Results 1 to 10 of about 408,908 (290)

Methods to study splicing from high-throughput RNA Sequencing data

, 2015
The development of novel high-throughput sequencing (HTS) methods for RNA (RNA-Seq) has provided a very powerful mean to study splicing under multiple conditions at unprecedented depth. However, the complexity of the information to be analyzed has turned
A Ameur, A Bhasi, A Dobin, A Mortazavi, A Oshlack, A Roberts, A Roberts, AM Mezlini, AN Brooks, B Jackson, B Kakaradov, B Langmead, B Li, B Li, BJ Haas, BJ Haas, C Trapnell, C Trapnell, C Trapnell, D Hiller, D Singh, DL Wood, DW Bryant, E Eyras, E Lee, E Turro, ET Wang, F Birzele, F Bona De, F Denoeud, F Tang, G Robertson, G Xu, GA Sacomoto, GR Grant, GS Slater, H Bao, H Jiang, H Jiang, H Kim, H Richard, J Behr, J Du, J Feng, J Hu, J Lovén, J Martin, J Salzman, J Seok, J Seok, J Wu, J Wu, JE Allen, JJ Li, JP Venables, K Schneeberger, K Wang, KD Hansen, KF Au, KL Howe, KM Borgwardt, L Chen, L Chen, L Wang, L Wang, LY Chen, M Aschoff, M Fiume, M Garber, M Griffith, M Guttman, M Stanke, M Stanke, M Sultan, MC Ryan, MF Rogers, MG Grabherr, MH Schulz, MT Dimon, N Cloonan, N Cloonan, N Deng, N Leng, N Nicolae, N Philippe, N Vijay, NA Fonseca, O Stegle, P Drewe, P Glaus, PL Martelli, PP Labaj, Q Liu, Q Liu, Q Pan, QY Zhao, R Bohnert, R Guigó, R Li, S Anders, S Djebali, S Filichkin, S Heber, S Huang, S Lee, S Mangul, S Marco-Sola, S Shen, S Sonnenburg, S Srivastava, S Tang, S Zheng, SB Montgomery, SH Nagaraj, SK Lou, T Bonfert, TA Clark, TD Wu, TD Wu, W Li, W Li, W Wang, WJ Kent, Y Hu, Y Katz, Y Li, Y Liao, Y Surget-Groba, Y Xing, Y Xing, Y Zhang, Z Xia   +131 more
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FreePSI: an alignment-free approach to estimating exon-inclusion ratios without a reference transcriptome. [PDF]

, 2017
Alternative splicing plays an important role in many cellular processes of eukaryotic organisms. The exon-inclusion ratio, also known as percent spliced in, is often regarded as one of the most effective measures of alternative splicing events.
Jiang, Tao, Ma, Shining, Wang, Dongfang, Zeng, Jianyang, Zhou, Jianyu   +4 more
core   +1 more source

Identification and evolutionary analysis of novel exons and alternative splicing events using cross-species EST-to-genome comparisons in human, mouse and rat

BMC Bioinformatics, 2006
Background Alternative splicing (AS) is important for evolution and major biological functions in complex organisms. However, the extent of AS in mammals other than human and mouse is largely unknown, making it difficult to study AS evolution in mammals ...
Ho Jar-Yi, Chen Chuang-Jong, Chen Feng-Chi, Chuang Trees-Juen   +3 more
doaj   +1 more source

Genes in the postgenomic era [PDF]

, 2006
We outline three very different concepts of the gene - 'instrumental', 'nominal', and 'postgenomic'. The instrumental gene has a critical role in the construction and interpretation of experiments in which the relationship between genotype and phenotype ...
B. Alberts, B. Alberts, C. Finta, C. Kenneth Waters, C. Kenneth Waters, C. Kenneth Waters, D. Communi, D. Kampa, E.M. Neumann-Held, Frederic L. Holmes, G. Stent, George C Williams, Karola Stotz, Karola Stotz, Karola Stotz, Kim Sterelny, Lenny Moss, M Burian Richard, M.W Gray, Marcel Weber, Michael Morange, Michael R Dietrich, Michael R Dietrich, Niall Dillon, P. Kapranov, P.S.R. Coelho, Paul E. Griffiths, Pavel V. Baranov, Petter Portin, Raphael Falk, Raphael Falk, Richard Dawkins, Richard Dawkins, Robert C Olby, T. Blumenthal, Thomas Hunt Morgan, Thomas Kuhn, Thomas. Fogle, Y. Chapdelaine   +38 more
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Intracerebral Hemorrhage and Ischemic Stroke of Different Etiologies Have Distinct Alternatively Spliced mRNA Profiles in the Blood: a Pilot RNA-seq Study. [PDF]

