MapSplice: Accurate mapping of RNA-seq reads for splice junction discovery
暂无分享,去创建一个
Derek Y. Chiang | S. J. Coleman | Sara A. Grimm | C. Perou | J. Prins | Jinze Liu | G. Savich | Kai Wang | Darshan Singh | Z. Zeng | S. Coleman | Y. Huang | Xiaping He | P. Mieczkowski | J. MacLeod | Yan Huang | Gleb L. Savich | Jinze Liu
[1] J. Bell,et al. Genomic structure of DNA encoding the lymphocyte homing receptor CD44 reveals at least 12 alternatively spliced exons. , 1992, Proceedings of the National Academy of Sciences of the United States of America.
[2] M. Wigler,et al. A conserved alternative splice in the von Recklinghausen neurofibromatosis (NF1) gene produces two neurofibromin isoforms, both of which have GTPase-activating protein activity , 1993, Molecular and cellular biology.
[3] E. Jabs,et al. FGFR2 exon IIIa and IIIc mutations in Crouzon, Jackson-Weiss, and Pfeiffer syndromes: evidence for missense changes, insertions, and a deletion due to alternative RNA splicing. , 1996, American journal of human genetics.
[4] Christian A. Rees,et al. Molecular portraits of human breast tumours , 2000, Nature.
[5] Haixu Tang,et al. Splicing graphs and EST assembly problem , 2002, ISMB.
[6] J. Castle,et al. Genome-Wide Survey of Human Alternative Pre-mRNA Splicing with Exon Junction Microarrays , 2003, Science.
[7] B. Frey,et al. Revealing global regulatory features of mammalian alternative splicing using a quantitative microarray platform. , 2004, Molecular cell.
[8] Tyson A. Clark,et al. Nova regulates brain-specific splicing to shape the synapse , 2005, Nature Genetics.
[9] Yi Xing,et al. An expectation-maximization algorithm for probabilistic reconstructions of full-length isoforms from splice graphs , 2006, Nucleic acids research.
[10] P. Pollock,et al. Frequent activating FGFR2 mutations in endometrial carcinomas parallel germline mutations associated with craniosynostosis and skeletal dysplasia syndromes , 2007, Oncogene.
[11] Gunnar Rätsch,et al. Optimal spliced alignments of short sequence reads , 2008, BMC Bioinformatics.
[12] Eric T. Wang,et al. Alternative Isoform Regulation in Human Tissue Transcriptomes , 2008, Nature.
[13] Christopher J. Lee,et al. Reconstruction of full-length isoforms from splice graphs. , 2008, Methods in molecular biology.
[14] Jacek Majewski,et al. Genome-wide analysis of transcript isoform variation in humans , 2008, Nature Genetics.
[15] B. Frey,et al. Deep surveying of alternative splicing complexity in the human transcriptome by high-throughput sequencing , 2008, Nature Genetics.
[16] Ketil Malde,et al. The effect of sequence quality on sequence alignment , 2008, Bioinform..
[17] Kristian Cibulskis,et al. Drug-sensitive FGFR2 mutations in endometrial carcinoma , 2008, Proceedings of the National Academy of Sciences.
[18] Marcel H. Schulz,et al. A Global View of Gene Activity and Alternative Splicing by Deep Sequencing of the Human Transcriptome , 2008, Science.
[19]
R. Durbin,et al.
Mapping Quality Scores Mapping Short Dna Sequencing Reads and Calling Variants Using P ,
2022
.
[20]
Cole Trapnell,et al.
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
,
2009,
Genome Biology.
[21]
B. Williams,et al.
Mapping and quantifying mammalian transcriptomes by RNA-Seq
,
2008,
Nature Methods.
[22]
S. Nelson,et al.
BFAST: An Alignment Tool for Large Scale Genome Resequencing
,
2009,
PloS one.
[23]
Wing Hung Wong,et al.
Statistical inferences for isoform expression in RNA-Seq
,
2009,
Bioinform..
[24]
Lior Pachter,et al.
Sequence Analysis
,
2020,
Definitions.
[25]
Inanç Birol,et al.
De novo transcriptome assembly with ABySS
,
2009,
Bioinform..
[26]
Martin Kircher,et al.
Improved base calling for the Illumina Genome Analyzer using machine learning strategies
,
2009,
Genome Biology.
[27]
Richard Durbin,et al.
Sequence analysis Fast and accurate short read alignment with Burrows – Wheeler transform
,
2009
.
[28]
Siu-Ming Yiu,et al.
SOAP2: an improved ultrafast tool for short read alignment
,
2009,
Bioinform..
[29]
Oliver Hofmann,et al.
ASTD: The Alternative Splicing and Transcript Diversity database.
,
2009,
Genomics.
[30]
A. Méreau,et al.
Analysis of splicing patterns by pyrosequencing
,
2009,
Nucleic acids research.
[31]
Liang Chen,et al.
A hierarchical Bayesian model for comparing transcriptomes at the individual transcript isoform level
,
2009,
Nucleic acids research.
[32]
Marcel H. Schulz,et al.
Prediction of alternative isoforms from exon expression levels in RNA-Seq experiments
,
2010,
Nucleic acids research.
[33]
B. Blencowe,et al.
Regulation of Alternative Splicing by Histone Modifications
,
2010,
Science.
[34]
Y. Xing,et al.
Detection of splice junctions from paired-end RNA-seq data by SpliceMap
,
2010,
Nucleic acids research.
[35]
L. Di Marcotullio,et al.
The multiple functions of Numb.
,
2010,
Experimental cell research.