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  1. Ribosomal protein S3 regulates GLI2-mediated osteosarcoma invasion BioProject

    ID: PRJNA183835

    Keywords: Transcriptome or Gene expression

    Access Type: download

  2. ChIP-chip analysis to determine GLI2 binding sites OmicsDI

    ID: E-GEOD-39255

    Date Released: 05-03-2014

    Description: Chromatin immunoprecipitation with anti-GLI2 antibody was conducted in human pulomonary microvascular endothelial cells (HPMECs) to determine GLI2 bindi...

  3. GLI2_CHICK UniProt:Swiss-Prot

    ID: P55879

    Description: Zinc finger protein GLI2 C2H2-type 1 C2H2-type 2 C2H2-type 3 C2H2-type 4 C2H2-type 5

  4. Overexpression of GLI2 induces genomic instability BioProject

    ID: PRJNA108677

    Keywords: Variation

    Access Type: download

  5. Gene expression analysis of FACS-isolated mammary stromal cells (Fsp1-expressing) between stromal Gli2 wild type control and stromal Gli2 ablated mice BioProject

    ID: PRJNA278039

    Keywords: Transcriptome or Gene expression

    Access Type: download

  6. a through suppressing transcriptional activity of GLI2 and downregulation of ribosomal protein S3... OmicsDI

    ID: E-GEOD-42903

    Date Released: 01-14-2013

    Description: s. However, little is known about the function of GLI2, a transcription factor in the Hh pathway, in osteosarcoma. Osteosarcoma is the most frequent primary bone sarcoma in children and adolescents. Despite survival rates of osteosarcoma patients have increased, th...

  7. ChIP-chip analysis to determine GLI2 binding sites BioProject

    ID: PRJNA170422

    Keywords: Epigenomics

    Access Type: download

  8. Overexpression of GLI2 induces genomic instability OmicsDI

    ID: E-GEOD-10132

    Date Released: 05-01-2014

    Description: cells infected with a lentivirus expressing eGFP, GLI2-eGFP or CCND1-RFP to challenge with methotrexate to address the question if GLI2 overexpression induces genomic instability. Keywords: aCGH Array CGH experiments of cell line genomic DNA as test samples and normal human genomic DNA as ...

  9. a through suppressing transcriptional activity of GLI2 and downregulation of ribosomal protein S3... ArrayExpress

    ID: E-GEOD-42903

    Description: s. However, little is known about the function of GLI2, a transcription factor in the Hh pathway, in osteosarcoma. Osteosarcoma is the most frequent primary bone sarcoma in children and adolescents. Despite survival rates of osteosarcoma patients have increased, th...

  10. Overexpression of GLI2 induces genomic instability ArrayExpress

    ID: E-GEOD-10132

    Description: cells infected with a lentivirus expressing eGFP, GLI2-eGFP or CCND1-RFP to challenge with methotrexate to address the question if GLI2 overexpression induces genomic instability. Keywords: aCGH Array CGH experiments of cell line genomic DNA as test samples and normal human genomic DNA as ...

  11. ChIP-chip analysis to determine GLI2 binding sites ArrayExpress

    ID: E-GEOD-39255

    Description: Chromatin immunoprecipitation with anti-GLI2 antibody was conducted in human pulomonary microvascular endothelial cells (HPMECs) to determine GLI2 bindi...

  12. Hedgehog signaling in T cell differentiation OmicsDI

    ID: E-GEOD-33156

    Date Released: 06-02-2014

    Description: and proliferation, the transcriptional targets of Gli2 in lymphocytes are not known. We therefore examined the Hedgehog-dependent transcriptional response of resting and early-stage activated T-cells in order to define their transcr...

  13. Genome-wide chromatin binding of Elk1 and Gli2 in chemical induced neural reprogramming OmicsDI

    ID: E-GEOD-78976

    Date Released: 05-22-2016

    Description: g specific transcription factors such as Elk1 and Gli2 that are downstream of M9-induced signaling pathways bind and activate endogenous master neural genes to specify neural identity. Our study therefore provides an effective chemical approach for generating neural stem cells from mouse fibroblasts, and reveals mechanistic insights into underlying reprogramming process. Genome-wide binding of Elk1 and Gli2 was analyzed by CHIP-seq for tdMEFs from day 0 (ciNSLC), day 4 (D4), day 8 (D8) of M9-induced neural reprogramming, and ciNSLCs and pri-NPC....

  14. Genome-wide chromatin binding of Elk1 and Gli2 in chemical induced neural reprogramming BioProject

    ID: PRJNA314536

    Keywords: Epigenomics

    Access Type: download

  15. Genome-wide chromatin binding of Elk1 and Gli2 in chemical induced neural reprogramming ArrayExpress

    ID: E-GEOD-78976

    Description: g specific transcription factors such as Elk1 and Gli2 that are downstream of M9-induced signaling pathways bind and activate endogenous master neural genes to specify neural identity. Our study therefore provides an effective chemical approach for generating neural stem cells from mouse fibroblasts, and reveals mechanistic insights into underlying reprogramming process. Genome-wide binding of Elk1 and Gli2 was analyzed by CHIP-seq for tdMEFs from day 0 (ciNSLC), day 4 (D4), day 8 (D8) of M9-induced neural reprogramming, and ciNSLCs and pri-NPC....

