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For: Gustincich S, Sandelin A, Plessy C, Katayama S, Simone R, Lazarevic D, Hayashizaki Y, Carninci P. The complexity of the mammalian transcriptome. J Physiol 2006;575:321-32. [PMID: 16857706 PMCID: PMC1819450 DOI: 10.1113/jphysiol.2006.115568] [Citation(s) in RCA: 83] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]  Open
Number Cited by Other Article(s)
1
Peng X, Khan Z, Liu XM, Deng SL, Fang YG, Zhang M, Su XH, Xing LX, Yan XR. Embryonic Development of Parthenogenetic and Sexual Eggs in Lower Termites. INSECTS 2023;14:640. [PMID: 37504646 PMCID: PMC10380263 DOI: 10.3390/insects14070640] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/29/2023] [Revised: 07/08/2023] [Accepted: 07/10/2023] [Indexed: 07/29/2023]
2
Titus-McQuillan JE, Nanni AV, McIntyre LM, Rogers RL. Estimating transcriptome complexities across eukaryotes. BMC Genomics 2023;24:254. [PMID: 37170194 PMCID: PMC10173493 DOI: 10.1186/s12864-023-09326-0] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2023] [Accepted: 04/20/2023] [Indexed: 05/13/2023]  Open
3
Feng Z, Ou Y, Hao L. The roles of glycolysis in osteosarcoma. Front Pharmacol 2022;13:950886. [PMID: 36059961 PMCID: PMC9428632 DOI: 10.3389/fphar.2022.950886] [Citation(s) in RCA: 21] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/23/2022] [Accepted: 07/25/2022] [Indexed: 12/02/2022]  Open
4
Wu D, Liu Y, Chen W, Shao J, Zhuoma P, Zhao D, Yu Y, Liu T, Yu R, Gan Y, Yuzheng B, Huang Y, Zhang H, Bi X, Tao C, Lai S, Luo Q, Zhang D, Wang H, Zhaxi P, Zhang J, Qiao J, Zeng C. How placenta promotes the successful reproduction in high-altitude populations: a transcriptome comparison between adaptation and acclimatization. Mol Biol Evol 2022;39:6596365. [PMID: 35642306 PMCID: PMC9206416 DOI: 10.1093/molbev/msac120] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]  Open
5
Kakuk B, Tombácz D, Balázs Z, Moldován N, Csabai Z, Torma G, Megyeri K, Snyder M, Boldogkői Z. Combined nanopore and single-molecule real-time sequencing survey of human betaherpesvirus 5 transcriptome. Sci Rep 2021;11:14487. [PMID: 34262076 PMCID: PMC8280142 DOI: 10.1038/s41598-021-93593-y] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/25/2021] [Accepted: 06/28/2021] [Indexed: 02/08/2023]  Open
6
Differences between common endothelial cell models (primary human aortic endothelial cells and EA.hy926 cells) revealed through transcriptomics, bioinformatics, and functional analysis. CURRENT RESEARCH IN BIOTECHNOLOGY 2021. [DOI: 10.1016/j.crbiot.2021.05.001] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]  Open
7
Ji X, Li P, Fuscoe JC, Chen G, Xiao W, Shi L, Ning B, Liu Z, Hong H, Wu J, Liu J, Guo L, Kreil DP, Łabaj PP, Zhong L, Bao W, Huang Y, He J, Zhao Y, Tong W, Shi T. A comprehensive rat transcriptome built from large scale RNA-seq-based annotation. Nucleic Acids Res 2020;48:8320-8331. [PMID: 32749457 PMCID: PMC7470976 DOI: 10.1093/nar/gkaa638] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2019] [Revised: 07/14/2020] [Accepted: 07/21/2020] [Indexed: 01/01/2023]  Open
8
Oikonomopoulos S, Bayega A, Fahiminiya S, Djambazian H, Berube P, Ragoussis J. Methodologies for Transcript Profiling Using Long-Read Technologies. Front Genet 2020;11:606. [PMID: 32733532 PMCID: PMC7358353 DOI: 10.3389/fgene.2020.00606] [Citation(s) in RCA: 53] [Impact Index Per Article: 10.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/08/2020] [Accepted: 05/19/2020] [Indexed: 12/28/2022]  Open
9
