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Distinct stages of the translation elongation cycle revealed by sequencing ribosome-protected mRNA fragments
The ability to visualize conformational changes in the ribosome during elongation, at single-codon resolution, provides a new way to study the detailed kinetics of translation and a new probe with which to identify the factors that affect each step in the elongation cycle.
Circular RNA Is Expressed across the Eukaryotic Tree of Life
It is reported that circular RNA isoforms are found in diverse species whose most recent common ancestor existed more than one billion years ago: fungi, plants, a plant, and protists, including S. pombe, which may be an ancient, conserved feature of eukaryotic gene expression programs.
Cell Cycle–Specified Fluctuation of Nucleosome Occupancy at Gene Promoters
Fluctuation of nucleosome occupancy at promoters of most cell cycle–regulated genes provides independent evidence that periodic expression of these genes is controlled mainly at the level of transcription.
Histone H1 binding is inhibited by histone variant H3.3
- Ulrich Braunschweig, Gregory J. Hogan, L. Pagie, B. van Steensel
- BiologyThe EMBO journal
- 2 December 2009
A genome‐wide high‐resolution binding map for linker histone H1 in Drosophila cells is generated, showing that the H3.3 protein counteracts association of H1, providing a mechanism to keep diverse genomic sites in an open chromatin conformation.
Evolutionary Conservation and Diversification of Puf RNA Binding Proteins and Their mRNA Targets
The many concerted and conserved changes in the RNA targets of Puf proteins strongly support an extensive role of RNA binding proteins in coordinating gene expression, as originally proposed by Keene.
The Saccharomyces cerevisiae Histone Demethylase Jhd1 Fine-Tunes the Distribution of H3K36me2
- Jia Fang, Gregory J. Hogan, Gaoyang Liang, J. Lieb, Yi Zhang
- BiologyMolecular and Cellular Biology
- 30 April 2007
These studies establish JHD1 as a histone demethylase in budding yeast and suggest that Jhd1 functions to maintain the fidelity of histone methylation patterns along transcription units.
Systematic design and comparison of expanded carrier screening panels
A method for the design of ECS panels that aims to maximize the aggregate and per-disease sensitivity and specificity across a range of Mendelian disorders considered serious by a systematic classification scheme is proposed.
Quantitative proteomic analysis reveals concurrent RNA–protein interactions and identifies new RNA-binding proteins in Saccharomyces cerevisiae
- D. Klass, M. Scheibe, F. Butter, Gregory J. Hogan, M. Mann, P. Brown
- BiologyGenome research
- 1 June 2013
This work describes a method to identify the proteins that bind to RNA concurrently with an RBP of interest, using quantitative mass spectrometry combined with RNase treatment of affinity-purified RNA–protein complexes, and provides new insights into the roles of Nab2 and Puf3 in post-transcriptional regulation.
Development and validation of an expanded carrier screen that optimizes sensitivity via full-exon sequencing and panel-wide copy-number-variant identification
Analytical validation of a 235-gene sequencing-based ECS with full coverage across coding regions, targeted assessment of pathogenic noncoding variants, panel-wide copy-number-variant (CNV) calling, and customized assays for technically challenging genes proves high-fidelity identification of different variant typesmaximizes at-risk couple detection.
Development and validation of a 36-gene sequencing assay for hereditary cancer risk assessment
The 2016 revision of the Counsyl Inherited Cancer Screen for detecting single-nucleotide variants, short insertions and deletions (indels), and copy number variants (CNVs) in 36 genes associated with an elevated risk for breast, ovarian, colorectal, gastric, endometrial, pancreatic, thyroid, prostate, melanoma, and neuroendocrine cancers is described.