RibORF: Identifying Genome-Wide Translated Open Reading Frames Using Ribosome Profiling
نویسندگان
چکیده
منابع مشابه
Thousands of novel translated open reading frames in humans inferred by ribosome footprint profiling
Accurate annotation of protein coding regions is essential for understanding how genetic information is translated into function. We describe riboHMM, a new method that uses ribosome footprint data to accurately infer translated sequences. Applying riboHMM to human lymphoblastoid cell lines, we identified 7273 novel coding sequences, including 2442 translated upstream open reading frames. We ob...
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3" Anil Raj, Sidney H. Wang, Heejung Shim, Arbel Harpak, 4" Yang I. Li, Brett Engelmann, Matthew Stephens, Yoav Gilad, 5" Jonathan K. Pritchard " 6" " 7" Department of Genetics, Stanford University, Stanford, CA" 8" Department of Human Genetics, University of Chicago, Chicago, IL" 9" Department of Statistics, University of Chicago, Chicago, IL" 10" Department of Biology, Stanford University, St...
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Translational control is crucial in the regulation of gene expression and deregulation of translation is associated with a wide range of cancers and human diseases. Ribosome profiling is a technique that provides genome wide information of mRNA in translation based on deep sequencing of ribosome protected mRNA fragments (RPF). RPFdb is a comprehensive resource for hosting, analyzing and visuali...
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Mammalian gene expression displays widespread circadian oscillations. Rhythmic transcription underlies the core clock mechanism, but it cannot explain numerous observations made at the level of protein rhythmicity. We have used ribosome profiling in mouse liver to measure the translation of mRNAs into protein around the clock and at high temporal and nucleotide resolution. We discovered, transc...
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Open reading frames (6116) of the budding yeast Saccharomyces cerevisiae were PCR-amplified from genomic DNA using 12,232 primers specific to the ends of the coding sequences; the success rate of amplification was 97%. PCR-products were made accessible to hybridization by being arrayed at very high density on solid support media using various robotic devices. Probes made from total RNA preparat...
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ژورنال
عنوان ژورنال: Current Protocols in Molecular Biology
سال: 2018
ISSN: 1934-3639
DOI: 10.1002/cpmb.67