Haack F, Trakooljul N, Gley K, Murani E, Hadlich F, Wimmers K, Ponsuksili S. Deep sequencing of small non-coding RNA highlights brain-specific expression patterns and RNA cleavage. RNA Biol 2019;16:1764-1774. [PMID: 31432767 DOI: 10.1080/15476286.2019.1657743] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]  Open
10
Tanti GK, Srivastava R, Kalluri SR, Nowak C, Hemmer B. Isolation, Culture and Functional Characterization of Glia and Endothelial Cells From Adult Pig Brain. Front Cell Neurosci 2019;13:333. [PMID: 31474831 PMCID: PMC6705213 DOI: 10.3389/fncel.2019.00333] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/20/2019] [Accepted: 07/05/2019] [Indexed: 02/02/2023]  Open
11
MiR-34 and MiR-200: Regulator of Cell Fate Plasticity and Neural Development. Neuromolecular Med 2019;21:97-109. [DOI: 10.1007/s12017-019-08535-9] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2018] [Accepted: 04/01/2019] [Indexed: 01/01/2023]
12
Bayega A, Wang YC, Oikonomopoulos S, Djambazian H, Fahiminiya S, Ragoussis J. Transcript Profiling Using Long-Read Sequencing Technologies. Methods Mol Biol 2018;1783:121-147. [PMID: 29767360 DOI: 10.1007/978-1-4939-7834-2_6] [Citation(s) in RCA: 38] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
13
Transcriptional Complexity and Distinct Expression Patterns of auts2 Paralogs in Danio rerio. G3-GENES GENOMES GENETICS 2017. [PMID: 28626003 PMCID: PMC5555464 DOI: 10.1534/g3.117.042622] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
14
Lussier AA, Weinberg J, Kobor MS. Epigenetics studies of fetal alcohol spectrum disorder: where are we now? Epigenomics 2017;9:291-311. [PMID: 28234026 PMCID: PMC5549650 DOI: 10.2217/epi-2016-0163] [Citation(s) in RCA: 62] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]  Open
15
Trivellin G, Bjelobaba I, Daly AF, Larco DO, Palmeira L, Faucz FR, Thiry A, Leal LF, Rostomyan L, Quezado M, Schernthaner-Reiter MH, Janjic MM, Villa C, Wu TJ, Stojilkovic SS, Beckers A, Feldman B, Stratakis CA. Characterization of GPR101 transcript structure and expression patterns. J Mol Endocrinol 2016;57:97-111. [PMID: 27282544 PMCID: PMC4959428 DOI: 10.1530/jme-16-0045] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 05/23/2016] [Accepted: 06/09/2016] [Indexed: 12/25/2022]
16
Yang Y, Tang Z, Fan X, Xu K, Mu Y, Zhou R, Li K. Transcriptome analysis revealed chimeric RNAs, single nucleotide polymorphisms and allele-specific expression in porcine prenatal skeletal muscle. Sci Rep 2016;6:29039. [PMID: 27352850 PMCID: PMC4926253 DOI: 10.1038/srep29039] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/19/2016] [Accepted: 06/14/2016] [Indexed: 01/28/2023]  Open
17
Establishing the Architecture of Plant Gene Regulatory Networks. Methods Enzymol 2016;576:251-304. [DOI: 10.1016/bs.mie.2016.03.003] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
18
The Antisense Transcriptome and the Human Brain. J Mol Neurosci 2015;58:1-15. [PMID: 26697858 DOI: 10.1007/s12031-015-0694-3] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/20/2015] [Accepted: 11/24/2015] [Indexed: 10/22/2022]
19
Robert C, Kapetanovic R, Beraldi D, Watson M, Archibald AL, Hume DA. Identification and annotation of conserved promoters and macrophage-expressed genes in the pig genome. BMC Genomics 2015;16:970. [PMID: 26582032 PMCID: PMC4652390 DOI: 10.1186/s12864-015-2111-2] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/05/2015] [Accepted: 10/19/2015] [Indexed: 01/09/2023]  Open
20
Khamis AM, Hamilton AR, Medvedeva YA, Alam T, Alam I, Essack M, Umylny B, Jankovic BR, Naeger NL, Suzuki M, Harbers M, Robinson GE, Bajic VB. Insights into the Transcriptional Architecture of Behavioral Plasticity in the Honey Bee Apis mellifera. Sci Rep 2015;5:11136. [PMID: 26073445 PMCID: PMC4466890 DOI: 10.1038/srep11136] [Citation(s) in RCA: 42] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/23/2014] [Accepted: 05/01/2015] [Indexed: 12/30/2022]  Open
