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ProteomicsNitrite toxicity drives nitrous oxide accumulation in a cooperative denitrifying synthetic community
Anthropogenic perturbations to the nitrogen cycle, primarily through use of synthetic fertilizers, have caused unprecedented increases in the emission of nitrous oxide (N2O) in recent decades. As a potent greenhouse gas, and an ozone depleting substance, understanding the sources and sinks of N2O is...
ORGANISM(S): Acidovorax sp. Rhodanobacter sp. 
2025-06-24 | PXD051979 | Pride
Nitrogen cycle Syncom Denitrification Microbial community 
MetabolomicsUltra-High Mass Resolving Power, Mass Accuracy, and Dynamic Range MALDI Mass Spectrometry Imaging by 21-T FT-ICR MS

Detailed characterization of complex biological surfaces by matrix-assisted laser desorption/ionization (MALDI) mass spectrometry imaging (MSI) requires instrumentation that is capable of high mass resolving power, mass accuracy and dynamic range. Fourier transform ion cyclotron resonance mass sp...

2022-01-28 | MTBLS3154 | MetaboLights
TranscriptomicsExpression data from serum-stimulated NIH 3T3 cells stably expressing control (pLKO.1) vector or shRNAs targeting Net or Sap-1
Although much is known about focal adhesion signaling induced by cell adhesion, how adhesion directs changes in transcription to control cell behavior is far less understood. Here we describe a novel mechanism by which changes in adhesion switch the activities of the mitogen-activated protein kinas...
ORGANISM(S): Mus musculus 
2013-01-01 | E-GEOD-26640 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of mouse 3T3-L1 adipocyte tissue culture treated with tunicamycin
Tunycamcin induces UPR/ISR and Inflammation in mouse 3T3-L1 adipocyte tissue culture. The early transcriptome changes were analyzed using high-density microarrays to better characterize the signaling pathways responding to tunicamycin, to be compared with similar experiments with CLA as the treatmen...
ORGANISM(S): Mus musculus 
2008-06-16 | E-GEOD-8682 | biostudies-arrayexpress
ProteomicsEfficient Parsing and Quantification of Native Mass Spectrometer Files with RawQuant
Effective analysis of protein samples by mass spectrometry (MS) instrumentation requires careful selection and optimization of a range experimental parameters. As the output from the primary detection device, the ‘raw’ MS data file can be used to gauge the success of a given sample analysis. However...
ORGANISM(S): Homo sapiens (Human) Escherichia coli 
2018-05-07 | PXD008787 | Pride
Isobaric labeling Sps-ms3 Tmt Quantitative proteomics Orbitrap Itraq 
TranscriptomicsExpression analysis of superior cervical ganglion from backcrossed TH-MYCN transgenic mice
Neuroblastoma susceptibility in TH-MYN mice is heavily influence by mouse strain background. We have combined linkage analysis of tumor susceptibility with expression QTL analysis of superior cervical ganglia (pure peripheral symptathetic nervous tissue) to identify genes underlying tumor formation...
ORGANISM(S): Mus musculus 
2015-01-30 | E-GEOD-59675 | biostudies-arrayexpress
TranscriptomicsBleomycin induces molecular changes directly relevant to idiopathic pulmonary fibrosis: A model for “active” disease.
Genomic profiling of bleomycin- and saline-treated mice across 7 timepoints (1, 2, 7, 14, 21, 28, 35 days post treatment) was carried out in C57BL6/J mice to determine the phases of response to bleomycin treatment which correspond to onset of active pulmonary fibrosis. Temporal genomic characterizat...
ORGANISM(S): Mus musculus 
2013-04-10 | E-GEOD-40151 | biostudies-arrayexpress
TranscriptomicsBleomycin induces molecular changes directly relevant to idiopathic pulmonary fibrosis: A model for “active” disease
Genomic profiling of RNA from cultured human fibroblasts of donor samples in the 10-14th passage was carried out to determine expression changes in the fibroblasts of individual with different degrees of pulmonary fibrosis. Donors consisted of individuals with rapid progressing pulmonary fibrosis, s...
ORGANISM(S): Homo sapiens 
2013-04-10 | E-GEOD-44723 | biostudies-arrayexpress
TranscriptomicsThe genetics of splicing in neuroblastoma
Regulation of mRNA splicing is a critical and tightly regulated cellular function, underlying the majority of proteomic diversity in our genomes. While disruption of this process is common in disease, the basic genetic complexity of alternative splicing in vivo remains poorly understood. To delinea...
ORGANISM(S): Mus musculus 
2015-04-03 | E-GEOD-55248 | biostudies-arrayexpress
TranscriptomicsTrans. Profiling of Immortalized Melanocyte Cell Lines Identifies GPNMB as a Melanoblast-Expressed, MITF-Dependent Gene
Gene expression profiling of tissues derived from different genetic backgrounds can provide insight to potential phenotype-related changes in gene expression. We have compared wildtype C57BL/6 (melan-Ink4a) melanocyte cell gene expression to that of, “brown“ Tyrp1b/ b (melan-Ink4a-b) and “cho...
ORGANISM(S): Mus musculus 
2010-05-19 | E-GEOD-10163 | biostudies-arrayexpress
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