Computational Molecular Biology, 2018, Vol.8, No.1, 1-13
11
Chamala S., Feng G., Chavarro C., and Barbazuk W.B., 2015, Genome-wide identification of evolutionarily conserved alternative splicing events in flowering
plants, Frontiers in Bioengineering & Biotechnology, 3: 33
PMid:25859541 PMCid:PMC4374538
Filichkin S.A., Priest H.D., Givan S.A., Shen R., Bryant D.W., Fox S.E., Wong W.K., and Mockler T.C., 2010, Genome-wide mapping of alternative splicing in
Arabidopsis thaliana
, Genome Res., 20: 45-58
PMid:19858364 PMCid:PMC2798830
Florea L., Hartzell G., Zhang Z., Rubin G.M., and Miller W., 1998, A computer program for aligning a cDNA sequence with a genomic DNA sequence,
Genome Res., 8: 967-974
PMid:9750195 PMCid:PMC310774
Foissac S., and Sammeth M., 2007, ASTALAVISTA: dynamic and flexible analysis of alternative splicing events in custom gene datasets, Nucleic Acids Res.,
35: W297-299
PMid:17485470 PMCid:PMC1933205
Huang X., and Madan A., 1999, CAP3: A DNA sequence assembly program, Genome Res., 9: 868-877
PMid:10508846 PMCid:PMC310812
Kiegle E.A., Garden A., Lacchini E., and Kater M.M., 2018, A genomic view of alternative splicing of long non-coding RNAs during rice seed development
reveals extensive splicing and lncRNA gene families, Front. Plant Sci., 9: 115
PMid:29467783 PMCid:PMC5808331
Lewis B.P., Green R.E., and Brenner S.E., 2003, Evidence for the widespread coupling of alternative splicing and nonsense-mediated mRNA decay in humans,
Proc Natl Acad Sci USA, 100: 189-192
PMid:12502788 PMCid:PMC140922
Li F., Fan G., and Lu C. et al., 2015, Genome sequence of cultivated Upland cotton (
Gossypium hirsutum
TM-1) provides insights into genome evolution, Nat.
Biotech., 33: 524
PMid:25893780
Li F., Fan G., Wang K., Sun F., Yuan Y., Song G., Li Q., Ma Z., Lu C., Zou C., and Chen W., 2014a, Genome sequence of the cultivated cotton
Gossypium
arboreum
, Nat. Genet., 46: 567
PMid:24836287
Li Q., Xiao G., and Zhu Y.X., 2014b, Single-nucleotide resolution mapping of the
Gossypium raimondii
transcriptome reveals a new mechanism for alternative
splicing of introns, Molecular Plant, 7: 829-840
PMid:24398628
Lightfoot D.J., Malone K.M., Timmis J.N., and Orford S.J., 2008, Evidence for alternative splicing of MADS-box transcripts in developing cotton fibre cells,
Mole. Genet. Genom., 279: 75-85
PMid:17943315
Lubbers E.L., and Chee P.W., 2009, The worldwide gene pool of
G. hirsutum
and its improvement, In Genetics and Genomics of Cotton, pp. 23-52, Springer,
New York, NY.
Marquez Y., Brown J.W.S., Simpson C., Barta A., and Kalyna M., 2012, Transcriptome survey reveals increased complexity of the alternative splicing
landscape in Arabidopsis, Genome Res., 22: 1184-1195
PMid:22391557 PMCid:PMC3371709
McCarthy F.M., Wang N., and Magee G.B. et al., 2006, AgBase: a functional genomics resource for agriculture, BMC Genomics, 7: 229
PMid:16961921 PMCid:PMC1618847
Mei W.B., Boatwright J.L., Feng G., Schnable J.C., and Barbazuk W.B., 2017, Evolutionarily conserved alternative splicing across monocots, Genetics, 207:
465-480