  16. Hedgehog signaling in T cell differentiation ArrayExpress

    ID: E-GEOD-33156

    Description: and proliferation, the transcriptional targets of Gli2 in lymphocytes are not known. We therefore examined the Hedgehog-dependent transcriptional response of resting and early-stage activated T-cells in order to define their transcr...

  17. Hedgehog signaling in T cell differentiation BioProject

    ID: PRJNA149187

    Keywords: Transcriptome or Gene expression

    Access Type: download

    dataset.description: and proliferation, the transcriptional targets of Gli2 in lymphocytes are not known. We therefore examined the Hedgehog-dependent transcriptional response of resting and early-stage activated T-cells in order to define their transcr...
  18. Aberrantly activated Gli2-KIF20A axis is crucial for the growth of hepatocellular carcinoma and predicts poor prognosis BioProject

    ID: PRJNA297145

    Keywords: Transcriptome or Gene expression

    Access Type: download

  19. Transcription profiling of mouse cartilage tumours IGFBP-3 reveals is regulated by Gli signaling in cartilage tumors. OmicsDI

    ID: E-GEOD-15118

    Date Released: 06-10-2011

    Description: benign cartilage lesions due to overexpression of Gli2 in chondrocytes developed lesions similar to chondrosarcomas when also deficient in p53. Gli2 overexpression and p53 deficie...

  20. Yersinia pestis strain:EHC : Yersinia pestis & THP-1 Transcriptome BioProject

    ID: PRJNA315671

    Keywords: transcriptome

    Access Type: download

  21. Transcription profiling of mouse cartilage tumours IGFBP-3 reveals is regulated by Gli signaling in cartilage tumors ArrayExpress

    ID: E-GEOD-15118

    Description: benign cartilage lesions due to overexpression of Gli2 in chondrocytes developed lesions similar to chondrosarcomas when also deficient in p53. Gli2 overexpression and p53 deficie...

  22. RNA-seq 1,25(OH)2D3 time course in THP-1 cells ArrayExpress

    ID: E-GEOD-69284

    Description: gene expression profiling by RNA-seq in THP-1 cells treated with 1,25(OH)2D3 for 2.5-24 h three independent experiments of 1,25(OH)2D3 time course in ...

  23. Transient Collagen Triple Helix Binding to a Key Metalloproteinase in Invasion and Development: Spin Labels to Structure PDB

    ID: PDB:2MQS

    Description: Matrix metalloproteinase-14 (E.C.3.4.24.80), THP_L_and_M_chain, THP_T_chain

  24. Crystal structure of the polymerization region of human uromodulin/Tamm-Horsfall protein PDB

    ID: PDB:4WRN

    Description: PRONASE-RESISTANT FRAGMENT OF HUMAN TAMM-HORSFALL PROTEIN (THP)/UROMODULIN (UMOD)

  25. Structure of the Saccharomyces cerevisiae TREX-2 complex PDB

    ID: PDB:5G5P

    Description: NUCLEAR MRNA EXPORT PROTEIN SAC3, NUCLEAR MRNA EXPORT PROTEIN THP1, 26S PROTEASOME COMPLEX SUBUNIT SEM1

  26. RNA-seq 1,25(OH)2D3 time course in THP-1 cells BioProject

    ID: PRJNA285092

    Keywords: Transcriptome or Gene expression

    Access Type: download

  27. Transcription profiling of mouse embryonic E16.5 temporomandibular joint OmicsDI

    ID: E-GEOD-17473

    Date Released: 06-10-2011

    Description: ong the genes identified in the screen, including Gli2, which is expressed specifically in the condyle and in the disk of the developing TMJ. We found that mice deficient in Gli2 display aberrant TMJ development such that the condyle loses its growth plate-like cellular organization and no disk is formed. In addition, we utilized a conditional strategy to remove activity of the Hh co-receptor encoded by Smo from chondrocyte progenitors. This cell autonomous loss of Hh signaling allows for disk formation, but the resulting structure fails to separate from the condyle. Thus, these experiments establish that Hh signaling acts at two distinct steps in disk morphogenesis, condyle initiation and disk-condyle separation, and provide a molecular framework for future studies of the TMJ. Experi...

  28. FAIRE-seq 1,25(OH)2D3 time course in THP-1 cells BioProject

    ID: PRJNA285102

    Keywords: Epigenomics

    Access Type: download

  29. Monocyte-like THP-1 Cells: Trichosporon asahii Infected vs Control ArrayExpress

    ID: E-GEOD-41983

    Description: Transcriptional profiling of Monocyte-like THP-1 Cells with Trichosporon asahii Infected THP-1 Cells comparing untreated THP-1 cells Two-condition ...

  30. ditional file 5: Table S1. of BRG1 interacts with GLI2 and binds Mef2c gene in a hedgehog signalling dependent manner during in vitro cardiomyogenesis... Figshare

    ID: doi:10.6084/M9.FIGSHARE.C.3612392_D4

    Release Date: 12-14-2016

    Description: A complete list of gene ontology biological processes significantly enriched among genes within 50 kb of a BRG1-associating site and GLI consensus ...

