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TranscriptomicsIdentification of small ORFs in vertebrates using ribosome footprinting and evolutionary conservation
Identification of the coding elements in the genome is a fundamental step to understanding the building blocks of living systems. Short peptides (< 100 aa) have emerged as important regulators of development and physiology, but their identification has been limited by their size. We have leveraged t...
ORGANISM(S): Danio rerio 
2014-04-04 | E-GEOD-53693 | biostudies-arrayexpress
TranscriptomicsSmall RNA deep-sequencing identifies microRNAs and other small non-coding RNAs from human herpesvirus 6 (HHV-6B)
Roseolovirus, or human herpesvirus 6 (HHV-6) is a ubiquitous human pathogen infecting over 95% of the population by the age of two years. As with other herpesviruses, reactivation of HHV-6 can present with severe complications in immunocompromised individuals. Recent studies have highlighted the imp...
ORGANISM(S): Human herpesvirus 6B 
2012-01-01 | E-GEOD-34196 | biostudies-arrayexpress
ProteomicsDefining a minimal cell: essentiality of small ORFs and ncRNAs in a genome-reduced bacterium
Identifying all essential genomic components is critical for the assembly of minimal artificial life. In the genome-reduced bacterium Mycoplasma pneumoniae, we found, that small ORFs (smORFs; <100 residues), accounting for 10% of all ORFs, are the most frequently essential genomic components (53%)....
ORGANISM(S): Mycoplasma pneumoniae M29 
2015-03-03 | PXD001611 | Pride
Minimal genome Small proteins Non-coding rnas 
GenomicsImproved Super-Resolution Ribosome Profiling Reveals Prevalent Translation of Upstream ORFs and Small ORFs in Arabidopsis
Improved Super-Resolution Ribosome Profiling Reveals Prevalent Translation of Upstream ORFs and Small ORFs in Arabidopsis
PRJNA759858 | ENA
TranscriptomicsVirtual northern using DNA microarrays for genome wide systematic analysis of mRNA lengths, used to measure mRNAs corresponding to 84% of the annotated open reading frames (ORFs) in the yeast genome
We developed a 'Virtual Northern' method, using DNA microarrays for genome-wide systematic analysis of mRNA lengths. We used this method to measure mRNAs corresponding to 84% of the annotated open reading frames (ORFs) in the S. cerevisiae genome, with high precision and accuracy (measurement errors...
ORGANISM(S): Saccharomyces cerevisiae 
2005-10-27 | E-SMDB-2508 | biostudies-arrayexpress
ProteomicsImproved Identification and Analysis of Small Open Reading Frame Encoded Polypeptides
Computational, genomic, and proteomic approaches have been used to discover nonannotated proteincoding small open reading frames (smORFs). Some novel smORFs have crucial biological roles in cells and organisms, which motivates the search for additional smORFs. Proteomic smORF discovery methods are a...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2019-06-26 | MSV000084014 | MassIVE
TranscriptomicsIdentification of small ORFs in vertebrates using ribosome footprinting and evolutionary conservation
Identification of the coding elements in the genome is a fundamental step to understanding the building blocks of living systems. Short peptides (< 100 aa) have emerged as important regulators of development and physiology, but their identification has been limited by their size. We have leveraged t...
ORGANISM(S): Danio rerio 
2014-04-04 | GSE53693 | GEO
GenomicssmORFer: a modular algorithm to detect small ORFs in prokaryotes
smORFer: a modular algorithm to detect small ORFs in prokaryotes
PRJNA632889 | ENA
UnknownImproved super-resolution ribosome profiling reveals prevalent translation of upstream ORFs and small ORFs in Arabidopsis.
Not available
S-EPMC10896292 | biostudies-literature
UnknownTranslation of small downstream ORFs enhances translation of canonical main open reading frames.
Not available
S-EPMC7459409 | biostudies-literature
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