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TranscriptomicsRibo-seq of Arabidopsis mTRAN double mutants
mTRAN proteins are are plant specific-components of the mitoribosome. To asses of loss-of-function mtran1 mtran2 double mutants show decreased translation rates, we performed ribosome footprinting coupled to RNA-seq (Ribo-seq).
ORGANISM(S): Arabidopsis thaliana 
2023-09-01 | E-MTAB-13059 | biostudies-arrayexpress
TranscriptomicsRibo-seq of HEK293T overexpressing WT and G240R GARS
Charcot-Marie-Tooth (CMT) disease can be caused by mutations in Aminoacyl-tRNA-Synthetases, including G240R mutation in Glycyl-tRNA-Synthetase (GARS). Ribo-seq generates snapshots of translating ribosomes on mRNA and therefore allows analysis of ribosome pausing mRNA. Here we performed Ribo-seq on l...
ORGANISM(S): Homo sapiens 
2021-09-14 | E-MTAB-10342 | biostudies-arrayexpress
ProteomicsNascent Ribo-Seq measures ribosomal loading time and reveals kinetic impact on ribosome density
mRNAs are generally assumed to be loaded instantly with ribosomes upon entry into the cytoplasm. To measure ribosome density on nascent mRNA, we developed nascent Ribo-Seq (nRibo-Seq) by combining Ribo-Seq with progressive 4-thiouridine labelling. In mouse macrophages, we experimentally determined, ...
ORGANISM(S): Mus musculus (Mouse) 
2021-06-22 | PXD026828 | Pride
Ribo-seq Translatome Nascent peptides 
TranscriptomicsRibo-seq of human colorectal cancer cell line HCT116/L-OHP against HCT116
Oxaliplatin (L-OHP) serves as a standard chemotherapy for colorectal cancer, while the drug resistance is still a considerable challenge. Dysregulation of lncRNA is involved in cancer and recent translatomics has found some alleged lncRNA actually contained small open reading frames and could encode...
ORGANISM(S): Homo sapiens 
2021-11-12 | E-MTAB-10805 | biostudies-arrayexpress
TranscriptomicsUsing ribosome profiling and matched RNA sequencing to study the co-evolution of transcriptome and translatome in mammalian organs
Ribosome profiling (Ribo-seq) and matched RNA sequencing (RNA-seq) data for three major mammalian organs (brain (cerebrum), liver, and testis) from five representatives of the three main mammalian lineages: human, rhesus macaque, mouse (placental mammals); grey short-tailed opossum (marsupials); and...
ORGANISM(S): Mus musculus 
2020-07-23 | E-MTAB-7247 | biostudies-arrayexpress
TranscriptomicsRibo-seq of wild-type and feronia mutant tomato roots under salt stress
This experiment investigates FERONIA-dependent translational regulation in tomato roots under salt stress. Wild-type and feronia mutant seedlings were grown under control conditions or treated with 150 mM NaCl, and root tissues were collected from four experimental groups: WT control, WT salt-treate...
ORGANISM(S): Solanum lycopersicum 
2026-06-12 | E-MTAB-17159 | biostudies-arrayexpress
TranscriptomicsRibo-Seq transcriptomic analysis of human RD cells infected with enterovirus strains EV7, EV71, and PV1.
Ribosome profiling (Ribo-Seq) (maps positions of translating ribosomes on the transcriptome) analysis of human (RD) cells infected with enterovirus strains EV7, EV71, and PV1.
ORGANISM(S): Homo sapiens 
2018-10-19 | E-MTAB-6180 | biostudies-arrayexpress
UnknownStructured RNA Contaminants in Bacterial Ribo-Seq.
Not available
S-EPMC7580957 | biostudies-literature
UnknownRibo-ODDR: oligo design pipeline for experiment-specific rRNA depletion in Ribo-seq.
Not available
S-EPMC8428583 | biostudies-literature
UnknownRibo-seq enlightens codon usage bias.
Not available
S-EPMC5499818 | biostudies-literature
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