21
de Klerk E, 't Hoen PAC. Alternative mRNA transcription, processing, and translation: insights from RNA sequencing. Trends Genet 2015;31:128-39. [PMID: 25648499 DOI: 10.1016/j.tig.2015.01.001] [Citation(s) in RCA: 226] [Impact Index Per Article: 22.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/01/2014] [Revised: 12/22/2014] [Accepted: 01/05/2015] [Indexed: 12/13/2022]
22
Rajan KS, Ramasamy S. Retrotransposons and piRNA: The missing link in central nervous system. Neurochem Int 2014;77:94-102. [DOI: 10.1016/j.neuint.2014.05.017] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/02/2014] [Revised: 05/25/2014] [Accepted: 05/29/2014] [Indexed: 01/17/2023]
23
Complex expression of the UL136 gene of human cytomegalovirus results in multiple protein isoforms with unique roles in replication. J Virol 2014;88:14412-25. [PMID: 25297993 DOI: 10.1128/jvi.02711-14] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]  Open
24
Hood JL, Morabito MV, Martinez CR, Gilbert JA, Ferrick EA, Ayers GD, Chappell JD, Dermody TS, Emeson RB. Reovirus-mediated induction of ADAR1 (p150) minimally alters RNA editing patterns in discrete brain regions. Mol Cell Neurosci 2014;61:97-109. [PMID: 24906008 PMCID: PMC4134954 DOI: 10.1016/j.mcn.2014.06.001] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2013] [Revised: 05/22/2014] [Accepted: 06/02/2014] [Indexed: 12/11/2022]  Open
25
Lan D, Xiong X, Wei Y, Xu T, Zhong J, Zhi X, Wang Y, Li J. RNA-Seq analysis of yak ovary: improving yak gene structure information and mining reproduction-related genes. SCIENCE CHINA-LIFE SCIENCES 2014;57:925-35. [DOI: 10.1007/s11427-014-4678-2] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/15/2013] [Accepted: 01/01/2014] [Indexed: 12/28/2022]
26
Burgos K, Malenica I, Metpally R, Courtright A, Rakela B, Beach T, Shill H, Adler C, Sabbagh M, Villa S, Tembe W, Craig D, Van Keuren-Jensen K. Profiles of extracellular miRNA in cerebrospinal fluid and serum from patients with Alzheimer's and Parkinson's diseases correlate with disease status and features of pathology. PLoS One 2014;9:e94839. [PMID: 24797360 PMCID: PMC4010405 DOI: 10.1371/journal.pone.0094839] [Citation(s) in RCA: 306] [Impact Index Per Article: 27.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/08/2013] [Accepted: 02/13/2014] [Indexed: 01/09/2023]  Open
27
Liang KC, Suzuki Y, Kumagai Y, Nakai K. Analysis of changes in transcription start site distribution by a classification approach. Gene 2014;537:29-40. [DOI: 10.1016/j.gene.2013.12.038] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/09/2013] [Accepted: 12/16/2013] [Indexed: 10/25/2022]
28
Guennewig B, Cooper AA. The Central Role of Noncoding RNA in the Brain. INTERNATIONAL REVIEW OF NEUROBIOLOGY 2014;116:153-94. [DOI: 10.1016/b978-0-12-801105-8.00007-2] [Citation(s) in RCA: 59] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
29
Xue W, Li JT, Zhu YP, Hou GY, Kong XF, Kuang YY, Sun XW. L_RNA_scaffolder: scaffolding genomes with transcripts. BMC Genomics 2013;14:604. [PMID: 24010822 PMCID: PMC3846640 DOI: 10.1186/1471-2164-14-604] [Citation(s) in RCA: 83] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/28/2013] [Accepted: 09/03/2013] [Indexed: 11/25/2022]  Open
30
Ling MHT, Ban Y, Wen H, Wang SM, Ge SX. Conserved expression of natural antisense transcripts in mammals. BMC Genomics 2013;14:243. [PMID: 23577827 PMCID: PMC3635984 DOI: 10.1186/1471-2164-14-243] [Citation(s) in RCA: 35] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/05/2012] [Accepted: 03/06/2013] [Indexed: 02/03/2023]  Open