  31. FAIRE-seq 1,25(OH)2D3 time course in THP-1 cells ArrayExpress

    ID: E-GEOD-69297

    Description: Assessment of regions of open chromatin by FAIRE-seq in THP-1 cells treated with 1,25(OH)2D3 for 0-48 h Three independent experiments of 1,25(OH)2D3 t...

  32. Transcription profiling of S. pneumonia early response to to THP-1 human macrophages ArrayExpress

    ID: E-FPMI-16

    Description: Transcriptional responses of an unencapsulated Streptococcus pneumoniae strain derived from TIGR4 to human macrophages THP-1 were investigated at the ...

  33. Schisandra chinensis : Schisandra chinensis Organism overview BioProject

    ID: PRJNA350347

    Access Type: download

  34. Hedgehog/GLI signalling and hormone independence in prostate cancer (PCa) cell lines OmicsDI

    ID: E-GEOD-27231

    Date Released: 02-13-2011

    Description: High levels of GLI (GLI1 and GLI2) mRNA and GLI luciferase reporter activity were detected in the androgen independent prostate cancer cell lines DU145 and PC-3...

  35. 5-azacytidine resistance: THP-1 control vs. THP-1 resistant cell line(TAR) by CodeLinkTM Human Whole Genome Bioarray ArrayExpress

    ID: E-GEOD-37630

    Description: Generated AZA resistant cell line (TAR) and analysis markedly different gene expression levels between THP-1 and TAR. Two condition experiment, THP-1 ...

  36. Effects of gene scilencing of USP2 on expression profiles of HL60 cells ArrayExpress

    ID: E-GEOD-20476

    Description: So far, we have found PMA induced USP2b isoform in myeloid leukemia cell lines such as HL60, THP-1, and U937. To explore molecular function of USP2 in...

  37. Gene expression analysis of TNF-alpha stimulated THP-1 cells BioProject

    ID: PRJNA108253

    Keywords: Transcriptome or Gene expression

    Access Type: download

  38. Thermomirs a novel class of temperature-responsive microRNAs BioProject

    ID: PRJNA285256

    Keywords: Transcriptome or Gene expression

    Access Type: download

  39. 5-azacytidine resistance: THP-1 control vs. THP-1 resistant cell line(TAR) by CodeLinkTM Human Whole Genome Bioarray. BioProject

    ID: PRJNA162439

    Keywords: Transcriptome or Gene expression

    Access Type: download

  40. Mutant WT1 is Associated with DNA Hypermethylation of PRC2 Targets in AML and Responds to EZH2 Inhibition ArrayExpress

    ID: E-GEOD-62929

    Description: Genome wide DNA methylation profiling of THP1, THP1 expressing WT1 mutant, THP1 expressing IDH2 mutant, CTS cells and AML patient with WT1 mutant. The...

  41. Gene expression analysis of TNF-alpha stimulated THP-1 cells ArrayExpress

    ID: E-GEOD-10106

    Description: The series was designed to obtain gene expression patterns of TNF-alpha stimulated THP-1 cells. Keywords: TNF-alpha stimulation This series represents...

  42. Gene expression of LY6E-silent THP-1 cells and control THP-1 cells ArrayExpress

    ID: E-GEOD-44794

    Description: Expression profiling of LY6E-silent THP-1 cells (THP-1-shLY6E) and control cells (THP-1-shCtrl). Results provide evidence that LY6E is effectively kno...

  43. Genome-wide analysis of vitamin D receptor (VDR) target genes in THP-1 monocytic leucemia cells ArrayExpress

    ID: E-GEOD-27270

    Description: Identification of primary target genes of vitamin D receptor (VDR) in an immune-related cellular model (THP-1 cells) to study, in conjunction with VDR...

  44. IGFBP-3 is regulated by Gli signaling in cartilage tumors. BioProject

    ID: PRJNA114869

    Keywords: Transcriptome or Gene expression

    Access Type: download

    dataset.description: benign cartilage lesions due to overexpression of Gli2 in chondrocytes developed lesions similar to chondrosarcomas when also deficient in p53. Gli2 overexpression and p53 deficie...
  45. Monocyte-like THP-1 Cells: Trichosporon asahii Infected vs Control BioProject

    ID: PRJNA178724

    Keywords: Transcriptome or Gene expression

    Access Type: download

  46. Effects of gene scilencing of USP2 on expression profiles of HL60 cells BioProject

    ID: PRJNA125159

    Keywords: Transcriptome or Gene expression

    Access Type: download

  47. Profiling of THP-1 cells infected with H37Rv (wild-type), ∆E (deletion mutant of PknE), C∆E (complemented ∆E) BioProject

    ID: PRJNA124109

    Keywords: Transcriptome or Gene expression

    Access Type: download

  48. Host transcriptomic analysis of THP-1 infected with Mtb and MtbΔwhiB3 BioProject

    ID: PRJNA274778

    Keywords: Transcriptome or Gene expression

    Access Type: download

  49. Gene expression of LY6E-silent THP-1 cells and control THP-1 cells BioProject

    ID: PRJNA191804

    Keywords: Transcriptome or Gene expression

    Access Type: download

  50. Detection of non-coding deletion CNVs upstream to FOXF1 [Agilent-030795] OmicsDI

    ID: E-GEOD-39254

    Date Released: 05-03-2014

    Description: ors a differentially methylated CpG island, binds GLI2 depending on the methylation status of this CpG island, and physically interacts with and up-regulates the FOXF1 promoter, consistent with the absence of the fetal lung-transcribed lncRNA perturbing FOXF1 regulation. LncRNA-mediated chromatin interactions may be responsible for position effect phenomenon and potentially cause many disorders of human development.potentially cause many disorders of human development. CNVs were identified by array CGH with custom-designed 16q24.1 region specific (1Mb flanking FOXF1) 44K oligonucleotide microarrays (Agilent technologies) in 3 patients with ACD....

