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Rapid Acceleration of Diagnostics - Underserved Populations (RADx-UP): Support fir Safe Return to In-Person School: COVID-19 Testing, Learning, and Consultation

ABSTRACT: Rapid Acceleration of Diagnostics - Underserved Populations (RADx-UP): Support fir Safe Return to In-Person School: COVID-19 Testing, Learning, and Consultation

PROVIDER: PRJNA789643 | ENA |

REPOSITORIES: ENA

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Rapid Acceleration of Diagnostics - Underserved Populations (RADx-UP): Support fir Safe Return to In-Person School: COVID-19 Testing, Learning, and Consultation

Project description:Rapid Acceleration of Diagnostics - Underserved Populations (RADx-UP): Support fir Safe Return to In-Person School: COVID-19 Testing, Learning, and Consultation

| PRJNA789642 | ENA

FIR inhibition in HCC cells (Hep3B)

Project description:siRNA-mediated inhibition compared to untreated cells and cells transfected with nonsense siRNA Together with far upstream element binding protein (FBP), the FBP-interacting repressor (FIR) represents a molecular tool for the transcriptional fine tune regulation of target genes. Previous evidence indicates that strong overexpression of FBP in human hepatocellular carcinoma (HCC) supports tumor growth and correlates with poor patient prognosis. However, the role of the transcriptional repressor FIR in hepatocarcinogenesis remains poorly delineated. We show that overexpression of FIR correlates with tumor dedifferentiation and tumor cell proliferation in about 60% of primary HCCs. Elevated FIR levels are associated with genomic gains of the fir gene locus at chromosome 8q24.3 in human HCC specimens. In vitro, nuclear enrichment of FIR supports HCC cell proliferation and migration. Expression profiling of HCC cells after siRNA-mediated silencing of FIR identified the transcription factor DP-1 (TFDP1) as a transcriptional target of FIR. Surprisingly, FIR stimulates the expression of FBP in a TFDP1/E2F-dependent manner. FIR splice variants lacking or containing exon 2 and/or exon 5 are expressed in the majority of HCCs. Specific inhibition of FIR isoforms with and without exon 2 revealed that all FIR splice variants facilitate tumor-supporting effects. This finding was confirmed in xenograft transplantation experiments with lentiviral-infected shRNA targeting all FIR variants as well as FIR with and without exon 2. In summary, high-level nuclear FIR does not facilitate repressor properties but supports tumor growth in HCC cells. Thus, the pharmacological inhibition of FIR might represent a promising therapeutic strategy for HCC patients.

2014-09-03 | GSE55692 | GEO

FIR inhibition in HCC cells (Hep3B)

2014-09-03 | E-GEOD-55692 | biostudies-arrayexpress

FIR targets the genes in HeLa cell.

Project description:To identify the FIR target genes in HeLa cell line, this cell line was subjected to RNA-seq analysis.

2026-06-08 | GSE206465 | GEO

Rapid Acceleration of Diagnostics - Underserved Populations (RADx-UP): Impact of COVID-19 Testing and Mitigation on Equitable Return-to-School in the Second Largest U.S. School District

Project description:Rapid Acceleration of Diagnostics - Underserved Populations (RADx-UP): Impact of COVID-19 Testing and Mitigation on Equitable Return-to-School in the Second Largest U.S. School District

| PRJNA1060415 | ENA

Rapid Acceleration of Diagnostics - Underserved Populations (RADx-UP): Impact of COVID-19 Testing and Mitigation on Equitable Return-to-School in the Second Largest U.S. School District

| PRJNA1060416 | ENA

Identification and characterization of small non-coding RNAs from Chinese fir by high throughput sequencing

Project description:Small non-coding RNAs (sRNAs) play key roles in plant development, growth and responses to biotic and abiotic stresses. At least four classes of sRNAs have been well characterized in plants, including repeat-associated siRNAs (rasiRNAs), microRNAs (miRNAs), trans-acting siRNAs (tasiRNAs) and natural antisense transcript-derived siRNAs. Chinese fir (Cunninghamia lanceolata) is one of the most important coniferous evergreen tree species in China. No sRNA from Chinese fir has been described to date. To obtain sRNAs in Chinese fir, we sequenced a sRNA library generated from seeds, seedlings, leaves, stems and calli, using Illumina high throughput sequencing technology. A comprehensive set of sRNAs were acquired, including conserved and novel miRNAs, rasiRNAs and tasiRNAs. With BLASTN and MIREAP we identified a total of 115 conserved miRNAs comprising 40 miRNA families and one novel miRNA with precursor sequence. The expressions of 16 conserved and one novel miRNAs and one tasiRNA were detected by RT-PCR. Utilizing real time RT-PCR, we revealed that four conserved and one novel miRNAs displayed developmental stage-specific expression patterns in Chinese fir. In addition, 209 unigenes were predicted to be targets of 30 Chinese fir miRNA families, of which five target genes were experimentally verified by 5' RACE, including a squamosa promoter-binding protein gene, a pentatricopeptide (PPR) repeat-containing protein gene, a BolA-like family protein gene, AGO1 and a gene of unknown function. We also demonstrated that the DCL3-dependent rasiRNA biogenesis pathway, which had been considered absent in conifers, existed in Chinese fir. Furthermore, the miR390-TAS3-ARF regulatory pathway was elucidated. We unveiled a complex population of sRNAs in Chinese fir through high throughput sequencing. This provides an insight into the composition and function of sRNAs in Chinese fir and sheds new light on land plant sRNA evolution.

2012-06-28 | GSE24226 | GEO

Transcriptome dynamics of the dormancy - growth transition in Douglas-fir needles

Project description:We report sequencing the transcriptome of Douglas-fir (Pseudotsuga menziesii (Mirb.) Franco) during spring bud burst.

2013-06-05 | GSE44058 | GEO

[E-MTAB-197] CEU_RNASEQ60, Transcription profiling by high throughput sequencing of 60 HapMap CEU population individuals

Project description:RNA-sequencing of 60 HapMap CEU individuals ArrayExpress Release Date: 2010-03-04 Publication Title: Transcriptome genetics using second generation sequencing in a Caucasian population Publication Author List: Stephen B. Montgomery, Micha Sammeth, Maria Gutierrez-Arcelus, Radoslaw P. Lach, Catherine Ingle, James Nisbett, Roderic Guigo, Emmanouil T. Dermitzakis Person Roles: submitter Person Last Name: Montgomery Person First Name: Stephen Person Mid Initials: B Person Email: stephen.montgomery@unige.ch Person Phone: +41 (0) 22 379 5483 Person Address: 1 Rue Michel Servet, Geneva, Switzerland, 1211 Person Affiliation: University of Geneva Medical School

2010-12-04 | GSE25030 | GEO

Abies (Fir)

Project description:Comparative transcriptomics across fir species (Christmas trees)

| PRJNA357112 | ENA