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GenomicsSearching for variants associated with endometriosis
We explored regulatory mechanism of a SNP on chromosome 9p21 associated with endometriosis by leveraging “allele-specific” functional genomic approaches. By re-sequencing 1.29 Mb of 9p21 region and scrutinizing DNase-seq data from the ENCODE project, we prioritized rs17761446 as a candidate function...
EGAS00001001741 | EGA
ProteomicsProteomics of bacterial and ovarian cancer ascites extracellular vesicles
Extracellular vesicles (EVs) are present in body fluids, and they can be disease biomarkers. Emerging evidence has proven that EVs are released not only from mammalian cells but also from bacteria. Ovarian cancer has a dismal prognosis because of difficulties in early detection. This study aimed to ...
ORGANISM(S): Lactobacillus Gasseri (ncbitaxon:1596) 
2025-02-23 | MSV000097198 | MassIVE
Genomicsena-DATASET-NIG-07-03-2016-14:49:59:413-12 - samples
We performed target re-sequencing for 1.29 Mb interval of chromosome 9 (chr9:21299764–22590271, hg19). NimbleGen SeqCap EZ choice system was used as a target enrichment method (Roche Diagnostics). A DNA probe set complementary to the target region was designed by NimbleDesign. The libraries were seq...
EGAD00001001942 | EGA
GenomicsData Access Committee of National Institute of Genetics of Japan
Data Access Committee EGAC00001000448
EGAC00001000448 | EGA
ProteomicsIn vitro reconstitution of epigenetic reprogramming in the human germ line
M1-BTAG iPSCs or TET1-KO iPSCs were analyzed by 8% SDS-PAGE, followed by trypsin digestion and LC/MS/MS with an Orbitrap Fusion Lumos linked with an Ultimate 3000 pump and HTC-PAL autosampler. Acquired data files were processed using FragPipe v20.0 (MSFragger v3.8, Philosopher v5.0.0, IonQuant v1.9....
ORGANISM(S): Homo Sapiens (human) 
2024-04-25 | PXD048118 | JPOST Repository
TranscriptomicsGene expression profiles of serous ovarian cancer samples
To elucidate the mechanisms of rapid progression of serous ovarian cancer, gene expression profiles from forty-three ovarian cancer tissues comprising eight early stage and thirty-five advanced stage tissues were performed using oligonucleotide microarrays of 18,716 genes. By non-negative matrix fac...
ORGANISM(S): Homo sapiens 
2009-07-19 | E-GEOD-12470 | biostudies-arrayexpress
TranscriptomicsEffect of VirR/VirS-VR-RNA regulatory cascade on the expression of chromosomal genes of Clostridium perfringens
The microarrays were subjected to two-color hybridization using Cy5 and Cy3 dyes incorporated in the cDNAs synthesized from total RNA samples of strains. We compared each gene’s transcription level between the wild-type (WT) strain 13 (labeled by Cy5) and the VirR-mutant strain (TS133) or VR-RNA-...
ORGANISM(S): Clostridium perfringens str. 13 
2010-05-05 | E-GEOD-12833 | biostudies-arrayexpress
ProteomicsTMPRSS2-induced Golgi disruption restricts the incorporation of virus envelope glycoproteins into virions
Understanding the relationship between viral proteins and host factors is essential for developing strategies to control virus infections. Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infects host cells using angiotensin converting enzyme 2 (ACE2) and transmembrane protease, serine 2...
ORGANISM(S): Homo Sapiens (human) 
2026-04-15 | PXD065094 | JPOST Repository
ProteomicsIdentification of GDPP in cancer secretome
Prostate cancer cell lines were cultured with serum-free media, for 48 h. The cultured media were collected and lyophilized. The lyophilized media were dissolved in ammonium bicarbonate containing 4 M urea, and proteins were de-salted by acetone-precipitation and subjected to proteome analysis.
ORGANISM(S): Homo Sapiens (human) 
2025-01-01 | PXD045369 | JPOST Repository
ProteomicsNRDC-IP
IP-MS analysis against endogenous NRDC using megakaryocyte cell lysates.
ORGANISM(S): Homo Sapiens (human) 
2018-07-19 | PXD009739 | JPOST Repository
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