  51. Transcription profiling of mouse embryonic E16.5 temporomandibular joint ArrayExpress

    ID: E-GEOD-17473

    Description: ong the genes identified in the screen, including Gli2, which is expressed specifically in the condyle and in the disk of the developing TMJ. We found that mice deficient in Gli2 display aberrant TMJ development such that the condyle loses its growth plate-like cellular organization and no disk is formed. In addition, we utilized a conditional strategy to remove activity of the Hh co-receptor encoded by Smo from chondrocyte progenitors. This cell autonomous loss of Hh signaling allows for disk formation, but the resulting structure fails to separate from the condyle. Thus, these experiments establish that Hh signaling acts at two distinct steps in disk morphogenesis, condyle initiation and disk-condyle separation, and provide a molecular framework for future studies of the TMJ. Experi...

  52. Differential gene expression in human THP-1 cell line undifferentiated, 3 days or 8 days differentiated with phorbol myristate acetate (PMA) ArrayExpress

    ID: E-GEOD-67264

    Description: We analysed the capacity of THP-1 cells (differentiated to macrophagoid cells) to recognize RNA sequences via pattern recognition receptors in vitro....

  53. Effects of PMA on exon usage of HL60, THP-1, and U937 cells ArrayExpress

    ID: E-GEOD-20567

    Description: Myeloid leukemia cell lines HL60, THP-1, and U937 undergo macrophage-like differentiation after treatment with phorbol ester. To explore genes whose e...

  54. Transcription profiling of human monocytic leukemia cell line THP-1 treated with Ganoderma lucidum polysaccharides F3 ArrayExpress

    ID: E-GEOD-16014

    Description: In order to identify patterns of gene expression associated with biological effects in THP-1 cells induced by F3, we performed a transcriptomic analys...

  55. HaCaT +GLI1/2 24/72h BioProject

    ID: PRJNA89971

    Keywords: Transcriptome or Gene expression

    Access Type: download

    dataset.description: mRNA from HaCaT keratinocytes expressing GLI1 or GLI2 in an tet-inducible manner for 24h or 72h on Incyte clone set Detailed information about the protocols we used for array production, hybridisa...
  56. Mutant WT1 is Associated with DNA Hypermethylation of PRC2 Targets in AML and Responds to EZH2 Inhibition BioProject

    ID: PRJNA266224

    Keywords: Epigenomics

    Access Type: download

  57. Comparison of gene expression changes in AML cells after SMARCA4, SMARCD2 or DPF2 knock-down ArrayExpress

    ID: E-GEOD-67923

    Description: We explored the role of SMARCA4 and the two Brahma associated factors SMARCD2 and DPF2 in leukaemia. We observed the selective requirement for these f...

  58. Genome-wide chromatin landscape of chemical-induced neural stem cell reprogramming from defined fibroblasts OmicsDI

    ID: E-GEOD-78977

    Date Released: 05-22-2016

    Description: g specific transcription factors such as Elk1 and Gli2 that are downstream of M9-induced signaling pathways bind and activate endogenous master neural genes to specify neural identity. Our study therefore provides an effective chemical approach for generating neural stem cells from mouse fibroblasts, and reveals mechanistic insights into underlying reprogramming process. Genome-wide epigenetic changes of H3K4me1, H3K4me3, H3K27me3, and H3K27ac were analyzed by CHIP-seq for tdMEFs from day 0 (ciNSLC), day 4 (D4), day 8 (D8) of M9-induced neural reprogramming, and ciNSLCs and pri-NPC....

  59. Genomic analysis of Smoothened inhibitor resistance in basal cell carcinoma OmicsDI

    ID: EGAS00001000845

    Date Released:

    Description: in the downstream Hh pathway components SUFU and GLI2, as well as novel SMO mutations that reduce sensitivity to vismodegib. The latter fall into two classes: those that activate SMO and those that directly affect the vismodegib-binding pocket. Additionally, we observe evidence of clonal selection of SMO mutations and intra-tumor heterogeneity of resistance mechanisms, which implies diverse and combinatorial strategies are required to overcome resistance....

  60. RNA-Seq analysis of Gtf2ird1 knockout epidermal tissue provides potential insights into molecular mechanisms underpinning Williams-Beuren syndrome OmicsDI

    ID: E-GEOD-81082

    Date Released: 08-05-2016

    Description: velopment including Hey1, Myf6, Myog, Dlx2, Gli1, Gli2, Lhx2, Pou3f3, Sox2, and Foxp3. We also found that the absence of GTF2IRD1 is associated with increased expression of genes involved in cellular proliferation, including growth factors consistent with the observed phenotype of extreme thickening of the epidermis. At the same time, there was a decrease in the expression of genes involved in other signalling mechanisms, including the Wnt pathway, indicating dysregulation in the complex networks necessary for epidermal differentiation an...

