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GenomicsGenomewide occupancy of the synovial sarcoma-associated SYT-SSX2 oncoprotein in C2C12 myoblasts
Synovial sarcoma is a rare malignancy that is characterized by the presence of a chromosomal translocation t(X;18). This genetic abnormality results in the fusion of 2 transcriptional co-regulators, SYT and SSX, which have been shown to mediate transcriptional activation and repression, respectivel...
ORGANISM(S): Mus musculus 
2011-09-26 | E-GEOD-26564 | biostudies-arrayexpress
TranscriptomicsPorphyromonas gingivalis comparative genomic hybridization
Genotyping studies suggest that there is genetic variability among P. gingivalis strains, however the extent of variability remains unclear, and the regions of variability have only partially been identified. We previously used heteroduplex analysis of the ribosomal operon intergenic spacer region (...
ORGANISM(S): Porphyromonas gingivalis 
2010-05-18 | E-GEOD-13128 | biostudies-arrayexpress
TranscriptomicsReprogramming of mesenchymal stem cells by the synovial sarcoma-associated oncogene SYT-SSX2
Cellular identity is determined by its gene expression programs. The ability of the cell to change its identity and produce cell types outside its lineage is achieved by the activity of transcription controllers capable of reprogramming differentiation gene networks. The synovial sarcoma associated ...
ORGANISM(S): Homo sapiens 
2011-09-25 | E-GEOD-26565 | biostudies-arrayexpress
TranscriptomicsGene expression profile of SYT-SSX2-expressing C2C12 myoblasts
Synovial sarcoma is a rare malignancy characterized by the presence of a specific chromosomal translocation t(X;18) that results in the formation of a fusion protein SYT-SSX. Because it is believed that synovial sarcoma arises from mesenchymal stem or progenitor cells, we wanted to determine the ch...
ORGANISM(S): Mus musculus 
2011-09-25 | E-GEOD-26562 | biostudies-arrayexpress
TranscriptomicsGene expression profile of SYT-SSX2-expressing human bone marrow-derived mesenchymal stem cells
Synovial sarcoma is a rare malignancy characterized by the presence of a specific chromosomal translocation t(X;18) that results in the formation of a fusion protein SYT-SSX. Because it is believed that synovial sarcoma arises from mesenchymal stem or progenitor cells, we used human bone marrow-deri...
ORGANISM(S): Homo sapiens 
2011-09-25 | E-GEOD-26563 | biostudies-arrayexpress
UnknownStandard vaccines increase HIV-1 transcription during antiretroviral therapy.
Not available
S-EPMC5559226 | biostudies-literature
TranscriptomicsFurther characterization of an 8p deletion in peripheral blood
A man was referred to our lab for peripheral blood karyotyping because of infertility. A deletion in 8p was observed. Further characterization was needed in order to determine the exact breakpoints and what genes have been deleted.
ORGANISM(S): Homo sapiens 
2023-11-11 | E-MTAB-13528 | biostudies-arrayexpress
ProteomicsSimultaneous profiling of native-state proteomes and transcriptomes of brain cell types using proximity labeling
Deep molecular phenotyping of cells at transcriptomic and proteomic levels is an essential first step to understanding cellular contributions to development, aging, injury, and disease. Since proteome and transcriptome level abundances only modestly correlate with each other, complementary profiling...
ORGANISM(S): Mus musculus (Mouse) Homo sapiens (Human) 
2026-02-16 | PXD073954 | Pride
Proximity labeling  transcriptomics  proteomics  microglia  astrocytes  neurons  mrna-protein concordance 
ProteomicsSimultaneous profiling of native-state proteomes and transcriptomes of brain cell types using proximity labeling
Deep molecular phenotyping of cells at transcriptomic and proteomic levels is an essential first step to understanding cellular contributions to development, aging, injury, and disease. Since proteome and transcriptome level abundances only modestly correlate with each other, complementary profiling...
ORGANISM(S): Mus musculus (Mouse) 
2026-02-16 | PXD059818 | Pride
Proximity labeling  transcriptomics  proteomics  microglia  astrocytes  neurons  mrna-protein concordance 
ProteomicsConsistency across multi-omics layers in a drug-perturbed gut microbial community
Here we map the molecular response of a synthetic community of 32 human gut bacteria to three non-antibiotic drugs by using five omics layers, namely 16S rRNA gene profiling, metagenomics, metatranscriptomics, metaproteomics, and metabolomics. Using this controlled setting, we find that all omics me...
ORGANISM(S): metagenome 
2022-12-13 | PXD036445 | Pride
Multi-omics proteomics metagenomics metatranscriptomics community drug chlorpromazine niclosamide metformin gut microbiome microbiota 
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