, 2015
Whole transcriptome studies have used 3'-biased expression microarrays to study genes regulated in the blood of stroke patients. However, alternatively spliced messenger RNA isoforms have not been investigated for ischemic stroke or intracerebral ...
Ander, Bradley P, Dykstra-Aiello, Cheryl, Ho, Carolyn, Hull, Heather, Jickling, Glen C, Liu, DaZhi, Orantia, Miles, Stamova, Boryana, Zhan, Xinhua   +8 more
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The Impact of MEI1 Alternative Splicing Events on Spermatogenesis in Mongolian Horses

Animals
Background: Normal spermatogenesis in Mongolian horses depends on the mitotic division of spermatogonia, two successive meiotic divisions, and the morphological transformation of spermatids into mature spermatozoa.
Dailing Song, Guoqing Wang, Terigele Baterin, Yajuan Weng, Manglai Dugarjaviin, Bei Li   +5 more
doaj   +1 more source

A Nonpolymorphic Class I Gene in the Murine Major Histocompatibility Complex [PDF]

, 1984
DNA sequence analysis of a class I gene (QlO), which maps to the Qa2,3 locus in the C57BL/lO (H- 2b haplotype) mouse, reveals that it is almost identical to a cDNA clone (pH16) isolated from a SWR/J (H-2q haplotype) mouse liver cDNA library.
Flavell, Richard A., Jay, Gilbert, Kress, Michael, Mellor, Andrew L., Weiss, Elisabeth H.   +4 more
core   +1 more source

Origins and Impacts of New Mammalian Exons

Cell Reports, 2015
Mammalian genes are composed of exons, but the evolutionary origins and functions of new internal exons are poorly understood. Here, we analyzed patterns of exon gain using deep cDNA sequencing data from five mammals and one bird, identifying thousands ...
Jason J. Merkin, Ping Chen, Maria S. Alexis, Sampsa K. Hautaniemi, Christopher B. Burge   +4 more
doaj   +1 more source

Genomic Organization, Splice Variants and Expression of CGMl, a CD66-related Member of the Carcinoembryonic Antigen Gene Family [PDF]

, 1993
The tumor marker carcinoembryonic antigen (CEA) belongs to a family of proteins which are composed of one immunogiobulin variable domain and a varying number of immunoglobulin constant-like domains.
Afar D. E. H., Audette M., Baniyash M., Berling B., Culic O., Elsen P., Felgner P. L., Fiddes J. C., Knapp W., Kolbinger F., Kuroki M., Kuroki M., Kuroki M., Lin S.-H., Lucas K., Margolis R. N., McCuaig K., Nap M., Neumaier M., Ng S. Y., Oikawa S., Oikawa S., Paxton R., Pelegrin A., Raskind W. H., Rojas M., Sambrook J. E., Schwarz K., Shively J. E., Skubitz K. M., Southern P. J., Thompson J. A., Thompson J. A., Turbide C., Tynan K., Watt S. M., Woodgett J. R., Zhou H.   +37 more
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Children with 5′-end NF1 gene mutations are more likely to have glioma [PDF]

, 2017
Objective:To ascertain the relationship between the germline NF1 gene mutation and glioma development in patients with neurofibromatosis type 1 (NF1).Methods:The relationship between the type and location of the germline NF1 mutation and the presence of ...
Anastasaki, Corina, Gao, Feng, Gutmann, David H, Morris, Stephanie M   +3 more
core   +2 more sources