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TranscriptomicsInterference of B-Cell and T-Cell Receptor Genes in Single-Cell RNA Sequencing Data
B and T cells play central roles in immune responses and, as such, are integral in many diseases, such as autoimmunity. Characterizing these cells, their subsets, and exploring their transcriptomes to understand the underlying biology, can be achieved using single-cell RNA sequencing (scRNA-seq). Wh...
ORGANISM(S): Homo sapiens 
2025-12-16 | E-MTAB-12346 | biostudies-arrayexpress
TranscriptomicsSingle-Cell RNA-Seq of Memory B cells in Early Untreated Rheumatoid Arthritis Patients (Gene Expression Data)
In recent years, a circulating subset of B cells phenotypically negative for CD21 has been reported to be expanded in chronic infectious and autoimmune inflammatory diseases. While reports on the function of these cells differ by disease origin, their role in rheumatoid arthritis (RA) has remained e...
ORGANISM(S): Homo sapiens 
2025-12-31 | E-MTAB-11961 | biostudies-arrayexpress
TranscriptomicsRpoHI and RpoHII regulons in Rhodobacter sphaeroides 2.4.1 from gene expression profiling
In this study, we performed expression profiling experiments to determine the respective regulons of RpoHI and RpoHII in Rhodobacter sphaeroides. We grew R. sphaeroides in aerobic conditions and induced either proteins ectopically and compared the global gene expression profiles. The expression prof...
ORGANISM(S): Rhodobacter sphaeroides 2.4.1 
2012-08-02 | E-GEOD-39712 | biostudies-arrayexpress
TranscriptomicsTemporal Endogenous Gene Expression Profiles in Response to Lipid-Mediated Transfection
The current understanding of the molecular factors underlying LF2000-mediated transfection is largely unknown. Cationic LF2000 gene delivery system was used to transfer GFP transgene to HEK293T cells. FACS separation of transfected (GFP positive), untransfected (GFP negative), and untreated cells ...
ORGANISM(S): Homo sapiens 
2014-07-23 | E-GEOD-59666 | biostudies-arrayexpress
TranscriptomicsTemporal Endogenous Gene Expression Profiles in Response to Polymer-Mediated Transfection and Profile Comparison to Lipid-Mediated Transfection
The current understanding of the molecular factors underlying polyethylenimine(PEI)-mediated transfection is largely unknown. Cationic PEI was used to transfer GFP transgene to HEK293T cells. FACS separation of transfected (GFP positive), untransfected (GFP negative), and untreated cells enabled ...
ORGANISM(S): Homo sapiens 
2014-07-23 | E-GEOD-59665 | biostudies-arrayexpress
TranscriptomicsBreast Cancer Methylomes Establish an Epigenomic Foundation for Metastasis
Cancer-specific changes in DNA methylation can alter genetic stability, genomic structure, and gene expression. Promoter CpG island methylation can result in transcriptional silencing and plays an important role in the oncogenic process. We used genome-wide analysis to characterize the methylomes o...
ORGANISM(S): Homo sapiens 
2011-03-31 | E-GEOD-26349 | biostudies-arrayexpress
TranscriptomicsAssay for Transposase-Accessible Chromatin sequencing (ATAC-seq) of primary melanocytes from five human donors
ATAC-seq was conducted to map open chromatin regions in five individual primary human melanocyte cultures. The ATAC libraries were sequenced using paired-end sequencing on an Illumina NovaSeq platform. In total, we sequenced 15 ATAC libraries from these five independent primary melanocyte cultures (...
ORGANISM(S): Homo sapiens 
2025-04-24 | E-MTAB-15048 | biostudies-arrayexpress
TranscriptomicsGWAS region focused capture-HiC of primary melanocytes from five human donors
Capture-HiC was conducted to map chromatin interactions at all melanoma GWAS identified risk-associated regions across five individual primary human melanocyte cultures. Capture-HiC baits were designed by Arima Genomics (San Diego, CA, 2x tiling, least stringent masking, XTHSBoosting) to obtain an A...
ORGANISM(S): Homo sapiens 
2025-04-24 | E-MTAB-15079 | biostudies-arrayexpress
TranscriptomicsBreastPRS is a Gene Expression Assay that Stratifies Intermediate-Risk Oncotype DX Patients into High or Low-Risk for Disease Recurrence
Molecular prognostic assays, such as Oncotype DX, are increasingly incorporated into the management of patients with invasive breast carcinoma. BreastPRS is a new molecular assay developed and validated from a meta-analysis of publically available genomic datasets. We applied the assay to matched fr...
ORGANISM(S): Homo sapiens 
2013-06-23 | E-GEOD-47109 | biostudies-arrayexpress
TranscriptomicsmCG-PML-RARA alters multipotent hematopoiesis.
Acute promyelocytic leukemia (APL) is associated with PML-RARA expression and late myeloid maturation arrest. The myeloid restriction of PML-RARA dependent leukemia has been recapitulated in multiple mouse models of APL, including PML-RARA expressed from the Ctsg locus (mCG-PR). However, we report h...
ORGANISM(S): Mus musculus 
2010-10-21 | E-GEOD-24728 | biostudies-arrayexpress
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