Figure 1
From: Alternative splicing shapes transcriptome but not proteome diversity in Physcomitrella patens
(A) The analysis pipeline. Transcriptome profiling data of gametophores, protonameta and protoplasts were analyzed by TopHat and Cufflinks and were searched for differentially expressed (DE) and differentially alternatively spliced (DAS) genes. LncRNAs candidates from transcriptome assembly were filtered by the Coding-Non-Coding Index (CNCI) program and BLASTed against Rfam database. The LAST alignment tool was used to calculate the potential lncRNA-mRNA and lncRNA-pre-mRNA interactions. (B) Venn diagram showing the different types of AS events identified in the Physcomitrella patens. (C) Representation of differentially alternatively spliced (DAS) genes compared to differentially expressed (DE) genes in protonemata and protoplasts (DAS_PN and DEG_PN), and protonemata and gametophores (DAS_GN and DEG_GN).
