Namshin Kim

TL;DR: This method utilizes a cDNA library normalization step to diminish the representation of highly expressed transcripts and biology-oriented bioinformatic analyses to facilitate detection of rare and novel transcripts, revealing many hitherto unknown transcripts, splice isoforms, gene fusion events and ncRNAs.

TL;DR: It appears that polyploidy and chromosomal diploidization are ongoing processes that collectively stabilize the B. rapa genome and facilitate its evolution.

TL;DR: The multigenome approach provides a comprehensive database of exon creation and loss events over 360 million years of vertebrate evolution, including tens of thousands of alternative and constitutive exons, and suggests that a large fraction of nonrepetitive created exons are results of ab initio creation from purely intronic sequences.

TL;DR: This work combines transcriptome sequencing with molecular genetics and network analysis to quantify and categorize the transcriptional changes occurring in roots of Medicago truncatula from minutes to days after inoculation with Sinorhizobium medicae, and models Nod factor- and ET-regulated signaling networks using MERLIN, a regulatory network inference algorithm.

TL;DR: A novel gene-modeling method, ECgene (Gene modeling by EST Clustering), which combines genome-based EST clustering and the transcript assembly procedure in a coherent and consistent fashion and takes alternative splicing events into consideration.