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Displaying 20 of 128 results for "NTF4"
  1. Transcriptomic analysis of rapeseed (Brassica napus) flower buds exposure to male gametocide amidosulfuron

    ID: PRJNA286175

    Keywords: Transcriptome or Gene expression

    Access Type: download

    dataset.description: te, (3) carbohydrate, lipid, protein metabolite, (4) cell division, growth and death, (5) stimulus and defense response, (6) chlorophyll and mitochondria, (7) hormone, (8) oxidoreductase, and (9) flavonoid biosynthesis. Expression of most genes in cell division, growth and death category, and flavonoid biosynthesis were down-regulated. Ethylene mediated signaling pathway was up-regulated, while auxin mediated signaling pathway was down-regulated. Stimulus and defense response were induced. Overall design: Two groups of DGE libraries including the amidosulfuron treatment (DAT group) and the control (F group), each in three biological replications, were constructed using total RNA of young floral buds of amidosulfuron-treated cultivar Qinyou3 and the control with Illumina...
  2. Transcriptome analysis of Dunaliella viridis in response to changes in light duration and temperature

    ID: PRJNA175517

    Keywords: Transcriptome or Gene expression

    Access Type: download

    dataset.description: l design: Time course experiment experiment with 5 evenly spaced time points, t1-t5, and two experimental factors: a) light condition (2 levels: continuous light and light/dark cycle) and b) temperature (2 levels: 25 degrees Celsius and 35 degrees Celsius). Cells grown in the light/dark ...
  3. BCL11B AND COMBINATORIAL RESOLUTION OF CELL FATE IN THE T-CELL GENE REGULATORY NETWORK 

    ID: PRJNA361158

    Keywords: Epigenomics

    Access Type: download

    dataset.description: rk (GRN). However, the role of lineage commitment factor Bcl11b has been unclear. We use Self-Organizing Maps (SOM) on 63 RNA-seq datasets from normal and perturbed T-cell development to identify positive and negative regulation targets of Bcl11b during commitment and relate them to other regulomes. Both activation and repression targets can be bound by Bcl11b in vivo, but both depend strongly on developmental context. The newly clarified role of Bcl11b distinguishes discrete components of commitment, resolving how innate lymphoid cell, myeloid and dendritic, and B cell fate alternatives are excluded by different mechanisms. Overall design: Ten million of BM-derived DN3 cel...
  4. AGO6 functions in RNA-mediated transcriptional gene silencing in shoot and root meristems in Arabidopsis thaliana

    ID: PRJNA139045

    Keywords: Transcriptome or Gene expression

    Access Type: download

    dataset.description: nvolved, respectively, in generating and using 24-nt siRNAs that trigger methylation and transcriptional gene silencing (TGS) of homologous promoter sequences. AGO proteins act in silencing effector complexes by anchoring the 3' and 5' ends of the guide siRNAs at their N-terminal PAZ domain and MID domain, respectively. In addition, many AGO proteins cleave complementary target RNAs through an endonuclease (slicer) activity in their C-terminal PIWI domain. AGO4 is the main AGO protein implicated in the RdDM pathway. Here we report the identification of the related AGO6 in a forward genetic screen for mutants defective in RdDM and TGS in shoot and root apical meristems in Arabidopsis thaliana. T...
  5. Differential miRNA expression in gingival epithelial cells infected with Porphyromonas gingivalis

    ID: PRJNA138887

    Keywords: Transcriptome or Gene expression

    Access Type: download

    dataset.description: P. gingivalis was miR-203, which was upregulated 4-fold compared with uninfected controls. Differential regulation of miR-203 was confirmed by qRT-PCR. Putative targets of miR-203, suppressors of cytokine signaling (SOCS) 3 and 6, were evaluated by qRT-PCR. SOCS3 and SOCS6 mRNA levels were reduced >5-fold and >2-fold, respectively, in P. gingivalis-infected GECs compared with controls. Silencing miR-203 using a si-RNA construct reversed the inhibition of SOCS3 expression. A dual luciferase assay confirmed binding of miR-203 to the putative target binding site of SOCS3 3’ UTR. Western blot analysis demonstrated that activation of Stat3, a downstream target of SOCS, was diminished following miR-203 silencing. This study shows th...
  6. Translational control of cell viability downstreams of eIF4E, using polyribosome RNA

    ID: PRJNA91785

    Keywords: Transcriptome or Gene expression

    Access Type: download

    dataset.description: rom apoptosis; (ii) there is a novel prototype 55 nt RNA consensus hairpin structure that is overrepresented in the 5'-untranslated region of translationally activated transcripts; (iii) the identified consensus hairpin structure is sufficient to target a reporter mRNA for translational activation under pro-apoptotic stress, but only when eIF4E is deregulated; and (iv) that osteopontin, one of the translationally activated transcripts harboring the identified consensus hairpin structure functions as one mediator of the apoptosis resistance seen in our model. Our findings offer genome-wide insights into the mechanism of eIF4E-mediated apoptosis resistance and provide a paradigm for the systematic study of posttranscriptional control in normal biology and disease. Keywords: co...
  7. Pathways leading to phosphorylation of p450c17 and to the post-translational regulation of androgen biosynthesis