  61. Detection of non-coding deletion CNVs upstream to FOXF1 [Agilent-022084] OmicsDI

    ID: E-GEOD-38978

    Date Released: 05-02-2014

    Description: rs a differentially methylated CpG island, binds GLI2 depending on the methylation status of this CpG island, and physically interacts with and up-regulates the FOXF1 promoter, consistent with the absence of the fetal lung-transcribed lncRNA perturbing FOXF1 regulation. LncRNA-mediated chromatin interactions may be responsible for position effect phenomenon and potentially cause many disorders of human development.potentially cause many disorders of human development. CNVs were identified by array CGH with custom-designed 16q24.1 region specific (1Mb flanking FOXF1) 44K oligonucleotide microarrays (Agilent technologies) in 3 patients with ACD. This Series contains data for only two patients custom targeted oligoarray, normal reference vs patient sample...

  62. Transcriptomics of THP-1 host cells infected with Mycobacterium tuberculosis (Mtb) BioProject

    ID: PRJNA219720

    Keywords: Transcriptome or Gene expression

    Access Type: download

  63. Transcriptome response after addition of individual agonists of TLR4 (MPLA) and NOD2 (MDP) receptors to THP-1 cells or its combination ArrayExpress

    ID: E-GEOD-79900

    Description: Using microarray analysis, we explored the differences in gene expression profiles between individual and combined stimulation of Toll-like receptor 4...

  64. Hedgehog/GLI signalling and hormone independence in prostate cancer (PCa) cell lines ArrayExpress

    ID: E-GEOD-27231

    Description: High levels of GLI (GLI1 and GLI2) mRNA and GLI luciferase reporter activity were detected in the androgen independent prostate cancer cell lines DU145 and PC-3...

  65. Effect of simultaneous activation of TGFbeta and TLR4 pathway in human monocytes ArrayExpress

    ID: E-GEOD-17909

    Description: To better understand the interaction of TGFbeta and Toll-like-receptor 4 (TLR4) signaling in monocytes, we performed microarray analysis. We identifie...

  66. Transcription profiling of human leukemia cell lines KG-1, U937 and THP-1 vs. normal human blood monocytes ArrayExpress

    ID: E-GEOD-3280

    Description: Methylation of CpG islands is associated with transcriptional repression and, in cancer, leads to the abnormal silencing of tumor-suppressor genes. Ge...

  67. Mesenchymal stromal cells from neonatal tracheal aspirates demonstrate a pattern of gene expression consistent with a lung origin OmicsDI

    ID: E-GEOD-24583

    Date Released: 06-10-2011

    Description: ranscription factors Tbx2, Tbx3, Wnt5a, FoxF1 and Gli2, each of which have been associated with lung development. Compared to lung fibroblasts, 710 gene probe transcripts were differentially expressed by the lung MSCs, including IL-6 and IL-8/CXCL8. Further, neonatal lung MSCs exhibited a pattern of Hox gene expression distinct from cord-blood MSCs but similar to human fetal lung fibroblasts, consistent with a lung origin. Together, these data suggest that MSCs isolated from neonatal tracheal aspirates originate in the lung and are distinct from lung fibroblasts....

  68. Genome-wide analysis of vitamin D receptor (VDR) target genes in THP-1 monocytic leucemia cells BioProject

    ID: PRJNA141809

    Keywords: Transcriptome or Gene expression

    Access Type: download

  69. THP-1 human monocytes Transcriptome following exposure to S-nitrosoglutathione (GSNO) BioProject

    ID: PRJNA284337

    Keywords: Transcriptome or Gene expression

    Access Type: download

  70. Effects of PMA on exon usage of HL60, THP-1, and U937 cells BioProject

    ID: PRJNA125221

    Keywords: Transcriptome or Gene expression

    Access Type: download

  71. Detection of non-coding deletion CNVs upstream to FOXF1 [Agilent-030795] ArrayExpress

    ID: E-GEOD-39254

    Description: ors a differentially methylated CpG island, binds GLI2 depending on the methylation status of this CpG island, and physically interacts with and up-regulates the FOXF1 promoter, consistent with the absence of the fetal lung-transcribed lncRNA perturbing FOXF1 regulation. LncRNA-mediated chromatin interactions may be responsible for position effect phenomenon and potentially cause many disorders of human development.potentially cause many disorders of human development. CNVs were identified by array CGH with custom-designed 16q24.1 region specific (1Mb flanking FOXF1) 44K oligonucleotide microarrays (Agilent technologies) in 3 patients with ACD....

  72. Detection of non-coding deletion CNVs upstream to FOXF1 [Agilent-022084] ArrayExpress

    ID: E-GEOD-38978

    Description: rs a differentially methylated CpG island, binds GLI2 depending on the methylation status of this CpG island, and physically interacts with and up-regulates the FOXF1 promoter, consistent with the absence of the fetal lung-transcribed lncRNA perturbing FOXF1 regulation. LncRNA-mediated chromatin interactions may be responsible for position effect phenomenon and potentially cause many disorders of human development.potentially cause many disorders of human development. CNVs were identified by array CGH with custom-designed 16q24.1 region specific (1Mb flanking FOXF1) 44K oligonucleotide microarrays (Agilent technologies) in 3 patients with ACD. This Series contains data for only two patients custom targeted oligoarray, normal reference vs patient sample...

