNA-seq reads
Gohr A et al. Nucleic Acids Res. 2023 Apr 7:gkad244. doi: 10.1093/nar/gkad244. Online ahead of print.

41. The ADAR1 editome reveals drivers of editing-specificity for ADAR1-isoforms
Kleinova R et al. Nucleic Acids Res. 2023 Apr 7:gkad265. doi: 10.1093/nar/gkad265. Online ahead of print.

42. Trajectory reconstruction identifies dysregulation of perinatal maturation programs in pluripotent stem cell-derived cardiomyocytes
Kannan S et al. Cell Rep. 2023 Apr 3;42(4):112330. doi: 10.1016/j.celrep.2023.112330. Online ahead of print.

43. Copy number variation in tRNA isodecoder genes impairs mammalian development and balanced translation
Hughes LA et al. Nat Commun. 2023 Apr 18;14(1):2210. doi: 10.1038/s41467-023-37843-9.

44. Evolution of cisplatin resistance through coordinated metabolic reprogramming of the cellular reductive state
Yu W et al. Br J Cancer. 2023 Apr 3. doi: 10.1038/s41416-023-02253-7. Online ahead of print.

45. The ASC-1 complex promotes translation initiation by scanning ribosomes
Kito Y et al. EMBO J. 2023 Apr 24:e112869. doi: 10.15252/embj.2022112869. Online ahead of print.

46. IL-1 receptor-associated kinase-3 acts as an immune checkpoint in myeloid cells to limit cancer immunotherapy
Tunalı G et al. J Clin Invest. 2023 Apr 3;133(7):e161084. doi: 10.1172/JCI161084.

47. Ubiquitin ligases Siah1a/2 control alveolar macrophage functions to limit carcinogen-induced lung adenocarcinoma
Scortegagna M et al. Cancer Res. 2023 Apr 19:CAN-23-0258. doi: 10.1158/0008-5472.CAN-23-0258. Online ahead of print.

48. Clonally resolved single-cell multi-omics identifies routes of cellular differentiation in acute myeloid leukemia
Beneyto-Calabuig S et al. Cell Stem Cell. 2023 Apr 19:S1934-5909(23)00119-4. doi: 10.1016/j.stem.2023.04.001. Online ahead of print.

49. Transformation of alignment files improves performance of variant callers for long-read RNA sequencing data
de Souza VBC et al. Genome Biol. 2023 Apr 24;24(1):91. doi: 10.1186/s13059-023-02923-y.

50. LncRNA HOTAIRM1 functions in DNA double-strand break repair via its association with DNA repair and mRNA surveillance factors
Chuang TW et al. Nucleic Acids Res. 2023 Apr 24;51(7):3166-3184. doi: 10.1093/nar/gkad143.

51. Progesterone receptor mediates ovulatory transcription through RUNX transcription factor interactions and chromatin remodelling
Dinh DT et al. Nucleic Acids Res. 2023 Apr 26:gkad271. doi: 10.1093/nar/gkad271. Online ahead of print.

52. Cellular states are coupled to genomic and viral heterogeneity in HPV-related oropharyngeal carcinoma
Puram SV et al. Nat Genet. 2023 Apr;55(4):640-650. doi: 10.1038/s41588-023-01357-3. Epub 2023 Apr 3.

53. Structural and functional properties of mSWI/SNF chromatin remodeling complexes revealed through single-cell perturbation screens
Otto JE et al. Mol Cell. 2023 Apr 20;83(8):1350-1367.e7. doi: 10.1016/j.molcel.2023.03.013. Epub 2023 Apr 6.

54. Cloning a profibrotic stem cell variant in idiopathic pulmonary fibrosis
Wang S et al. Sci Transl Med. 2023 Apr 26;15(693):eabp9528. doi: 10.1126/scitranslmed.abp9528. Epub 2023 Apr 26.

55. SIR telomere silencing depends on nuclear envelope lipids and modulates sensitivity to a lysolipid
Sosa Ponce ML et al. J Cell Biol. 2023 Jul 3;222(7):e202206061. doi: 10.1083/jcb.202206061. Epub 2023 Apr 12.

Recent Bio-News
1. 류마티스관절염 환자에 '희소식'...한국서 나는 약초 '뇌공등' 치료 효과 규명
2. 英, 신·변종 바이러스 유전 변화 감지 시스템 개발 나서
3. 조산 유전적 원인 찾았다…"분만 시기 두고 엄마와 아이 유전자 충돌"
4. [강석기의 과학카페] 방울토마토 먹고 배탈 난 과학적 이유
5. 한국인 잘 걸리는 파킨슨병 유발 유전자 찾았다
6. “암·심장질환 백신 2030년이면 나올 것”
7. 암·노화에 영향 미치는 '염색체 3차 구조' 원리 발견
8. 알츠하이머 유발 단백질 형성과정 규명…치료제 개발 실마리
9. "치자 추출물로 알레르기·아토피 피부염 완화"
10. 알츠하이머 새 치료전략에 눈길...효소·유전자 연구도 거든다
11. [오늘과학] 코로나 백신 부작용 '혈전' 피하는 단백질, 곰한테 있었네
12. 우리 아이 얼마나 클까...키 결정 유전자 확인됐다
13. [오늘과학] 고대 바이러스가 남긴 DNA 흔적, 암 치료 새 단서
14. 코로나19가 당뇨병 발병률 높였다…"남성 확진자에 주로 영향"
15. 심상찮은 엠폭스 확산...전문가들 "포위관리 전략 필요"
16. 하이드로겔에 결합한 항암제로 뇌종양 치료한다
17. 눈병 일으키는 코로나19 변이, 국내에서 152건 확인
18. 엠폭스 환자 6명 추가 확인…국내 누적 40명
19. "코로나19 백신, 패혈증·간질성폐질환 위험과 연관성 없어"
20. 녹내장의 새로운 유전자 치료법 개발(연구)
- 위 기사는 동아사이언스(https://www.dongascience.com/) 또는 BRIC(https://www.ibric.org/)에서 제공하고 링크클릭시 해당 사이트로 이동하여 기사내용을 보실수 있습니다.
(주)이바이오젠, www.e-biogen.com