Results 31 to 40 of about 136,643 (153)

Integrative analysis of macrophage ribo-Seq and RNA-Seq data define glucocorticoid receptor regulated inflammatory response genes into distinct regulatory classes. [PDF]

Comput Struct Biotechnol J, 2022
Glucocorticoids such as dexamethasone (Dex) are widely used to treat both acute and chronic inflammatory conditions. They regulate immune responses by dampening cell-mediated immunity in a glucocorticoid receptor (GR)-dependent manner, by suppressing the
Ansari SA, Dantoft W, Ruiz-Orera J, Syed AP, Blachut S, van Heesch S, Hübner N, Uhlenhaut NH.   +7 more
europepmc   +2 more sources

Comparison of software packages for detecting unannotated translated small open reading frames by Ribo-seq [PDF]

, 2023
Accurate and comprehensive annotation of microprotein-coding small open reading frames (smORFs) is critical to our understanding of normal physiology and disease.
Tong, Gregory, Hah, Nasun, Martinez, Thomas F   +2 more
core   +1 more source

Ribo-seq - more data

, 2022
Just a tad more ribo-seq data for Arabidopsis ...
Axel Thieffry (7510553)
core   +1 more source

Ribo-seq data

, 2022
Processed ribo-seq data from several public datasets, in bigwig format. List of dataset is as follow:├── Bazin_2017/│ ├── Bazin_wt_R1.bw│ └── Bazin_wt_R2.bw├── Hsu_2016/│ ├── Hsu_root_A.bw│ ├── Hsu_root_B.bw│ ├── Hsu_root_C.bw│ ├── Hsu_root_D.
Axel Thieffry (7510553)
core   +1 more source

Complementary Ribo-seq approaches map the translatome and provide a small protein census in the foodborne pathogen Campylobacter jejuni. [PDF]

Nat Commun
In contrast to transcriptome maps, bacterial small protein (≤50-100 aa) coding landscapes, including overlapping genes, are poorly characterized. However, an emerging number of small proteins have crucial roles in bacterial physiology and virulence. Here,
Froschauer K, Svensson SL, Gelhausen R, Fiore E, Kible P, Klaude A, Kucklick M, Fuchs S, Eggenhofer F, Yang C, Falush D, Engelmann S, Backofen R, Sharma CM.   +13 more
europepmc   +2 more sources

Visualizing the periodic Ribo-seq reads with RiboPlotR [PDF]

, 2019
ABSTRACT Background Ribo-seq has revolutionized the study of mRNA translation in a genome-wide scale. High-quality Ribo-seq data display strong 3-nucleotide (nt) periodicity, which corresponds to translating ribosomes decipher three nucleotides each time.
Wu, Hsin-Yen Larry, Hsu, Polly Yingshan
openaire   +1 more source

Reliable detection of translational regulation with Ribo-seq [PDF]

, 2017
Ribosome profiling (Ribo-Seq) reveals genome-wide translation rates via the quantification of ribosome protected fragments (RPFs) of mRNAs. Several methods have recently been developed to detect differentially translated genes (DTGs) using Ribo-seq: Xtail, Ribodiff and Riborex. At their core, all of these approaches either utilize existing differential
Chothani, Sonia P, Adami, Eleonora, Viswanathan, Sivakumar, Hubner, Norbert, Cook, Stuart, Schafer, Sebastian, Rackham, Owen J L   +6 more
openaire   +1 more source

Repurposing Ribo-Seq to provide insights into structured RNAs [PDF]

, 2020
Abstract Ribosome profiling (Ribo-Seq) is a powerful method to study translation in bacteria. However, this method can enrich RNAs that are not bound by ribosomes, but rather, are protected from degradation in another way.
Brayon J. Fremin, Ami S. Bhatt
openaire   +1 more source

Differential analysis of Ribo-seq and RNA-seq read counts by genomic feature.

, 2023
Differential analysis of Ribo-seq and RNA-seq read counts by genomic feature.
Andrew A. Smith (17041553), Sujatha Jagannathan (294058), Chao-Jen Wong (2743033), Amy E. Campbell (3820846), Danielle C. Hamm (4693915), Sean R. Bennett (17041550), Cynthia L. Wladyka (16011824), Stephen J. Tapscott (10287250), Andrew C. Hsieh (16011836), Ellen M. Paatela (17041547)   +9 more
core   +1 more source

Fig1A WT and dfrq ribo-seq data for heatmaps

, 2023
Fig1A WT and dfrq ribo-seq data for heatmaps 
Kathrina Castillo (13712005), Deborah Bell-Pedersen (197589)   +1 more
core   +1 more source