  73. Potentiation of glucocorticoid signaling by chloroquine via inhibition of lysosomes ArrayExpress

    ID: E-GEOD-24579

    Description: Anti-malaria drug chloroquine has been used as an anti-inflammatory agent for treating systemic lupus erythematosus and rheumatoid arthritis, without ...

  74. FOXF1 promoter-putative enhancer chromatin looping ArrayExpress

    ID: E-GEOD-39256

    Description: ors a differentially methylated CpG island, binds GLI2 depending on the methylation status of this CpG island, and physically interacts with and up-regulates the FOXF1 promoter, consistent with the absence of the fetal lung-transcribed lncRNA perturbing FOXF1 regulation. LncRNA-mediated chromatin interactions may be responsible for position effect phenomenon and potentially cause many disorders of human development. 4C analysis using 16q24.1 specific 3x720K arrays demonstrated physical interaction between the FOXF1 promoter and distant putative regulatory sequences, about 250 kb upstream in human pulomonary microvascular endothelial cells; 2 biological replicates performed; this chromatin looping was not detected in lymphoblasts that do not express FOXF1 and hence serve as a negative control....

  75. Targeting resistance to Smoothened antagonists by inhibiting the PI3K pathway OmicsDI

    ID: E-GEOD-19657

    Date Released: 06-02-2014

    Description: of Smo antagonists. Chromosomal amplification of Gli2, a downstream effector of Hh signaling, reactivated Hh signaling and restored tumor growth. Analysis of pathway gene-expression signatures selectively deregulated in resistant tumors identified increased phosphoinosite-3-kinase (PI3K) signaling as another potential resistance mechanism. Probing the functional relevance of increased PI3K signaling, we showed that the combination of NVP-LDE225 with the dual PI3K/mTOR inhibitor NVP-BEZ235 markedly delayed the development of resistance. Our findings have important clinical implications for future treatment strategies in medulloblastoma. mRNA profiling: RNA was prepared from tumours from vehicle or NVP-LDE225 treated nude mice allografted with medulloblastoma tumors derived from Ptch+/-p53-/- transgenic mouse and hybridized on Affymetrix Mouse Genome 430 2.0 RNA expression array. The dosage terminology (BID & QD) reflects the dosing schedule, where BID = twice a day, QD = once a day. aCGH: DNA was prepared from tumors from vehicle or NVP-LDE225 treated nude mice allografted with medullobl...

  76. Expression profiling of leukemia cell lines BioProject

    ID: PRJNA92937

    Keywords: Other

    Access Type: download

  77. SMO variants explain the majority of drug resistance in basal cell carcinoma [RNA-Seq] BioProject

    ID: PRJNA252377

    Keywords: Transcriptome or Gene expression

    Access Type: download

    dataset.description: iants respond to the aPKC-ι/λ inhibitor PSI and GLI2 antagonist ATO that operate downstream of SMO Overall design: Genome-wide gene expression profiling of 8 normal skin biopsies, 9 resistant basal cell cancers and 4 sensitive basal cell cancers....
  78. Mesenchymal stromal cells from neonatal tracheal aspirates demonstrate a pattern of gene expression consistent with a lung origin ArrayExpress

    ID: E-GEOD-24583

    Description: ranscription factors Tbx2, Tbx3, Wnt5a, FoxF1 and Gli2, each of which have been associated with lung development. Compared to lung fibroblasts, 710 gene probe transcripts were differentially expressed by the lung MSCs, including IL-6 and IL-8/CXCL8. Further, neonatal lung MSCs exhibited a pattern of Hox gene expression distinct from cord-blood MSCs but similar to human fetal lung fibroblasts, consistent with a lung origin. Together, these data suggest that MSCs isolated from neonatal tracheal aspirates originate in the lung and are distinct from lung fibroblasts....

  79. Molecular profiling of myeloid leukemia cell lines ArrayExpress

    ID: E-GEOD-8779

    Description: Cell lines. The myeloid cell lines CMK, HEL, HL-60, K-562, KASUMI-1, KG-1, LAMA-84, M-07e, MONO-MAC-1, MV4-11, NB-4, OCI-AML2, OCI-AML5, SIG-M5, THP-...

  80. Transcriptome-wide regulation of pre-mRNA splicing and expression by the RNA-binding protein Quaking during monocyte to macrophage differentiation [Mi... ArrayExpress

    ID: E-GEOD-74887

    Description: Expression levels of the RNA-binding protein Quaking (QKI) are low in monocytes of early, human atherosclerotic lesions, but abundant in macrophages o...

  81. RNA-Seq analysis of Gtf2ird1 knockout epidermal tissue provides potential insights into molecular mechanisms underpinning Williams-Beuren syndrome ArrayExpress

    ID: E-GEOD-81082

    Description: velopment including Hey1, Myf6, Myog, Dlx2, Gli1, Gli2, Lhx2, Pou3f3, Sox2, and Foxp3. We also found that the absence of GTF2IRD1 is associated with increased expression of genes involved in cellular proliferation, including growth factors consistent with the observed phenotype of extreme thickening of the epidermis. At the same time, there was a decrease in the expression of genes involved in other signalling mechanisms, including the Wnt pathway, indicating dysregulation in the complex networks necessary for epidermal differentiation an...

