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MetabolomicsGenome-wide mapping of genetic suppression events in Streptococcus pneumoniae
Historically, suppressor analysis has been a powerful tool for uncovering the functions of essential genes. In this study, we report Sup-seq, a transposon-sequencing technique with random DNA barcodes that enables genome-wide detection of genetic suppression. When applied to seven essential genes in...
2026-09-01 | MTBLS15113 | MetaboLights
MetabolomicsGenome-scale study reveals reduced metabolic adaptability in patients with non-alcoholic fatty liver disease
Non-alcoholic fatty liver disease (NAFLD) is a major risk factor leading to chronic liver disease and type 2 diabetes. Here we chart liver metabolic activity and functionality in NAFLD by integrating global transcriptomic data, from human liver biopsies, and metabolic flux data, measured across the ...
2016-12-15 | MTBLS298 | MetaboLights
MetabolomicsMetabolite control of enzyme activity links stress to biosynthetic regulation

Cells must continuously adjust metabolic output to maintain homeostasis under changing environmental conditions, yet the mechanisms that enable rapid and reversible control of pathway activity remain largely unknown. The methylerythritol phosphate (MEP) pathway, of bacterial origin and conserved ...

2026-02-04 | MTBLS12456 | MetaboLights
MetabolomicsMetabolome and comparative genome provide insights into secondary metabolites generation of a rare karst-growing Rhododendron in vitro culture

Rhododendron species have the potential to be rich in secondary metabolites with pharmaceutical or industrial value. However, there is a lack of in comprehensive metabolome studies at the genome level, particularly for unique and rare species like R. bailiense which exclusively grows in karst env...

2025-01-02 | MTBLS11581 | MetaboLights
MetabolomicsMulti-Omics analyses reveal dynamic interactions between DNA methylation and transcriptional regulation during black raspberry ripening
We show developmental-series transcriptome, methylome, and metabolome to reveal extensive epigenetic reprogramming during black raspberry (Rubus occidentalis) fruit ripening. Multi-omics integration reveals coordinated anthocyanin accumulation parallels expression of biosynthetic and regulatory gene...
2026-09-28 | MTBLS15819 | MetaboLights
MetabolomicsDistinct microbes, metabolites, and the host genome define the multi-omics profiles in right-sided and left-sided colon cancer

BACKGROUND: Studies have reported clinical heterogeneity between right-sided colon cancer (RCC) and left-sided colon cancer (LCC). However, none of these studies used multi-omics analysis combining genetic regulation, microbiota and metabolites to explain the site-specific differ...

2024-12-16 | MTBLS10232 | MetaboLights
ProteomicsHuman chromatin platforms for the study of transcription and RNA regulation
Here we describe tools to study the step-wise assembly of protein complexes on chromatin in a highly-controlled manner using reconstituted chromatin platforms and quantitative proteomic profiling. We profile the early steps in transcriptional activation and highlight the potential for understanding...
ORGANISM(S): Saccharomyces Cerevisiae (ncbitaxon:4932) 
2018-05-15 | MSV000082363 | MassIVE
GenomicsGenome-wide analyses of Fusarium fujikuroi reveal complex regulation of secondary metabolism and new metabolites
Fusarium fujikuroi is a biotechnologically important fungus due to its almost unique ability to produce gibberellic acids (GAs), a family of phytohormones. The fungus was described about 100 years ago as the causative agent of Bakanae (M-bM-^@M-^\foolish seedlingM-bM-^@M-^]) disease of rice. Apart f...
ORGANISM(S): Fusarium fujikuroi 
2013-10-16 | E-GEOD-46033 | biostudies-arrayexpress
TranscriptomicsGenome-Wide Promoter Analysis of Epigenetic Regulation by Cocaine
This SuperSeries is composed of the following subset Series: GSE16183: Genome-Wide Promoter Analysis of Epigenetic Regulation by Cocaine (MM5 data) GSE16184: Genome-Wide Promoter Analysis of Epigenetic Regulation by Cocaine (MM8 data) Refer to individual Series
ORGANISM(S): Mus musculus 
2010-05-19 | E-GEOD-15968 | biostudies-arrayexpress
TranscriptomicsIntegrative genome-wide analysis reveals cooperative regulation of alternative splicing by hnRNP proteins
This SuperSeries is composed of the following subset Series: GSE34992: Integrative genome-wide analysis reveals cooperative regulation of alternative splicing by hnRNP proteins (splice array) GSE34993: Integrative genome-wide analysis reveals cooperative regulation of alternative splicing by hnRNP p...
ORGANISM(S): Homo sapiens 
2012-02-20 | E-GEOD-34996 | biostudies-arrayexpress
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