31
Greek R, Menache A. Systematic reviews of animal models: methodology versus epistemology. Int J Med Sci 2013;10:206-21. [PMID: 23372426 PMCID: PMC3558708 DOI: 10.7150/ijms.5529] [Citation(s) in RCA: 129] [Impact Index Per Article: 10.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 11/12/2012] [Accepted: 12/30/2012] [Indexed: 01/24/2023]  Open
32
Freeman LA. Cloning full-length transcripts and transcript variants using 5' and 3' RACE. Methods Mol Biol 2013;1027:3-17. [PMID: 23912980 DOI: 10.1007/978-1-60327-369-5_1] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
33
Identification and comparative analysis of ncRNAs in human, mouse and zebrafish indicate a conserved role in regulation of genes expressed in brain. PLoS One 2012;7:e52275. [PMID: 23284966 PMCID: PMC3527520 DOI: 10.1371/journal.pone.0052275] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2012] [Accepted: 11/12/2012] [Indexed: 12/20/2022]  Open
34
Ulbrich SE, Groebner AE, Bauersachs S. Transcriptional profiling to address molecular determinants of endometrial receptivity--lessons from studies in livestock species. Methods 2012. [PMID: 23178633 DOI: 10.1016/j.ymeth.2012.10.013] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]  Open
35
Qu Z, Adelson DL. Evolutionary conservation and functional roles of ncRNA. Front Genet 2012;3:205. [PMID: 23087702 PMCID: PMC3466565 DOI: 10.3389/fgene.2012.00205] [Citation(s) in RCA: 58] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/30/2012] [Accepted: 09/24/2012] [Indexed: 11/24/2022]  Open
36
Feng L, Lintula S, Ho TH, Anastasina M, Paju A, Haglund C, Stenman UH, Hotakainen K, Orpana A, Kainov D, Stenman J. Technique for strand-specific gene-expression analysis and monitoring of primer-independent cDNA synthesis in reverse transcription. Biotechniques 2012;52:263-70. [PMID: 22482442 DOI: 10.2144/0000113842] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/01/2012] [Accepted: 03/06/2012] [Indexed: 11/23/2022]  Open
37
Qu Z, Adelson DL. Bovine ncRNAs are abundant, primarily intergenic, conserved and associated with regulatory genes. PLoS One 2012;7:e42638. [PMID: 22880061 PMCID: PMC3412814 DOI: 10.1371/journal.pone.0042638] [Citation(s) in RCA: 40] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2012] [Accepted: 07/11/2012] [Indexed: 12/15/2022]  Open
38
Davis MJ, Shin CJ, Jing N, Ragan MA. Rewiring the dynamic interactome. MOLECULAR BIOSYSTEMS 2012;8:2054-2013. [PMID: 22729145 DOI: 10.1039/c2mb25050k] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/03/2025]
39
Emerging roles of non-coding RNAs in brain evolution, development, plasticity and disease. Nat Rev Neurosci 2012;13:528-41. [PMID: 22814587 DOI: 10.1038/nrn3234] [Citation(s) in RCA: 430] [Impact Index Per Article: 33.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
40
5' end-centered expression profiling using cap-analysis gene expression and next-generation sequencing. Nat Protoc 2012;7:542-61. [PMID: 22362160 DOI: 10.1038/nprot.2012.005] [Citation(s) in RCA: 195] [Impact Index Per Article: 15.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
41
Plessy C, Pascarella G, Bertin N, Akalin A, Carrieri C, Vassalli A, Lazarevic D, Severin J, Vlachouli C, Simone R, Faulkner GJ, Kawai J, Daub CO, Zucchelli S, Hayashizaki Y, Mombaerts P, Lenhard B, Gustincich S, Carninci P. Promoter architecture of mouse olfactory receptor genes. Genome Res 2011;22:486-97. [PMID: 22194471 DOI: 10.1101/gr.126201.111] [Citation(s) in RCA: 47] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
42