  82. Gene expression profile of THP-1 cells treated with a EZH2 inhibitor ArrayExpress

    ID: E-GEOD-71671

    Description: Macrophages play a key role in both innate and adaptive immunity, but our knowledge on the changes in transcription regulation that occurs during thei...

  83. Methylation microarray studies highlight PDGFA expression as a factor in biliary atresia OmicsDI

    ID: E-GEOD-69948

    Date Released: 06-19-2015

    Description: genetic loci. Hedgehog pathway members, SHH and GLI2, known to be upregulated in BA, were both hypomethylated, validating this approach as an investigative tool. Another region near the PDGFA locus was the most significantly hypomethylated in BA, suggesting potential aberrant expression. Validation assays confirmed increased transcriptional and protein expression of PDGFA in BA livers. We also show that PDGF-A protein is specifically localized to cholangiocytes in human liver samples. Injection of PDGF-AA protein dimer into zebrafish larvae caused biliary developmental and functional defects. In addition, activation of the Hedgehog pathway caused increased expression of PDGF-A in zebrafish larvae, providing a previously unrecognized link between PDGF and the Hedgehog pathway. DNA hypomethylation appears to be a specific factor in mediating overexpression of genes associated with BA. Our findings va...

  84. RNA expression data of embryonic E16.5 mouse temporomandibular joint (TMJ) BioProject

    ID: PRJNA118717

    Keywords: Transcriptome or Gene expression

    Access Type: download

    dataset.description: ong the genes identified in the screen, including Gli2, which is expressed specifically in the condyle and in the disk of the developing TMJ. We found that mice deficient in Gli2 display aberrant TMJ development such that the condyle loses its growth plate-like cellular organization and no disk is formed. In addition, we utilized a conditional strategy to remove activity of the Hh co-receptor encoded by Smo from chondrocyte progenitors. This cell autonomous loss of Hh signaling allows for disk formation, but the resulting structure fails to separate from the condyle. Thus, these experiments establish that Hh signaling acts at two distinct steps in disk morphogenesis, condyle initiation and disk-condyle separation, and provide a molecular framework for future studies of the TMJ. Overall...
  85. cis-Regulatory analysis of Ptch1 BioProject

    ID: PRJNA290563

    Keywords: Epigenomics

    Access Type: download

    dataset.description: oal of this study was to identify tissue specific Gli2 inputs to Ptch1 during development. Additionally, we assessed the prevalence of the repressive chromatin mark (H3K27me3) during directed differentiated of embryonic stem cells into neural progenitors. Overall design: Embryonic tissues were microdissected and pooled prior to formaldehyde fixation. ES cell derived neural progenitors were generated using embryoid body differentiation according to standard prot...
  86. Array-based DNA-methylation analysis in individuals with developmental delay/intellectual disability and normal molecular karyotype BioProject

    ID: PRJNA270861

    Keywords: Epigenomics

    Access Type: download

    dataset.description: methylation changes in the genes COLEC11, SHANK2, GLI2 and KCNQ2, known to be associated with ID, in at least one patient. DNA methylation analysis of imprinted genes revealed patients with aberrant methylation pattern at the imprinted genes PPIEL, IGF2R, MEG3 and MCTS2/HM13. Our results suggest that imprinting disorders are under-diagnosed in ID patients moreover point to DNA methylation changes as potential alternative means to deregulated genes involved in the pathogenesis of ID. Overall design: Bisulfite converted DNA of peripheral blood from 82 individuals with developmental ...
  87. Hedgehog/GLI signalling and hormone independence in prostate cancer (PCa) cell lines BioProject

    ID: PRJNA137497

    Keywords: Transcriptome or Gene expression

    Access Type: download

    dataset.description: High levels of GLI (GLI1 and GLI2) mRNA and GLI luciferase reporter activity were detected in the androgen independent prostate cancer cell lines DU145 and PC-3...
  88. SMO variants explain the majority of drug resistance in basal cell carcinoma [Target Sequencing] BioProject

    ID: PRJNA252375

    Keywords: Other

    Access Type: download

    dataset.description: iants respond to the aPKC-ι/λ inhibitor PSI and GLI2 antagonist ATO that operate downstream of SMO Overall design: Identification of Smo mutations in 30 resistant basal cell cancers and 36 untreated basal cell cancers  The exonic regions of PTCH1 and SMO were amplified using the Access Array platform (Fluidigm)...
  89. Transcriptome response after addition of individual agonists of TLR4 (MPLA) and NOD2 (MDP) receptors to THP-1 cells or its combination BioProject

    ID: PRJNA317348

    Keywords: Transcriptome or Gene expression

    Access Type: download

  90. Genome-wide chromatin landscape of chemical-induced neural stem cell reprogramming from defined fibroblasts ArrayExpress

    ID: E-GEOD-78977

    Description: g specific transcription factors such as Elk1 and Gli2 that are downstream of M9-induced signaling pathways bind and activate endogenous master neural genes to specify neural identity. Our study therefore provides an effective chemical approach for generating neural stem cells from mouse fibroblasts, and reveals mechanistic insights into underlying reprogramming process. Genome-wide epigenetic changes of H3K4me1, H3K4me3, H3K27me3, and H3K27ac were analyzed by CHIP-seq for tdMEFs from day 0 (ciNSLC), day 4 (D4), day 8 (D8) of M9-induced neural reprogramming, and ciNSLCs and pri-NPC....

