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MetabolomicsDivergent metabolism between Trypanosoma congolense and Trypanosoma brucei results in differential sensitivity to metabolic inhibition
Animal African Trypanosomiasis (AAT) is a debilitating livestock disease prevalent across sub-Saharan Africa, a main cause of which is the protozoan parasite Trypanosoma congolense. In comparison to the well-studied T. brucei, there is a major paucity of knowledge regarding the biology of T. congole...
2021-07-20 | MTBLS2372 | MetaboLights
GenomicsNational Cancer Institute Genome-Wide Association Study of Renal Cell Carcinoma

The National Cancer Institute (NCI) genome-wide association study (GWAS) of renal cell carcinoma (RCC) was conducted to investigate common genetic variants associated with RCC risk. The GWAS includes 1,453 RCC cases and 3,531 controls of European background from 4 studies (3 cohort, 1 case-con...

phs000351.v1.p1 | EGA
MetabolomicsAmphotericin B resistance in Leishmania mexicana: Alterations to sterol metabolism, lipid transport and oxidative stress response

Amphotericin B is increasingly used in treatment of leishmaniasis. Here, fourteen independent lines of Leishmania mexicana and one L. infantum line were selected for resistance to either amphotericin B or the related polyene antimicrobial, nystatin. Sterol profiling revealed tha...

2022-09-22 | MTBLS2744 | MetaboLights
GenomicsGenome wide association study for Bladder Cancer Risk

This study funded by the National Cancer Institute (NCI) involves conducting a genome-wide association study of common genetic variants to identify markers of susceptibility to bladder cancer.

This bladder GWAS has led to the discovery of three novel regions in the genome associated with...

phs000346.v1.p1 | EGA
TranscriptomicsReplication initiation sites in cancer cells
Reads from massively parallel sequencing of RNA primed, short nascent strands from asynchronously growing cancer cells (K562, MCF7). Newly replicated DNA was isolated based on size (400-800 bp) and the presence of a short RNA stretch at the 5' end using lambda exonuclease. Purified nascent strands w...
ORGANISM(S): Homo sapiens 
2011-08-02 | E-GEOD-28911 | biostudies-arrayexpress
ProteomicsAlzheimer's Disease Isomerization
Amino acid isomerization is a spontaneous chemical modification potentially related to the underlying causes of Alzheimer’s disease (AD). We demonstrate that data-independent acquisition mass spectrometry can be used to characterize isomerization in complex protein mixtures. Examination of a large c...
ORGANISM(S): Homo Sapiens 
2022-03-16 | PXD025668 | panorama
ProteomicsTandem affinity purification and Multidimensional Protein Identification Technology to identify USP44 interacting proteins
Nuclear extracts were isolated from 293T cells that stably express USP44 fused with N-terminal FLAG and HA affinity tags (FH-USP44), and then analyzed by tandem affinity purification (TAP) followed by Multidimensional Protein Identification Technology (MudPIT) to uncover USP44 associated proteins. T...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
MSV000080144 | MassIVE
TranscriptomicsMicroarray expression data from human renal mesangial cells (HMC) treated with a Cyclosporine A (CsA) time course.
HMCs were treated with CsA (4.2 M-BM-5M) for 0 12 and 48 hours. To exmaine global gene changes in the renal mesangium following CsA treatment in order to identify novel contributors to CsA-induced renal dysfunction Microarray analysis was used to identify novel mechanisms of CsA nephrotoxicity in th...
ORGANISM(S): Homo sapiens 
2012-04-03 | E-GEOD-30952 | biostudies-arrayexpress
TranscriptomicsThe Akt-SRPK-SR axis constitutes a major pathway in transducing EGF signaling to regulate alternative splicing in the nucleus
Pre-mRNA splicing is regulated by developmental and environmental cues, but little is known about how specific signals are transduced in mammalian cells to regulate this critical gene expression step. Here, we report massive reprogramming of alternative splicing in response to EGF signaling. By blo...
ORGANISM(S): Homo sapiens 
2012-08-17 | E-GEOD-37731 | biostudies-arrayexpress
ProteomicsMudPIT analyses of proteins associated with Piccolo and Bassoon in the presynaptic active zone
We used a 3-step protocol that separates lipid-associated proteins based on their buoyant density, size and charge. All steps were conducted either on ice or at 4C. Step 1 involved a sucrose density gradient centrifugation in which ca. 100 postnatal day 4 rat brains were homogenized in buffer A (5...
ORGANISM(S): Rattus Norvegicus (ncbitaxon:10116) 
2016-07-11 | MSV000079897 | MassIVE
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