Encyclopedia

ENCODE flagship paper: integrated encyclopedia of DNA elements in the human genome. Used 1,640 data sets from 147 cell types to systematically catalogue RNA transcription, transcription factor binding, chromatin structure, and histone modifications. Defined 80.4% of the genome as participating in at least one biochemical event. One of the most cited papers in genomics history.

Construction of the mouse full-length cDNA encyclopedia, generating over 60,000 full-length cDNA clones. Represented the most comprehensive collection of mammalian full-length cDNAs at the time, enabling systematic annotation of the mouse transcriptome.