Manolis Kellis

TL;DR: By comparing with the human genome, this work not only confirms substantial conservation in the newly annotated potential functional sequences, but also finds a large degree of divergence of sequences involved in transcriptional regulation, chromatin state and higher order chromatin organization.

TL;DR: An expanded set of 283 readthrough candidates is reported, including 16 double-readthrough candidates; these were manually curated to rule out alternatives such as A-to-I editing, alternative splicing, dicistronic translation, and selenocysteine incorporation.

TL;DR: A Random-Forest based algorithm, RFECS (Random Forest based Enhancer identification from Chromatin States) is developed to integrate histone modification profiles for identification of enhancers, and used it to identify enhancers in a number of cell-types.

TL;DR: Two new algorithms for the DTL reconciliation problem are presented that are dramatically faster than existing algorithms, both asymptotically and in practice, and this dramatic improvement makes it possible to use D TL reconciliation for performing rigorous evolutionary analyses of large gene families and enables its use in advanced reconciliation-based gene and species tree reconstruction methods.

TL;DR: In this article, the authors developed a comprehensive resource of 394 cell type and tissue-specific gene regulatory networks for human, each specifying the genome-wide connectivity among transcription factors, enhancers, promoters and genes.