https://repository.kulib.kyoto-u.ac.jp/dspace/bitstream/2433/159777/1/j.cell.2006.07.024.pdf

Induction of pluripotent stem cells from mouse embryonic and adult fibroblast cultures by defined factors.

https://repository.kulib.kyoto-u.ac.jp/dspace/bitstream/2433/49782/1/Yamanaka_Cell_131_5.pdf

Induction of Pluripotent Stem Cells from Adult Human Fibroblasts by Defined Factors

High-resolution profiling of histone methylations in the human genome.

A Bivalent Chromatin Structure Marks Key Developmental Genes in Embryonic Stem Cells

We report the generation and analysis of functional data from multiple, diverse experiments performed on a targeted 1% of the human genome as part of the pilot phase of the ENCODE Project. These data have been further integrated and augmented by a number of evolutionary and computational analyses. Together, our results advance the collective knowledge about human genome function in several major areas. First, our studies provide convincing evidence that the genome is pervasively transcribed, such that the majority of its bases can be found in primary transcripts, including non-protein-coding transcripts, and those that extensively overlap one another. Second, systematic examination of transcriptional regulation has yielded new understanding about transcription start sites, including their relationship to specific regulatory sequences and features of chromatin accessibility and histone modification. Third, a more sophisticated view of chromatin structure has emerged, including its inter-relationship with DNA replication and transcriptional regulation. Finally, integration of these new sources of information, in particular with respect to mammalian evolution based on inter- and intra-species sequence comparisons, has yielded new mechanistic and evolutionary insights concerning the functional landscape of the human genome. Together, these studies are defining a path for pursuit of a more comprehensive characterization of human genome function.

/pdf/identification-and-analysis-of-functional-elements-in-1-of-2o640l8ikl.pdf

Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project

Myogenic factors that regulate expression of myogenic microRNAs

Making a Noisy Gene: HDACs Turn Up the Static

Pattern of expression and interaction specificity of multiple G-protein beta (Gβ) subunit isoforms with their potential target proteins reveal functional dominance of BjuGβ1 in the allotetraploid Brassica juncea

Cellular Signal Processing: Out of One, Many

Nature 516, 56–61 (2014); doi:10.1038/nature13920 In this Letter, owing to a production error, in Fig. 3e the sixth bar from the left was inadvertently labelled ‘Dgcr8−/− FF’ instead of ‘Dicer−/− FF’. This has now been corrected in the online versions of the paper.

/pdf/erratum-deconstructing-transcriptional-heterogeneity-in-3vqqydh5hv.pdf

Roshan M. Kumar

Papers

Myogenic factors that regulate expression of myogenic microRNAs

Making a Noisy Gene: HDACs Turn Up the Static

Pattern of expression and interaction specificity of multiple G-protein beta (Gβ) subunit isoforms with their potential target proteins reveal functional dominance of BjuGβ1 in the allotetraploid Brassica juncea

Cellular Signal Processing: Out of One, Many

Erratum: Deconstructing transcriptional heterogeneity in pluripotent stem cells