Results 31 to 40 of about 667,667 (355)

ExPrimer: to design primers from exon--exon junctions [PDF]

Bioinformatics, 2005
ExPrimer is a web-based computer program to design primers mainly from a specified exon-exon junction (E-E-jn) of a gene of interest. The tool suggests the optimum primer-pair(s) of which the right (reverse) primer represents a particular E-E-jn of the mRNA. The 'product length' decides the location of the left primer.
Kshitish K. Acharya, Kuljeet Singh Sandhu   +1 more
openaire   +3 more sources

Large introns in relation to alternative splicing and gene evolution: a case study of Drosophila bruno-3 [PDF]

, 2009
Background: Alternative splicing (AS) of maturing mRNA can generate structurally and functionally distinct transcripts from the same gene. Recent bioinformatic analyses of available genome databases inferred a positive correlation between intron length ...
A Marchler-Bauer, A Mortazavi, A Nekrutenko, A Rambaut, A Resch, AA Patel, AB Carvalho, AE Vinogradov, AG Clark, AM McGuire, AN Ladd, AR Hatton, AS Chang, AV Alekseyenko, AV Philips, B Budagyan, B Modrek, B Modrek, B Prud'homme, BR Graveley, BR Graveley, BR Graveley, C Lee, C Notredame, CI Castillo-Davis, CL Fitzpatrick, CS Thummel, D Babushok, D Baek, D Gatfield, D Monroe, D Ortíz-Barrientos, DA Petrov, DA Petrov, DG Gilbert, DI Nurminsky, DJ Kenan, DL Black, DL Swofford, E Betran, E Kim, E Kim, E Wagner, EA Glazov, F-C Chen, FA Kondrashov, G Ast, G Lev-Maor, G Marais, GD Schuler, H Itoh, IA Swinburne, International Human Genome Sequencing Consortium, J Delaunay, J Felsenstein, J Rozas, JM Burnette, JM Comeron, JM Johnson, K Tamura, KL Fox-Walsh, KM Neugebauer, LF Lareau, M Clamp, M Guo, M Labrador, M Lynch, M Roy, M Talerico, MA Noor, MD Adams, MD Adams, MF Wilkinson, Mohamed AF Noor, MT Levine, Nikolai P Kandul, NJ Proudfoot, NM Kopelman, P Haddrill, PA Sharp, PJ Good, PM O'Grady, Q Pan, R Sorek, R Sorek, R Sorek, R Sorek, R Sorek, S Karlin, S Misra, S Richards, S-T Chen, SF Altschul, SM Berget, TE Royce, V Stolc, W Wang, WG Hill, Y Xing, Y Xing, Z Kan   +100 more
core   +5 more sources

Noncoder : a web interface for exon array-based detection of long non-coding RNAs [PDF]

, 2012
Due to recent technical developments, a high number of long non-coding RNAs (lncRNAs) have been discovered in mammals. Although it has been shown that lncRNAs are regulated differently among tissues and disease statuses, functions of these transcripts ...
Braun, Thomas, Gellert, Pascal, Ponomareva, Yuliya, Uchida, Shizuka   +3 more
core   +1 more source

Novel Nine-Exon AR Transcripts (Exon 1/Exon 1b/Exons 2–8) in Normal and Cancerous Breast and Prostate Cells [PDF]

International Journal of Molecular Sciences, 2016
Nearly 20 different transcripts of the human androgen receptor (AR) are reported with two currently listed as Refseq isoforms in the NCBI database. Isoform 1 encodes wild-type AR (type 1 AR) and isoform 2 encodes the variant AR45 (type 2 AR). Both variants contain eight exons: they share common exons 2–8 but differ in exon 1 with the canonical exon 1 ...
Dong Hu, Ross McKinnon, Julie-Ann Hulin, Peter Mackenzie, Robyn Meech   +4 more
openaire   +2 more sources

Conservation of the Exon-Intron Structure of Long Intergenic Non-Coding RNA Genes in Eutherian Mammals

