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TranscriptomicsHC-Pro silencing suppressor significantly alters the gene expression profile in tobacco leaves and flowers
Agilent 4x44k tobacco micro array of wild type tobacco, empty vector control, and HC-Pro transgenic tobacco plants. Both 1-month old leaves and flowers were analyzed. Three biological replicates were performed of each sample.
ORGANISM(S): Nicotiana tabacum 
2011-08-10 | E-MEXP-3105 | biostudies-arrayexpress
ProteomicsBiochemical and structural characterization of PPEP-3 from Geobacillus thermodenitrificans
The members of the group of Pro-Pro endopeptidases (PPEPs) are secreted bacterial endoproteases that display a unique preference for hydrolyzing their substrates between two proline residues. The active site cleft of PPEPs accommodates the six substrate residues P3 to P3’, and the interactions betwe...
ORGANISM(S): Geobacillus thermodenitrificans 
2025-11-11 | PXD061585 | Pride
Geobacillus thermodenitrificans Macromolecular x-ray crystallography Zinc metallopeptidase Mass spectrometry Substrate specificity Pro-pro endopeptidase-3 
TranscriptomicsPBECs stimulated with pro-inflammatory cytokines and P. aeruginosa
Comparison of libraries derived from primary human bronchial epithelial cells which are [i] unstimulated, [ii] stimulated with the pro-inflammatory cytokines IL1beta and TNFalpha and [iii] stimulated with heat-inactivated Pseudomonas aeruginosa (strain PAO1). Keywords: other
ORGANISM(S): Homo sapiens 
2005-02-02 | E-GEOD-2056 | biostudies-arrayexpress
UnknownStructural analyses and substrate profiling of PPEP-3 provide new insights into the molecular basis of Pro-Pro endopeptidase specificity.
Not available
S-EPMC12828418 | biostudies-literature
ProteomicsPBRM1-deficient PBAF complexes target de novo genomic loci to activate pro-survival genes in clear cell renal cell carcinoma (PBRM1 dataset)
PBRM1 is lost in 40% of clear cell renal cell carcinomas (ccRCC) and the combined loss of VHL and PBRM1 drives ccRCC tumorigenesis. PBRM1 is an accessory subunit of the PBAF subclass of the SWI/SNF chromatin remodeler and despite its well-established role as a tumor suppressor, we have limited under...
ORGANISM(S): Homo Sapiens (human) 
2021-07-24 | PXD020554 | JPOST Repository
ProteomicsPBRM1-deficient PBAF complexes target de novo genomic loci to activate pro-survival genes in clear cell renal cell carcinoma (BRG1 dataset)
PBRM1 is lost in 40% of clear cell renal cell carcinomas (ccRCC) and the combined loss of VHL and PBRM1 drives ccRCC tumorigenesis. PBRM1 is an accessory subunit of the PBAF subclass of the SWI/SNF chromatin remodeler and despite its well-established role as a tumor suppressor, we have limited under...
ORGANISM(S): Homo Sapiens (human) 
2021-07-24 | PXD020553 | JPOST Repository
GenomicsGenome-wide maps of chromatin state in HSC, Pro B and mature B cells
We have used a genome-wide ChIP-sequencing approach to define and investigate the dynamics of the cis-regulatory landscape in three developmental stages of the murine hematopoietic system. To this end, we have compared the profiles of H3K4me3, H3K4me1, H3K27ac, H3K27me3 and H3K9me2 in HSCs, committe...
ORGANISM(S): Mus musculus 
2015-10-19 | E-GEOD-60005 | biostudies-arrayexpress
TranscriptomicsFever-range temperature alters continual efferocytosis mediated by mouse pro-inflammatory macrophages
Fever, a cardinal sign of inflammation, has been shown to modulate macrophage functions. Here, we wonder whether fever affects macrophage efferocytosis. This process is critical for the resolution of inflammation and the return to homeostasis with the reprogramming of macrophages toward a pro-resolv...
ORGANISM(S): Mus musculus 
2025-12-19 | E-MTAB-14408 | biostudies-arrayexpress
TranscriptomicsChromosomal translocations are guided by the spatial organization of the genome
The extent to which the three-dimensional organization of the genome contributes to chromosomal translocations is an important question in cancer genomics. We now have generated a high-resolution Hi-C spatial organization map of the G1-arrested mouse pro-B cell genome and mapped translocations from...
ORGANISM(S): Mus musculus 
2012-02-16 | E-GEOD-35519 | biostudies-arrayexpress
TranscriptomicsEBV BART MicroRNAs Target Multiple Pro-apoptotic Cellular Genes to Promote Epithelial Cell Survival
Here, we report a systematic effort to identify pro-apoptotic mRNA targets for the EBV miR-BART miRNAs. We demonstrate that at least five of the 22 miR-BART pre-miRNAs have anti-apoptotic activity and we identify seven pro-apoptotic cellular mRNA targets, six of them novel, that contribute significa...
ORGANISM(S): Homo sapiens 
2015-06-16 | E-GEOD-67990 | biostudies-arrayexpress
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