Identification and functional prediction of long non-coding RNAs related to skeletal muscle development in Duroc pigs

키워드

참고문헌 (49)

1. Shanshan W, "Functions and regulatory mechanisms of lncRNAs in skeletal myogenesis, muscle disease and meat production", Cells-Basel, 8, pp.107~ (2019)[DOI]
2. Li Y, "Long non-coding RNAs in the regulation of skeletal myogenesis and muscle diseases", Cancer Lett, 417, pp.58~64 (2018)[DOI]
3. Liu H, "Comparative transcriptomic analysis of skeletal muscle tissue during prenatal stages in Tongcheng and Yorkshire pig using RNA-seq", Funct Integr Genomics, 18, pp.195~209 (2018)[DOI]
4. Zhou Y, "Comparative whole genome DNA methylation profiling across cattle tissues reveals global and tissue-specific methylation patterns", BMC Biol, 18, pp.85~ (2020)[DOI]
5. Zillikens MC, "Large meta-analysis of genome-wide association studies identifies five loci for lean body mass", Nat Commun, 8, pp.80~ (2017)[DOI]
6. Gu H, "Analysis of differential gene expression of the transgenic pig with overexpression of PGC1alpha in muscle", Mol Biol Rep, 46, pp.3427~3435 (2019)[DOI]
7. Zammit PS, "Function of the myogenic regulatory factors Myf5, MyoD, Myogenin and MRF4 in skeletal muscle, satellite cells and regenerative myogenesis", Semin Cell Dev Biol, 72, pp.19~32 (2017)[DOI]
8. Bunch H, "RNA polymerase II promoter-proximal pausing in mammalian long non-coding genes", Genomics, 108, pp.64~77 (2016)[DOI]
9. Cabili MN, "Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses", Genes Dev, 25, pp.1915~1927 (2011)[DOI]
10. Luo W, "C-Myc inhibits myoblast differentiation and promotes myoblast proliferation and muscle fibre hypertrophy by regulating the expression of its target genes, miRNAs and lincRNAs", Cell Death Differ, 26, pp.426~442 (2019)[DOI]
11. Li Y, "Long noncoding RNA SAM promotes myoblast proliferation through stabilizing Sugt1 and facilitating kinetochore assembly", Nat Commun, 11, pp.2725~ (2020)[DOI]
12. Cai B, "LncRNA-Six1 encodes a micropeptide to activate six1 in cis and is involved in cell proliferation and muscle growth", Front Physiol, 8, pp.230~ (2017)[DOI]
13. Wang L, "LncRNA Dum interacts with Dnmts to regulate Dppa2 expression during myogenic differentiation and muscle regeneration", Cell Res, 25, pp.335~350 (2015)[DOI]
14. Jin CF, "Lnc133b, a novel, long non-coding RNA, regulates bovine skeletal muscle satellite cell proliferation and differentiation by mediating miR-133b", Gene, 630, pp.35~43 (2017)[DOI]
15. Li D, "Genomic analyses revealed the genetic difference and potential selection genes of growth traits in two duroc lines", Front Vet Sci, 8, pp.725367~ (2021)[DOI]
16. Yu J, "Genomewide detection of selection signatures in duroc revealed candidate genes relating to growth and meat quality", G3(Bethesda), 10, pp.3765~3773 (2020)[DOI]
17. Chen S, "Fastp : An ultra-fast all-inone FASTQ preprocessor", Bioinformatics, 34, pp.i884~i890 (2018)[DOI]
18. Langmead B, "Fast gapped-read alignment with Bowtie 2", Nat Methods, 9, pp.357~359 (2012)[DOI]
19. Kim D, "HISAT : A fast spliced aligner with low memory requirements", Nat Methods, 12, pp.357~360 (2015)[DOI]
20. Kanehisa M, "KEGG for linking genomes to life and the environment", Nucleic Acids Res, 36, pp.D480~D484 (2008)[DOI]
21. Tafer H, "RNAplex : A fast tool for RNA-RNA interaction search", Bioinformatics, 24, pp.2657~2663 (2008)[DOI]
22. Lorenz R, "Vienna RNA Package 2. 0", Algorithms Mol Biol, 6, pp.26~ (2011)[DOI]
23. Wu Y, "MiRPara : A SVM-based software tool for prediction of most probable microRNA coding regions in genome scale sequences", BMC Bioinformatics, 12, pp.107~ (2011)[DOI]
