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ProteomicsEffect of truncation mutants of the trypanosomatid nuclear lamina protein NUP-1 on the whole cell proteome in T. brucei
The nuclear lamina has multiple functions, including maintaining nuclear structural integrity and differential gene expression. Correct spatial and temporal lamina assembly is essential to meet these and other roles. Recently, it emerged that multiple lamina systems exist that are likely products of...
ORGANISM(S): Trypanosoma brucei brucei TREU927 
2021-06-03 | PXD019978 | Pride
Lamina Trypanosoma Nuclear organisation Molecular assembly Heterochromatin 
MetabolomicsVeterinary trypanocidal benzoxaboroles are peptidase-activated prodrugs (T. congolense assay)

Livestock diseases caused by Trypanosoma congolense, T. vivax and T. brucei, collectively known as nagana, are responsible for billions of dollars in lost food production annually. There is an urgent need for novel therapeutics. Encouragingly, promising antitrypanosomal benzoxaboroles are under v...

2020-10-22 | MTBLS1309 | MetaboLights
TranscriptomicsRNA-seq of Leptospirillum ferriphilum DSM 14647 cells treated with quorum sensing signal compounds
Differential gene expression analysis of Leptospirillum ferriphilum DSM 14647 cells treated with quorum sensing singnal compounds. Briefly, Leptospirillum ferriphilum DSM 14647 cells were grown to early stationary phase in Mackintosh basal salt solution (Mac medium) pH 1.8 (Mackintosh 1978) with 71....
ORGANISM(S): Leptospirillum ferriphilum DSM 14647 
2021-03-01 | E-MTAB-9845 | biostudies-arrayexpress
ProteomicsCharacterisation of cullin E3 ubiquitin ligases in trypanosomes
Trypanosomes have seven cullin paralogs, the majority lineage-specific. Six of those cullins (TbCul-A, TbCul-C, TbCul-D TbCul-E, TbCul-F and TbCul-G) were endogenously 3xHA-epitope tagged at the C-terminus. We used affinity capture/mass spectrometry to determine the composition of these cullin compl...
ORGANISM(S): Trypanosoma brucei 
2024-03-25 | PXD042022 | Pride
Cullin Evolution Affinity isolation Protein turnover Ubiquitin Cryomilling E3 ligase 
ProteomicsThe Mi-2 nucleosome remodeler and the Rpd3 histone deacetylase are involved in piRNA-guided heterochromatin formation
In eukaryotes, trimethylation of lysine 9 on histone H3 (H3K9) is associated with transcriptional silencing of transposable elements (TEs). In drosophila ovaries, this heterochromatic repressive mark is thought to be deposited by SetDB1 on TE genomic loci after the initial recognition of nascent tra...
ORGANISM(S): Drosophila melanogaster (Fruit fly) 
2020-07-21 | PXD018749 | Pride
Mep-1 Rpd3 Mi-2 Gtsf1 
TranscriptomicsCUT&RUN experiment at four time points in HEK293T and hESC cells, assessing the time-resolved response of β-catenin genomic occupancy upon Wnt signaling activation
Wnt/β-catenin signaling is a highly organized biochemical cascade that triggers a gene expression program in the signal-receiving cell. The Wnt/β-catenin-driven transcriptional response is involved in virtually all cellular processes during development, homeostasis, and its deregulation causes human...
ORGANISM(S): Homo sapiens 
2022-09-30 | E-MTAB-12077 | biostudies-arrayexpress
ProteomicsWhole cell proteomics analysis of Trypanosoma brucei 75kDa invariant surface glycoprotein knockout cells
A superfamily of invariant surface glycoproteins (ISGs) populates the African trypanosome surface, one of which, ISG75, is implicated in uptake of the century-old drug suramin. We disrupted the ISG75 gene locus encoding an array of six ISG75 paralogs on chromosome V by CRISPR/Cas9 knockout. Here we ...
ORGANISM(S): Trypanosoma brucei 
2023-03-11 | PXD031887 | Pride
Xenobiotics Drug metabolism Drug accumulation Trypanosome Crispr/cas9 Invariant surface glycoprotein Suramin 
ProteomicsRibo Mega-SEC Provides a Rapid, Efficient and Reproducible Analysis of Mammalian Polysomes and Ribosomal Subunits
We describe Ribo Mega-SEC, a powerful approach for the separation and biochemical analysis of mammalian polysomes and ribosomal subunits using Size Exclusion Chromatography and uHPLC, which was achieved within 15 min from sample injection to fraction collection. Ribo Mega-SEC reproducibly shows tran...
ORGANISM(S): Mus musculus (Mouse) 
2018-08-10 | PXD008913 | Pride
Ribosome 60s 40s Polysome Liver Sec 
TranscriptomicsGeneration of LAMC2-EGFP knock-in human pancreatic cancer cells
Since LAMC2 is a secreted molecule present in the extracellular matrix of the cells, was designed a strategy based on CRISPR/Cas9-mediated homologous recombination to mark LAMC2 cells in human PDACs. A Cas9 single-guide RNAs complementary to sequences overlapping the stop codon of the LAMC2 locus wa...
ORGANISM(S): Homo sapiens 
2022-04-11 | E-MTAB-11597 | biostudies-arrayexpress
ProteomicsGlobal Enrichment of Low-Abundance Peptide Hormones in Plasma for Discovery and Quantitation
We describe a method for global enrichment of active peptide hormones from blood plasma for both new hormone discovery and quantitative analysis. To extend the dynamic range of plasma proteomics, we employed high-resolution size exclusion chromatography to purify the peptide hormones and a powerful ...
ORGANISM(S): Homo sapiens (Human) 
2019-07-16 | PXD011797 | Pride
Human  plasma  intermittent fasting  peptide hormone  insulin  hepcidin  glp-1  igf-1. 
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