Ontology highlight
ABSTRACT:
PROVIDER: PRJNA553989 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:Anchored Phylogenomics of Cariceae-Dulichieae-Scirpeae (CDS) clade, Cyperoideae, Cyperaceae
| PRJNA376770 | ENA
Project description:Purpose: Study of the role of CHD6 linking nucleosome ejection in castration-resistant prostate cancer(CRPC) Method: The expression of CHD6 or E2F1 was silenced by 2 shRNAs (3 replicates) targeted at CHD6 or E2F1 in C4-2 cells, scramble RNA as control. mRNA profiles and genome-wide chromatin-state maps were generated by deep sequencing. CHD6 and IgG ChIP was conducted in C4-2 cells. MNase before and after CHD6-silenced was conducted in C4-2 cells. Results: E2F1 and E2F1 downstream genes were significantly down regulated by CHD6 knockdown. The binding of CHD6 on chromatin is required for nucleosome eviction in transcriptional activation of oncogenic pathways.
2022-10-18 | GSE214212 | GEO
Project description:To investigate the effect of phosphorylated BRD4 at S24 and S1100 on transcription, we established C4-2 stable expressing BRD4 WT, S24/1100A, S24/1100D cell lines in which endogenous BRD4 has been knocked down by shRNA targeted to 3'-UTR. We then performed a CUT&RUN assay using anti-BRD4 or anti-H3K27Ac antibodies followed with a sequencing of ChIPed DNA from 4 different cells at 18 hour treatment of nocodazole.
2024-06-01 | GSE267369 | GEO
Project description:Bienertia sinuspersici performs C4 photosynthesis without Kranz anatomy through subcellular compartmentalization of carbon fixation within individual cells. In this species, central compartment chloroplasts (C) and peripheral chloroplasts (P) collaborate with cytosolic and mitochondrial components in a NAD-ME type C4 cycle. How the two functionally different chloroplast types can develop within individual cells and the mechanism of import of nuclear encoded, plastid targeted proteins are currently unknown. We used 454 sequencing in combination with large scale label-free proteomics to determine the distribution of photosynthesis-related proteins. Subcellular localization of 169 protein was determined through comparison of protein abundance in four different subcellular fractions. 39 out of the 120 chloroplastic proteins showed differential accumulation between the two chloroplast types. Rubisco, RPP regenerative phase and PSII related proteins accumulated in C chloroplasts whereas C4 related proteins and the NDH complex were more abundant in P chloroplasts. Comparison of transit peptides of differential accumulating proteins indicated no obvious sequence homology or similarities in physico-chemical properties between members of the same group. Protein composition analysis of the central compartment indicated that mitochondria and peroxisomes are the only major components besides chloroplasts in this compartment. The combined information from subcellular and developmental protein profiling was used to generate a first draft of the protein machinery involved in single-cell C4 photosynthesis.
2015-03-17 | PXD001910 | Pride
Project description:Bienertia sinuspersici performs C4 photosynthesis without Kranz anatomy through subcellular compartmentalization of carbon fixation within individual cells. In this species, central compartment chloroplasts (C) and peripheral chloroplasts (P) collaborate with cytosolic and mitochondrial components in a NAD-ME type C4 cycle. How the two functionally different chloroplast types can develop within individual cells and the mechanism of import of nuclear encoded, plastid targeted proteins are currently unknown. We used 454 sequencing in combination with large scale label-free proteomics to determine the distribution of photosynthesis-related proteins. Subcellular localization of 169 protein was determined through comparison of protein abundance in four different subcellular fractions. 39 out of the 120 chloroplastic proteins showed differential accumulation between the two chloroplast types. Rubisco, RPP regenerative phase and PSII related proteins accumulated in C chloroplasts whereas C4 related proteins and the NDH complex were more abundant in P chloroplasts. Comparison of transit peptides of differential accumulating proteins indicated no obvious sequence homology or similarities in physico-chemical properties between members of the same group. Protein composition analysis of the central compartment indicated that mitochondria and peroxisomes are the only major components besides chloroplasts in this compartment. The combined information from subcellular and developmental protein profiling was used to generate a first draft of the protein machinery involved in single-cell C4 photosynthesis.
2019-05-14 | PXD001814 | Pride
Project description:Lipomyces genome scale model based on the Lipomyces starkeyi NRRL-11557 genome.
Published in:
Genome-Scale Model Development and Genomic Sequencing of the Oleaginous Clade Lipomyces
Frontiers in Bioengineering and Biotechnology
Industrial Biotechnology
Volume 12 - 2024 | doi: 10.3389/fbioe.2024.1356551
2024-03-20 | MODEL2403190001 | BioModels
Project description:Candida auris clade III isolate B12039 was spread on YPD plate supplemented with 128 µg/ml fluconazole. Randomly 39 adaptors were chosen for further analysis. We did sequencing of them as as well as the parent.
2021-06-21 | E-MTAB-10560 | biostudies-arrayexpress