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ProteomicsDistinct Extracellular Matrix Protein Signatures of Cortical and Cancellous Bone Allografts Following Processing for Clinical Use
Demineralized bone matrices (DBMs) are widely used in bone replacement therapy. Bone tissue of either cancellous or cortical origin is decellularized, demineralized, and sterilized during processing, while retaining portions of native organic extracellular matrix (ECM) proteins that regulate cell-ma...
ORGANISM(S): Homo sapiens (Human) 
2026-06-03 | PXD075611 | Pride
ProteomicsExtracellular matrix proteome remodeling with substrate stiffness
Extracellular matrix proteomic profiling Mass spectrometry characterization illustrated a reprogrammed proteome in response to matrix stiffness, including a core subset of 84 ECM-specific proteins, including various ECM regulators and tissue-associated ECM-related proteins. Further, we observe remod...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
MSV000092971 | MassIVE
TranscriptomicsExtracellular Matrix Formation Enhances the Ability of Streptococcus pneumoniae to Cause Invasive Disease
Background. During infection, pneumococci exist mainly in sessile biofilms rather than in planktonic form, except during sepsis. However, relatively little is known about how biofilms contribute to pneumococcal pathogenesis. Methods. We performed a biofilm assay and mouse infection experiments on op...
ORGANISM(S): Streptococcus pneumoniae 
2011-04-20 | E-BUGS-117 | biostudies-arrayexpress
MetabolomicsmiR-9394b from Lactobacillus paracasei extracellular vesicles targets iNOS to reprogram host NO-ornithine metabolism and ameliorate ulcerative colitis

Background Probiotics have attracted considerable interest for ulcerative colitis (UC); however, their efficacy is highly strain-specific and the underlying molecular mechanisms remain incompletely understood.

Results Accumulating evidence indicates that bacterial extracellular vesicles (BE...

2026-01-23 | MTBLS13753 | MetaboLights
TranscriptomicsNovel Regulators of Fgf23 Expression and Mineralization in Hyp Bone
We used gene array analysis of cortical bone to identify Phex-dependent gene transcripts regulating Fgf23 production and mineralization in Hyp mice. We discovered that activation of Fgf receptor- and Wnt-pathways contribute to increased Ffg23 gene transcription in Hyp bone. We found evidence in Hyp ...
ORGANISM(S): Mus musculus 
2009-12-21 | E-GEOD-14242 | biostudies-arrayexpress
TranscriptomicsNon-Replicating Mycobacterium tuberculosis Elicits a Reduced Infectivity Profile with Corresponding Modifications to the Cell Wall and Extracellular Matrix
A key feature of Mycobacterium tuberculosis is its ability to become dormant in the host. Little is known of the mechanisms by which these bacilli are able to persist in this state. Therefore, the focus of this study was to emulate environmental conditions encountered by M. tuberculosis in the granu...
ORGANISM(S): Mycobacterium tuberculosis 
2016-11-14 | E-BUGS-142 | biostudies-arrayexpress
MetabolomicsComparative non-targeted LC-MS metabolomic profiling of murine bone marrow-derived macrophages cultured in 2D versus 3D

Macrophages are key drivers of inflammatory and fibrotic diseases and their activation is shaped by interactions in their tissue microenvironment. However, dissecting the processes that drive immunopathology has proved challenging as traditional 2D culture methods fail to capture the complex mole...

2026-06-08 | MTBLS12917 | MetaboLights
ProteomicsA Novel Method for Isolating Whole Protein from Human Cranial Bone
The presence of the extracellular matrix within human bone limits the applicability of conventional protocols for protein extraction. As a result, complete and accurate characterization of human bone proteome is yet to be performed, and as a result, several bone-related diseases such as craniosynost...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2017-03-28 | MSV000080697 | MassIVE
TranscriptomicsThe transcriptional signature of human ovarian carcinoma macrophages is associated with extracellular matrix reorganization
RNAseq of peritoneal macrophages from patients with non-malignent peritoneal afflictions.
ORGANISM(S): Homo sapiens 
2016-09-27 | E-MTAB-4764 | biostudies-arrayexpress
TranscriptomicsGenome-wide gene expression profiling analysis of bone metastases of human non-small cell lung cancer (NSCLC) in mice
Using a multiorgan metastasis model of human NSCLC cells (ACC-LC319/bone2) in NK cell-depleted SCID mice, we attempted to identify genes involved in the organ-selective nature of lung cancer-metastasis process, especially bone metastasis. Genome-wide gene expression profile of 15 metastatic lesions ...
ORGANISM(S): Homo sapiens 
2012-02-21 | E-GEOD-29391 | biostudies-arrayexpress
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