Esteve-Codina A, Kofler R, Palmieri N, Bussotti G, Notredame C, Pérez-Enciso M. Exploring the gonad transcriptome of two extreme male pigs with RNA-seq. BMC Genomics 2011;12:552. [PMID: 22067327 PMCID: PMC3221674 DOI: 10.1186/1471-2164-12-552] [Citation(s) in RCA: 76] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2011] [Accepted: 11/08/2011] [Indexed: 12/11/2022]  Open
43
Becker J, Hackl M, Rupp O, Jakobi T, Schneider J, Szczepanowski R, Bekel T, Borth N, Goesmann A, Grillari J, Kaltschmidt C, Noll T, Pühler A, Tauch A, Brinkrolf K. Unraveling the Chinese hamster ovary cell line transcriptome by next-generation sequencing. J Biotechnol 2011;156:227-35. [PMID: 21945585 DOI: 10.1016/j.jbiotec.2011.09.014] [Citation(s) in RCA: 87] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2011] [Revised: 09/08/2011] [Accepted: 09/08/2011] [Indexed: 11/17/2022]
44
Valen E, Sandelin A. Genomic and chromatin signals underlying transcription start-site selection. Trends Genet 2011;27:475-85. [PMID: 21924514 DOI: 10.1016/j.tig.2011.08.001] [Citation(s) in RCA: 55] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2011] [Revised: 08/08/2011] [Accepted: 08/08/2011] [Indexed: 01/03/2023]
45
Sepp M, Kannike K, Eesmaa A, Urb M, Timmusk T. Functional diversity of human basic helix-loop-helix transcription factor TCF4 isoforms generated by alternative 5' exon usage and splicing. PLoS One 2011;6:e22138. [PMID: 21789225 PMCID: PMC3137626 DOI: 10.1371/journal.pone.0022138] [Citation(s) in RCA: 103] [Impact Index Per Article: 7.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2011] [Accepted: 06/16/2011] [Indexed: 12/12/2022]  Open
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Shishkin SS, Lisitskaya KV, Krakhmaleva IN. Biochemical polymorphism of the growth hormone system proteins and its manifestations in human prostate cells. BIOCHEMISTRY (MOSCOW) 2011;75:1547-62. [PMID: 21417994 DOI: 10.1134/s0006297910130043] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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Wang X, Song X, Glass CK, Rosenfeld MG. The long arm of long noncoding RNAs: roles as sensors regulating gene transcriptional programs. Cold Spring Harb Perspect Biol 2011;3:a003756. [PMID: 20573714 DOI: 10.1101/cshperspect.a003756] [Citation(s) in RCA: 118] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
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Hestand MS, Klingenhoff A, Scherf M, Ariyurek Y, Ramos Y, van Workum W, Suzuki M, Werner T, van Ommen GJB, den Dunnen JT, Harbers M, 't Hoen PAC. Tissue-specific transcript annotation and expression profiling with complementary next-generation sequencing technologies. Nucleic Acids Res 2010;38:e165. [PMID: 20615900 PMCID: PMC2938216 DOI: 10.1093/nar/gkq602] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]  Open
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van der Brug M, Nalls MA, Cookson MR. Deep sequencing of coding and non-coding RNA in the CNS. Brain Res 2010;1338:146-54. [PMID: 20307502 PMCID: PMC2883621 DOI: 10.1016/j.brainres.2010.03.039] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/31/2009] [Revised: 03/10/2010] [Accepted: 03/15/2010] [Indexed: 01/23/2023]
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De Smaele E, Ferretti E, Gulino A. MicroRNAs as biomarkers for CNS cancer and other disorders. Brain Res 2010;1338:100-11. [PMID: 20380821 DOI: 10.1016/j.brainres.2010.03.103] [Citation(s) in RCA: 111] [Impact Index Per Article: 7.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/09/2009] [Revised: 03/27/2010] [Accepted: 03/31/2010] [Indexed: 12/21/2022]
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