Benjamin W. Booth

TL;DR: 111,195 new elements are identified, including thousands of genes, coding and non-coding transcripts, exons, splicing and editing events and inferred protein isoforms that previously eluded discovery using established experimental, prediction and conservation-based approaches.

TL;DR: The Drosophila Encyclopedia of DNA Elements (modENCODE) project as mentioned in this paper has been used to map transcripts, histone modifications, chromosomal proteins, transcription factors, replication proteins and intermediates, and nucleosome properties across a developmental time course and in multiple cell lines.

TL;DR: An improved reference sequence of the single-copy and middle-repetitive regions of the genome is reported, produced using cytogenetic mapping to mitotic and polytene chromosomes, clone-based finishing and BAC fingerprint verification, ordering of scaffolds by alignment to cDNA sequences, incorporation of other map and sequence data, and validation by whole-genome optical restriction mapping.

TL;DR: A collection of MiMIC (Minos Mediated Integration Cassette) insertions allowed us to create a library of 400 GFP-tagged genes and it is shown that 72% of internally tagged proteins are functional, and that more than 90% can be imaged in unfixed tissues.

TL;DR: It is found in all three organisms that the gene-expression levels, both coding and non-coding, can be quantitatively predicted from chromatin features at the promoter using a ‘universal model’ based on a single set of organism-independent parameters.