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Cell-type-specific nuclei purification from whole animals for genome-wide expression and chromatin profiling.
Henikoff JG, Belskyb JA, Krassovskya K, MacAlpine DM, Henikoff S.
Comprehensive analysis of the chromatin landscape in Drosophila melanogaster.
Plasticity in patterns of histone modifications and chromosomal proteins in Drosophila heterochromatin.
Chromatin signatures of the Drosophila replication program.
Eaton ML, Prinz JA, MacAlpine HK, Tretyakov G, Kharchenko PV, MacAlpine DM.
Developmental control of the DNA replication and transcription programs.
Nordman J, Li S, Eng T, Macalpine D, Orr-Weaver TL.
Genome-wide analysis of promoter architecture in Drosophila melanogaster.
Deep annotation of Drosophila melanogaster microRNAs yields insights into their processing, modification, and emergence.
Polycomb preferentially targets stalled promoters of coding and noncoding transcripts.
Enderle D, Beisel C, Stadler MB, Gerstung M, Athri P, Paro R.
Broad chromosomal domains of histone modification patterns in C. elegans.
High nucleosome occupancy is encoded at X-linked gene promoters in C. elegans.
Ercan S, Lubling Y, Segal E, Lieb JD.
Diverse transcription factor binding features revealed by genome-wide ChIP-seq in C. elegans.
A global analysis of C. elegans trans-splicing.
Allen MA, Hillier LW, Waterston RH, Blumenthal T.
Multimodal RNA-seq using single-strand, double-strand, and CircLigase-based capture yields a refined and extended description of the C. elegans transcriptome.
Prediction and characterization of noncoding RNAs in C. elegans by integrating conservation, secondary structure, and high-throughput sequencing and array data.
Computational and experimental identification of mirtrons in Drosophila melanogaster and Caenorhabditis elegans.
The transcriptional diversity of 25 Drosophila cell lines.
A spatial and temporal map of C. elegans gene expression.
Genome-wide analysis of alternative splicing in Caenorhabditis elegans.
Caenorhabditis elegans chromosome arms are anchored to the nuclear membrane via discontinuous association with LEM-2.
A Comprehensive Map of Insulator Elements for the Drosophila Genome.
Genome-wide profiling of salt fractions maps physical properties of chromatin.
Henikoff S, Henikoff J, Sakai A, Loeb G, Ahmad K.