  91. Nuclear-localized tiny RNAs are associated with transcription initiation and splice sites in metazoans ArrayExpress

    ID: E-GEOD-20664

    Description: We have recently shown that transcription initiation RNAs (tiRNAs) are derived from sequences downstream of transcription start sites. Here we report ...

  92. FOXF1 promoter-putative enhancer chromatin looping OmicsDI

    ID: E-GEOD-39256

    Date Released: 05-03-2014

    Description: ors a differentially methylated CpG island, binds GLI2 depending on the methylation status of this CpG island, and physically interacts with and up-regulates the FOXF1 promoter, consistent with the absence of the fetal lung-transcribed lncRNA perturbing FOXF1 regulation. LncRNA-mediated chromatin interactions may be responsible for position effect phenomenon and potentially cause many disorders of human development. 4C analysis using 16q24.1 specific 3x720K arrays demonstrated physical interaction between the FOXF1 promoter and distant putative regulatory sequences, about 250 kb upstream in human pulomonary microvascular endothelial cells; 2 biological replicates performed; this chromatin looping was not detected in lymphoblasts that do not express FOXF1 and hence serve as a negative control....

  93. Transcriptome analysis of Stem Cells from Human Umbilical Cord Blood OmicsDI

    ID: E-GEOD-4609

    Date Released: 05-02-2014

    Description: tion of MEK/ERK signaling genes and inhibition of GLI2, a member of the Hedgehog pathway. Most notably, E2-induced CD133+/CD34+ cell expansion was highly associated to regulation of genes disrupted in cancer, such as the recently described DOCK4 and SPARCL1 tumor suppressor genes. Quantitative real-time PCR analysis confirmed down-regulation of DOCK4 and SPARCL1 in E2-treated CD133+/CD34+ cells and parallel results were verified when comparing their expression in mononuclear blood cells of chronic myeloid leukemia patients and healthy individuals. The striking differential expression of cancer-associated genes found reveals potential molecular targets for oncogenic transformation of CD133+/CD34+ cells and strengthens the importance of pre-clinical studies assessing safety of stem cell expansion protocols for therapeutic application. Keywor...

  94. Hedgehog pathway inhibitor saridegib (IPI-926) increases lifespan in a mouse medulloblastoma model OmicsDI

    ID: E-GEOD-37417

    Date Released: 04-30-2012

    Description: rug resistance was neither mutation-dependent nor Gli2 amplification-dependent, and saridegib was found to be active in cells with the D473H point mutation that rendered them resistant to another Smo inhibitor, GDC-0449. The fivefold increase in lifespan in mice treated with saridegib as a single agent compares favorably with both targeted and cytotoxic therapies. The absence of genetic mutations that confer resistance distinguishes saridegib from other Smo inhibitors. P21 to P36 PtcC/C mice were randomized to receive either saridegib (20 mg/kg per dose) for 6 weeks or vehicle control [5% (2-hydroxylpropyl)-β-cyclodextrin (HPBCD)] for 3 weeks administered via daily i.p. injection. Triplicate total RNA samples were collected for each of the two conditions....

  95. Human THP-1 Cells: Uninfected vs. Coxiella burnetii NMII infected compared to Uninfected with Chloramphenicol vs. Coxiella burnetii NMII infected with... BioProject

    ID: PRJNA130821

    Keywords: Transcriptome or Gene expression

    Access Type: download

  96. SMO variants explain the majority of drug resistance in basal cell carcinoma [exome-seq] BioProject

    ID: PRJNA252376

    Keywords: Other

    Access Type: download

    dataset.description: iants respond to the aPKC-ι/λ inhibitor PSI and GLI2 antagonist ATO that operate downstream of SMO. Overall design: Identification of somatic mutations in 14 resistant BCCs along with matched adjacent normal skin using exome sequencing....
  97. Comparison of gene expression changes in AML cells after SMARCA4, SMARCD2 or DPF2 knock-down BioProject

    ID: PRJNA281226

    Keywords: Transcriptome or Gene expression

    Access Type: download

  98. PRJNA379201 BioProject

    Keywords: raw sequence reads

    Access Type: download

  99. Growth Hormone Doping Detection BioProject

    ID: PRJNA93853

    Keywords: Transcriptome or Gene expression

    Access Type: download

  100. PRJNA374459 BioProject

    Keywords: raw sequence reads

    Access Type: download

    dataset.description: n from the mesenchymal progenitors mainly through Gli2 that induces the transcription of multiple Wnt genes. Pharmacological inhibition of Porcupine, an acyltransferase essential for Wnt secretion, alleviates the suppression of adipocyte differentiation by Hh. Thus, targeted activation of the Hh pathway may be an effective approach to combat diet-induced obesity and the associated metabolic diseases....

Displaying 100 of 176 results for "GLI2"