Life, 2016
The abundance of mammalian long intergenic non-coding RNA (lincRNA) genes is high, yet their functions remain largely unknown. One possible way to study this important question is to use large-scale comparisons of various characteristics of lincRNA with ...
Diana Chernikova, David Managadze, Galina V. Glazko, Wojciech Makalowski, Igor B. Rogozin   +4 more
doaj   +1 more source

Exon Inclusion Is Dependent on Predictable Exonic Splicing Enhancers [PDF]

Molecular and Cellular Biology, 2005
We have previously formulated a list of approximately 2,000 RNA octamers as putative exonic splicing enhancers (PESEs) based on a statistical comparison of human exonic and nonexonic sequences (X. H. Zhang and L. A. Chasin, Genes Dev. 18:1241-1250, 2004).
Lawrence A. Chasin, Thaned Kangsamaksin, Joydeep K. Banerjee, Mann S. P. Chao, Xiang Zhang   +4 more
openaire   +3 more sources

Complex exon-intron marking by histone modifications is not determined solely by nucleosome distribution [PDF]

, 2010
It has recently been shown that nucleosome distribution, histone modifications and RNA polymerase II (Pol II) occupancy show preferential association with exons (“exon-intron marking”), linking chromatin structure and function to co-transcriptional ...
A Barski, A Tyagi, AJ Bannister, Alexander W. Bruce, Anton Wutz, AW Bruce, AW Bruce, B Langmead, B Li, BB Lozzio, BE Bernstein, Christoph M. Koch, CK Lee, CM Koch, Cordelia Langford, David Vetrie, E Allemand, E Batsche, E Birney, EC Forsberg, G Felsenfeld, G Hon, G Nogues, H Tilgner, Ian Dunham, IE Schor, Jackie Bye, JW Larrick, Keith James, Kelly Chiang, KJ Howe, M Allo, M de la Mata, M Yonaha, MC Keogh, MJ Carrozza, N Spies, NA Watkins, ND Heintzman, ND Robson-Dixon, Nicholas A. Watkins, Nicola S. Foad, Nicolas Bonhoure, NJ Park, P Dhami, P Kolasinska-Zwierz, Pawandeep Dhami, Peter Ellis, Peter Saffrey, PG Giresi, PL Nagy, R Andersson, R Landick, RF Luco, RJ Sims, RJ Sims, RK Auerbach, Robert M. Andrews, S Cuddapah, S Nahkuri, S Schwartz, S Schwartz, Shane C. Dillon, T Jenuwein, Willem H. Ouwehand, Y Mito, Z Wang   +66 more
core   +5 more sources

In Vivo Recognition of a Vertebrate Mini-Exon as an Exon-Intron-Exon Unit

Molecular and Cellular Biology, 1993
Very small vertebrate exons are problematic for RNA splicing because of the proximity of their 3' and 5' splice sites. In this study, we investigated the recognition of a constitutive 7-nucleotide mini-exon from the troponin I gene that resides quite close to the adjacent upstream exon.
D A Sterner, Susan M. Berget
openaire   +4 more sources

The CUGBP2 splicing factor regulates an ensemble of branchpoints from perimeter binding sites with implications for autoregulation [PDF]

, 2009
Alternative pre-mRNA splicing adjusts the transcriptional output of the genome by generating related mRNAs from a single primary transcript, thereby expanding protein diversity.
Dembowski, JA, Grabowski, PJ
core   +5 more sources

Correlation of KIT and PDGFRA mutation status with clinicopathologic features in primary and recurrent or metastatic gastrointestinal stromal tumors [PDF]

Zhenduanxue lilun yu shijian, 2021
Objective: To investigate the correlation of KIT and PDGFRA mutation status with immunohistochemistry (IHC) and clinicopathological features in the primary, recurren tor metastatic gastrointestinal stromal tumors (GIST).
GU Yijin, LI Anqi, DONG Lei, XU Haimin, SHEN Xia, XIE Jialing, YUAN Fei, WANG Chaofu
doaj   +1 more source