24. Der-Auwera GAV, "From FastQ data to high confidence variant calls : the genome analysis toolkit best practices pipeline", Curr Protoc Bioinformatics, 43, pp.11~ (2013)[DOI]
25. Wang K, "ANNOVAR : Functional annotation of genetic variants from high-throughput sequencing data", Nucleic Acids Res, 38, pp.e164~ (2010)[DOI]
26. Ramaswami G, "Identifying RNA editing sites using RNA sequencing data alone", Nat Methods, 10, pp.128~132 (2013)[DOI]
27. Bahn JH, "Accurate identification of A-to-I RNA editing in human by transcriptome sequencing", Genome Res, 22, pp.142~150 (2012)[DOI]
28. Lam MT, "Enhancer RNAs and regulated transcriptional programs", Trends Biochem Sci, 39, pp.170~182 (2014)[DOI]
29. Ma M, "LncRNA-Six1 is a target of miR-1611that functions as a ceRNA to regulate six1 protein expression and fiber type switching in chicken myogenesis", Cells-Basel, 7, pp.243~ (2018)[DOI]
30. Chen LL, "Linking long noncoding RNA localization and function", Trends Biochem Sci, 41, pp.761~772 (2016)[DOI]
31. Yotsukura S, "Computational recognition for long noncoding RNA(lncRNA) : Software and databases", Brief Bioinform, 18, pp.9~27 (2017)[DOI]
32. Li R, "Exploring the lncRNAs related to skeletal muscle fiber types and meat quality traits in pigs", Genes(Basel), 11, pp.883~ (2020)[DOI]
33. Jin W, "Function analysis of Mef2c promoter in muscle differentiation", Biotechnol Appl Biochem, 64, pp.647~656 (2017)[DOI]
34. Sun JY, "Knockdown of UACA inhibitsproliferation and invasion and promotes senescence of hepatocellular carcinoma cells", Int J Clin Exp Pathol, 11, pp.4666~4675 (2018)
35. Midwood KS, "Tenascin-C at a glance", J Cell Sci, 129, pp.4321~4327 (2016)[DOI]
36. Yoshida T, "Tenascin-C and integrins in cancer", Cell Adh Migr, 9, pp.96~104 (2015)[DOI]
37. Zhou M, "The significance of serum S100A9 and TNC levels as biomarkers in colorectal cancer", J Cancer, 10, pp.5315~5323 (2019)[DOI]
38. Simionescu-Bankston A, "Noncoding RNAs in the regulation of skeletal muscle biology in health and disease", J Mol Med(Berl), 94, pp.853~866 (2016)[DOI]
39. Li Y, "Long non-coding RNAs in the regulation of skeletal myogenesis and muscle diseases", Cancer Lett, 417, pp.58~64 (2018)[DOI]
40. Tomida T, "Roles of p38 MAPK signaling in the skeletal muscle formation, regeneration, and pathology", Nihon Yakurigaku Zasshi, 155, pp.241~247 (2020)[DOI]
41. Kumar A, "SWELL1 regulates skeletal muscle cell size, intracellular signaling, adiposity and glucose metabolism", Elife, 9, pp.e58941~ (2020)[DOI]
42. Aphasizhev R, "RNA and DNA editing: methods and protocols(Chapter 11)", pp.171~184 (2011), Humana Press
43. Maas S, "A-to-I RNA editing and human disease", RNA Biol, 3, pp.1~9 (2006)
44. Sarah, Djebali, "Landscape of transcription in human cells", Nature, 489, pp.101~108 (2012)
45. Sebastian S, "Tissue-specific splicing of a ubiquitously expressed transcription factor is essential for muscle differentiation", Genes Dev, 27, pp.1247~1259 (2013)[DOI]
46. Shen S, "RMATS : Robust and flexible detection of differential alternative splicing from replicate RNA-Seq data", Proc Natl Acad Sci USA, 111(51), pp.E5593~E5601 (2014)
47. Hao Y, "Transcriptome analysis reveals that constant heat stress modifies the metabolism and structure of the porcine longissimus dorsi skeletal muscle", Mol Genet Genomics, 291, pp.2101~2115 (2016)[DOI]
48. Gennarelli M, "Different expression of the myotonin protein kinase gene in discrete areas of human brain", Biochem Biophys Res Commun, 216, pp.489~494 (1995)[DOI]
49. Zhang M, "Alternative splicing of MEF2C pre-mRNA controls its activity in normal myogenesis and promotes tumorigenicity in rhabdomyosarcoma cells", J Biol Chem, 290, pp.310~324 (2015)[DOI]

관련 논문AI추천