    ID: PRJNA189440

    Keywords: Transcriptome or Gene expression

    Access Type: download

    dataset.description: using RNeasy columns (QIAGEN, Valencia, CA), and 4 μg RNA was used to synthesize double-stranded cDNA using the MessageAmp II-Biotin Enhanced Kit (Ambion, Austin, TX) with oligo-dT primer [5′-GGCCAGTGAATTGTAATACGACTCACTATAGGGAGGCGG-(dT)24] to incorporate a T7 RNA polymerase promoter. Antisense cRNA was labeled with biotin-UTP using T7 RNA polymerase (Ambion), and the cRNA was fragmented to 35–200 nucleotides (nt) at 94 C for 35 min in 40 μl 40 mm Tris-acetate (pH 8.1), 100 mm KOAc, 30 mm MgOAc. The integrities of total RNAs, cRNAs, and fragmented cRNAs were assessed on a Bio-Rad (Hercules, CA) Experion BioAnalyzer. Each sample of fragmented cRNA was initially hybridized with Affymetrix (Santa Clara, CA) Test3 arrays to determine the quality of the labeled probe before hybridization to Affymetrix U133A plus 2.0 arrays. The chips were stained and washed using an Affymetrix GeneChip Fluidics Station 450, and the arrays were scanned using a GCS 3000 scanner with auto-loader in the Genomics Core laboratory. Hybridization intensity signals from the scanned images were analyzed using Affymetrix GeneChip Operating Software (GCOS, version 1.3) to provide qualitative detection calls and quantitative estimates of gene expression levels (signal values). Raw data were exported to Microsoft Excel for analysis. Transcripts displaying a cAMP-induced increased or decreased signal were selected for further analysis only if they had a mean ± 2.0-fold change and were statistically significant (P < 0.05) in three separate experiments; transcripts displaying no signal change relative to controls in at least three experiments were excluded from further analysis....
  8. Cocaine-induced changes in the gene expression

    ID: PRJNA98855

    Keywords: Transcriptome or Gene expression

    Access Type: download

    dataset.description: ved in 35 proapoptotic and 8 antiapoptotic genes; 4 proapoptotic and 6 antiapoptotic genes were down-regulated. The affected genes encode a wide range of apoptosis-related proteins, including death receptors (NTF-R1, NTF-R2, DR3, DR5, LTbeta-R, GITR, P57 TR-1) and their adaptor and regulatory proteins (MASGE-D1, TRAF-2, SIVA, MET, FLIP, FAIM, IAP1, ATFA), members of transcription regulatory pathways (JNK, NF-kappaB, P53), members of BCL-2 family of proteins (BID, BAD, BAX, BIK, NIP21, NIP3, NIX, BCL-2), DNA damage sensor (PARP-1), caspases and their substrates and regulatory proteins (caspases 8, 4, 9, and 3, ACINUS, CIDE-A, CIDE-B, GAS2), mitochondrially released factors (cytochrome c, AIF, PRG3), specific endoplasmic reticulum- and oxidative stress-associated factors (BACH2, ABL1, ALG2, CHOP), members of cell survival AKT and HSP70 pathways (PIK3GA, PTEN, HSP70, BAG1, BAG2), and others. This suggests that cocaine affects survival of developing cerebral cells via multiple apoptosis-regulating mechanisms. Keywords: Whole genome oligo microarray, Real time RT-PCR, gene expression analysis Overall design: Animals Timed pregnant Swiss Webster (CFW; Charles River Lab. Wilmington, MA) dams were maintained in individual cages in a climate-controlled room on a 12/12-h light/ dark cycle. They were divided into two groups. The first (experimental) group received subcutaneous (at the dorsum of the neck) injections of 20 mg/kg cocaine hydrochloride (Research Technology Branch, National Institute of Drug Abuse, Rockville, MD) dissolved in 200 mkl of 0.9% saline, twice a day (at 8:00 AM and 8:00 PM) from 8th through 18th day of pregnancy (E8–E18). The second (control) group was subjected to the same schedule of 0.9% saline only injections. The cocaine treatment was designed to replicate the one capable of reducing cerebral cortical mass in mouse offspring. Also, the relatively protracted period the chronic treatment was chosen to maximize the changes in the tissue expression of cocaine-regulated genes of interest. Throughout the treatment, all mice were weighed daily, and, from E8, the control and experimental animals were pair-fed, with the daily amount of food (Mouse Chow; Ralston Purina Saint Louis, MO) provided to each control dam being matched to that consumed by the paired experimental dam. Water was available ad libitum. We found that this feeding regiment resulted in similar weight gains from E8 to E18 in both experimental and control animal groups (4...

Displaying 20 of 128 results for "NTF4"