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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
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
GenomicsPan-viral ORFs discovery using massively parallel ribosome profiling
Pan-viral ORFs discovery using massively parallel ribosome profiling
PRJNA1136820 | ENA
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
OtherPan-viral ORFs discovery using massively parallel ribosome profiling
Defining viral proteomes is crucial to understanding viral life cycles and immune recognition but the landscape of translated regions remains unknown for most viruses. We have developed massively parallel ribosome profiling (MPRP) to determine open reading frames (ORFs) across tens of thousands of d...
ORGANISM(S): Homo sapiens synthetic construct 
2025-06-12 | GSE272406 | GEO
UnknownImproved super-resolution ribosome profiling reveals prevalent translation of upstream ORFs and small ORFs in Arabidopsis.
Not available
S-EPMC10896292 | biostudies-literature
GenomicsHuman fecal samples from El Salvador
Putative terpene synthase ORFs
PRJNA835076 | ENA
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
UnknownPhylogenetic relationships among group II intron ORFs.
Not available
S-EPMC29734 | biostudies-literature
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 
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