Ovarian cancer data from GEO

Question

[crystalrose]

I need to download ovarian cancer gene expression data from GEO database, but I couldn't find suitable GEO ID. Could please advise me GDS ID that contain both tumor and normal samples? Thank you very much!

Answer 1

[Vinay Singh]

1. Oncogenic BRAF harboring melanoma cell line response to BRAF inhibition
   Analysis of A375 melanoma cells harboring the BRAF V600E oncogenic mutation following treatment with the BRAF inhibitor vemurafenib. Results provide insight into the role of the BRAF V600E oncogene in the pathogenesis of melanoma.
   Organism: Homo sapiens
   Type: Expression profiling by array, transformed count, 2 agent sets
   Platform: GPL6244 Series: GSE42872 6 Samples
   FTP download: GEO (CEL) ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS5nnn/GDS5085/
   DataSet Accession: GDS5085 ID: 5085

2. PIAS1 SUMO ligase depletion effect on breast cancer cell line
   Analysis of MDA-MB231 breast cancer cells depleted for PIAS1. PIAS1 is a SUMO ligase. Results provide insight into the role of PIAS1 in breast tumorigenesis.
   Organism: Homo sapiens
   Type: Expression profiling by array, count, 2 growth protocol, 2 protocol sets
   Platform: GPL571 Series: GSE44024 4 Samples
   FTP download: GEO (CEL, CHP) ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS5nnn/GDS5076/
   DataSet Accession: GDS5076 ID: 5076

3. High grade prostate cancer
   Analysis of prostate cancer cells microdissected from high grade prostate cancer tumor samples. Results identify a gene expression signature for high grade prostate cancer.
   Organism: Homo sapiens
   Type: Expression profiling by array, count, 2 disease state, 3 other sets
   Platform: GPL570 Series: GSE45016 11 Samples
   FTP download: GEO (CEL) ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS5nnn/GDS5072/
   DataSet Accession: GDS5072 ID: 5072

4. Non-syndromic cleft lip and palate: dental pulp stem cell cultures
   Analysis of NSCL/P dental pulp stem cells cultures. This cell source consists of mesodermal and neural crest derived cells and, therefore, it shares the same origin with cells involved in lip and palate morphogenesis. Results provide insight into molecular mechanisms underlying NSCL/P etiology.
   Organism: Homo sapiens
   Type: Expression profiling by array, transformed count, 2 disease state, 2 gender sets
   Platform: GPL6244 Series: GSE42589 13 Samples
   FTP download: GEO (CEL) ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS5nnn/GDS5071/
   DataSet Accession: GDS5071 ID: 5071

5. Zinc finger transcription factor ZXDC depletion effect on myeloid cell line undergoing differentiation
   Analysis of U937 myeloid cells treated with phorbol 12-myristate 13-acetate (PMA) and depleted for the zinc finger transcription factor ZXDC. PMA treatment induces myeloid cell differentiation. Results provide insight into the role of ZXDC in myeloid cell differentiation.
   Organism: Homo sapiens
   Type: Expression profiling by array, transformed count, 2 agent, 2 protocol sets
   Platform: GPL570 Series: GSE45417 12 Samples
   FTP download: GEO (CEL) ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS5nnn/GDS5070/
   DataSet Accession: GDS5070 ID: 5070

6. Oligooxopiperazine effect on hypoxic alveolar adenocarcinoma cell line
   Analysis of hypoxic A549 cells treated with oligooxopiperazines (OOPs) BB2-125, BB2-162, and BB2-282. OOPs are designed mimics of a key ⍺-helical domain at the interface of hypoxia-inducible factor 1⍺ (HIF1⍺) and coactivator p300. Results provide insight into the effect of OOPs on HIF signaling.
   Organism: Homo sapiens
   Type: Expression profiling by array, count, 4 agent, 2 stress sets
   Platform: GPL6244 Series: GSE48134 15 Samples
   FTP download: GEO (CEL) ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS5nnn/GDS5067/
   DataSet Accession: GDS5067 ID: 5067

7. Acute myeloid leukemia fusion oncogenes in vitro effect on primary CD34+ cells: time course
   Analysis of CD34+ cells nucleofected (6h) or transduced (3d, 8d) with AML leukemia fusion oncogenes: AML1-ETO, MLL-AF9, PML-RARA or NUP98-HOXA9. Results provide insight into molecular mechanisms of fusion oncogene-driven leukemogenesis and early temporal patterns of gene deregulation in AML.
   Organism: Homo sapiens
   Type: Expression profiling by array, transformed count, 10 protocol, 3 time sets
   Platform: GPL570 Series: GSE57194 30 Samples
   FTP download: GEO (CEL) ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS5nnn/GDS5059/
   DataSet Accession: GDS5059 ID: 5059

8. V-ets erythroblastosis virus E26 oncogene homolog 2 knockdown effect on lung cancer cells
   Analysis of H441 lung cancer cells transfected with siRNA targeting V-ets erythroblastosis virus E26 oncogene homolog 2 (ETS2). ETS2 transcription factor is an evolutionarily conserved gene that is deregulated in cancer. Results provide insight into the role of ETS2 in lung cancer.
   Organism: Homo sapiens
   Type: Expression profiling by array, transformed count, 2 protocol sets
   Platform: GPL6244 Series: GSE43459 6 Samples
   FTP download: GEO (CEL) ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS5nnn/GDS5040/
   DataSet Accession: GDS5040 ID: 5040

9. SW480 KRAS-mutant colorectal cancer cell line response to dual inhibition of tankyrase and MEK: time course
   Analysis of SW480 cancer cells treated with tankyrase inhibitor, MEK inhibitor, or both, for up to 16hrs. Dual inhibition of TNKS and MEK led to tumor regression. Results provide insight into molecular mechanisms underlying the synergistic effects of TNKS and MEK inhibitors in KRAS-mutant cancers.
   Organism: Homo sapiens
   Type: Expression profiling by array, count, 5 protocol, 3 time sets
   Platform: GPL570 Series: GSE55624 18 Samples
   FTP download: GEO (CEL) ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS5nnn/GDS5029/
   DataSet Accession: GDS5029 ID: 5029

10. 17β-estradiol effect on breast adenocarcinoma cells deficient in extracellular signal-regulated kinase 5
    Analysis of MCF-7 breast cancer (BC) cells depleted for ERK5 then treated with 17β-estradiol. Increased kinase activity is associated with a poorer outcome for BC patients. Results provide insight into the interplay between estrogen receptor and protein kinase pathways to regulate BC aggressiveness
    Organism: Homo sapiens
    Type: Expression profiling by array, count, 2 agent, 2 genotype/variation sets
    Platform: GPL96 Series: GSE53394 8 Samples
    FTP download: GEO (CEL) ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS5nnn/GDS5026/
    DataSet Accession: GDS5026 ID: 5026

view raw biostars-178479.md hosted with ❤ by GitHub

[Vinay Singh]

Go to NCBI - GEO

and in search window type Tumor AND normal it will give a list of all the sample related to your search.