WebOct 3, 2009 · 1 Center for Bioinformatics and Computational Biology, Institute for Advanced Computer Studies, University of Maryland, College Park, MD 20742, USA. [email protected]; PMID: 19261174 PMCID: PMC2690996 DOI: 10.1186/gb-2009-10-3-r25 Abstract Bowtie is an ultrafast, memory-efficient alignment program for aligning … http://cole-trapnell-lab.github.io/cufflinks/papers/
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WebMar 1, 2012 · TopHat and Cufflinks are free, open-source software tools for gene discovery and comprehensive expression analysis of high-throughput mRNA sequencing (RNA-seq) data. Together, they allow biologists to identify new genes and new splice variants of known ones, as well as compare gene and transcript expression under two or more conditions. WebJul 23, 2015 · The GTF files of these 913 genes were output and the expression levels of the assembled transcripts (FPKM) were estimated with Cufflinks (version 2.1.1). Analysis of maternal and zygotic genes The number of fragments that mapped to each mouse Ensembl gene was counted with Cufflinks (version 2.2.1) in all five oocyte, nine two-cell stage and ... dalby mountain bike trails
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