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TranscriptomicsRegulation of male germ cell cycle arrest and differentiation by DND1 is modulated by genetic background
Transcriptional profiling of E14.5 XY germ cells (marked with Oct4-EGFP transgene) from two strain backgrounds (C57BL/6J and 129S1/SvImJ) that differ in their susceptibility to testicular teratomas. Two condition experiment. For each sample, Oct4-EGFP+ germ cells from all XY embyos within a litter w...
ORGANISM(S): Mus musculus 
2010-12-22 | E-GEOD-24340 | biostudies-arrayexpress
Proteomics,MultiomicsDefining the effects of genetic variation on a proteome-wide scale
Genetic variation governs protein expression through both transcriptional and post-transcriptional processes. To investigate this relationship, we combined a multiplexed, mass spectrometry-based method for protein quantification with an emerging mouse model harboring extensive genetic variation fro...
ORGANISM(S): Mus Musculus (ncbitaxon:10090) 
2017-11-08 | MSV000081696 | MassIVE
TranscriptomicsRNA-seq alignment to individualized genomes
The source of most errors in RNA sequencing (RNA-seq) read alignment is in the repetitive structure of the genome and not with the alignment algorithm. Genetic variation away from the reference sequence exacerbates this problem causing reads to be assigned to the wrong location. We developed a metho...
ORGANISM(S): Mus musculus 
2014-06-10 | E-GEOD-45684 | biostudies-arrayexpress
ProteomicsMulti-omics analysis identifies drivers of protein phosphorylation
Phosphorylation of proteins is a key step in the regulation of many cellular processes including activation of enzymes and signaling cascades. Phosphorylated peptides (phosphopeptides) can be detected and quantified by mass spectrometry. The abundance of a phosphopeptide is determined by both the ab...
ORGANISM(S): Mus musculus (Mouse) 
2023-02-02 | PXD032843 | Pride
Genetic mapping Tmt Collaborative cross Phosphorylation Phqtl 
ProteomicsDefining the effects of genetic variation on a proteome-wide scale
Genetic variation governs protein expression through both transcriptional and post-transcriptional processes. To investigate this relationship, we combined a multiplexed, mass spectrometry-based method for protein quantification with an emerging mouse model harboring extensive genetic variation fro...
ORGANISM(S): Mus musculus (Mouse) 
2016-06-15 | PXD002801 | Pride
Tmt Proteomics Quantitative Quantitative trait loci 
ProteomicsGenome-wide transcript and protein analysis reveals distinct features of aging in the mouse heart
Understanding the molecular mechanisms underlying age-related changes in the heart is challenging due to the contributions from numerous genetic and environmental factors. Genetically diverse outbred mice provide a model to study the genetic regulation of aging processes in healthy tissues from indi...
ORGANISM(S): Mus musculus (Mouse) 
2021-12-23 | PXD023724 | Pride
Heart Qtl Proteomics Ageing 
ProteomicsGenetic dissection of the pluripotent proteome through multi-omics data integration
Genetic background is a major driver of the phenotypic variability observed across pluripotent stem cells (PSCs), and studies addressing it have relied on transcript abundance as the primary molecular readout of cell state. However, little is known about how proteins, the functional units in the cel...
ORGANISM(S): Mus musculus (Mouse) 
2023-05-10 | PXD033001 | Pride
Diversity outbred mice Chromatin accessibility Multi-omics factor analysis Eqtl Transcriptomics Embryonic stem cells Ground state metastability Proteomics Pqtl Pluripotency 
ProteomicsUsing CC strains to dissect the genetic regulation of the proteome
Proteins perform a wide range of biological functions and are often exhibit to multi-factorial regulatory patterns. To better understand the roles of genetics and sex in protein regulation, we quantitatively analyze and compare the liver proteomes from related genetically diverse mouse populations, ...
ORGANISM(S): Mus musculus (Mouse) 
2021-07-29 | PXD018886 | Pride
Collaborative cross Tmt Quantitative trait loci 
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