ENAapplication/xmlftp.sra.ebi.ac.uk/vol1/fastq/SRR145/025/SRR14575625/SRR14575625.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR145/021/SRR14575621/SRR14575621.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR145/019/SRR14575619/SRR14575619.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR145/018/SRR14575618/SRR14575618.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR145/022/SRR14575622/SRR14575622.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR145/023/SRR14575623/SRR14575623.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR145/017/SRR14575617/SRR14575617.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR145/016/SRR14575616/SRR14575616.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR145/024/SRR14575624/SRR14575624.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR145/020/SRR14575620/SRR14575620.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR145/026/SRR14575626/SRR14575626.fastq.gzprimaryOK200GenomicsShirsat Lab, Advanced Centre for Treatment, Research and Education in Cancer. Tata Memorial Centrehttps://www.ebi.ac.uk/ena/browser/view/PRJNA730800Homo sapiensRetina-specific gene expression is the distinguishing characteristic of Group 3 medulloblastoma. CRX, a homeobox transcription factor, is overexpressed specifically in Group 3 tumors. ShRNA-mediated CRX knockdown decreased the expression of seveal retina-specific genes and Group 3 specific genes. CRX knockdown inhibited the TGF-beta/activin signaling pathway, which is known to play oncogenic role in a subset of Group 3 medulloblastoma Overall design: Expression of CRX was knocked down in D425 and HD-MB03, Group 3 medulloblastoma cell lines using two independent shRNAs using the Tet-pLKO-puro lentiviral vector. Stable polyclonal populations expressing the shRNA were obtained by transducing the cell lines with the lentiviral particles. Total RNA was prepared from the vector control cells expressing the empty vector and those expressing the shRNA targeting CRX. Libraries were prepared from the polyA-enriched RNA fraction using the Illumina Truseq RNA library preparation kit and sequenced on the Illumina Hiseq platformENAtranscription factor, T-cell leukemia, transforming growth factor beta ligand binding to type I receptor, AGL4, cerebellar medulloblastoma, AtrII, Act-r, pitslre, desmoplastic, DPP-C, TGFbeta-60A, TGFbeta, dmTAF[[II]]230, Hin-d, DmelCG9885, CPNET, RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity, DmelCG7904, Circumscribed Arachnoidal, Medullomyoblastomas, TGFbeta receptor binding, Medulloblastoma, l(2)60A-J, infratentorial primitive neuroectodermal tumour, Desmoplastic Medulloblastomas, Medulloblastomas, Dm-DPP, TFIID TAF250, M(2)23AB, cel, Gbb-60A, F10N7_150, brain medulloblastoma, Adult Medulloblastomas, Adult, Melanocytic Medulloblastomas, RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity, tgfb-60A, activin, Sarcoma, TGF-beta receptor binding, cdk11, signaling process, inhibin, AGAMOUS-like 4, CG4268, atrII, zinc ion regulated proximal promoter sequence-specific DNA binding, sequence-specific transcription regulatory region DNA binding RNA polymerase II transcription factor recruiting transcription factor activity, somatic mutation, TRANSCRIPTION FACTOR, Atr, single organism signaling, RNA polymerase II distal enhancer sequence-specific binding, RNA polymerase II core promoter proximal region sequence-specific binding, dTAF[[II]]230, localized primitive neuroectodermal tumor, Punt, TGF-beta, TAF200, Tg, CG9885, TAFII-250, metal ion regulated sequence-specific DNA binding RNA polymerase II transcription factor activity, CNS PNET, medulloblastomas, somatic, TAF250/230, CG7904, TAFII250, Atr88CD, Atr-II, l(2)22Fa, PUNT, sequence-specific distal enhancer binding RNA polymerase II transcription factor activity, l(3)10460, Cerebellar, Gat, autosomal recessive, Desmoplastic Medulloblastoma, l(2)k17036, shv, F14P3.4, FSH-Releasing, DmelCG4268, Gbb, GBB, 60A, Circumscribed, transforming growth factor beta receptor anchoring activity, F14P3_4, FSH-Releasing Protein, CG17603, TAF[[II]], Transcription factor, Tgfbeta-60A, Taf250, SR3-5, Put, Childhood Medulloblastoma, copper ion regulated core promoter proximal region sequence-specific DNA binding RNA polymerase II transcription factor activity, Gta, metal ion regulated sequence-specific DNA binding, metal ion regulated proximal promoter sequence-specific DNA binding, TAF230, biological signaling, d230, ho, pun, PITSLRE, M(2)LS1, Arachnoidal Cerebellar Sarcoma, gcn, dTAFII250, SEPALLATA 2, EfW1, autosomal dominant, DmelCG5562, zinc ion regulated core promoter proximal region sequence-specific DNA binding, dmTAF1, Taf230, cerebellum embryonal neoplasm, sequence-specific DNA binding, TAF250, Taf200, Dpp, DPP, dTAF[[II]]250, dlhC, cell, Taf1p, blk, dTAF250, BMP, RNA polymerase II proximal promoter sequence-specific DNA binding, copper ion regulated proximal promoter sequence-specific DNA binding, TAF, Childhood Medulloblastomas, Activin, CORD2, l(3)j5A5, TAF[[II]]250, Tgf-r, TGF-b, MDB, malignant, l(3)84Ab, zinc ion regulated core promoter proximal region sequence-specific DNA binding RNA polymerase II transcription factor activity, homeobox 1, CG5562, BG:DS00004.13, medulloblastoma with extensive nodularity, Melanocytic, Cell, dTAF230, transcription factor activity, Tgfb-60, OTX3, medulloblastoma, vgr/60A, FSH Releasing Protein, Crx1, p230, Protein, group 3, RNA polymerase II transcription factor activity, TAF[[II]]250/230, transforming growth factor beta receptor ligand, TFIID, CRD, gbb-60A, metal ion regulated core promoter proximal region sequence-specific DNA binding RNA polymerase II transcription factor activity, KNOTTED1-like homeobox gene 5, Dm-GBB, Taf[[II]]250, transforming growth factor beta, TAF[[II]]230, l(2)10638, Desmoplastic, TAF[II]250, Childhood, sequence-specific DNA binding RNA polymerase II transcription factor activity, Adult Medulloblastoma, metal ion regulated core promoter proximal region sequence-specific binding, copper ion regulated core promoter proximal region sequence-specific binding, localised primitive neuroectodermal tumour, transforming growth factor beta ligand binding to type II receptor, F10N7.150, signalling, infratentorial primitive neuroectodermal tumor, Medullomyoblastoma, DmelCG17603, signalling process, TAF1., TGF-B, LCA7, STK-C, SixtyA, Melanocytic Medulloblastoma, sequence-specific transcription regulatory region DNA bindingtranscription factor, T-cell leukemia, transforming growth factor beta ligand binding to type I receptor, AGL4, cerebellar medulloblastoma, AtrII, Act-r, pitslre, desmoplastic, DPP-C, TGFbeta-60A, TGFbeta, dmTAF[[II]]230, Hin-d, DmelCG9885, CPNET, RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity, DmelCG7904, Circumscribed Arachnoidal, Medullomyoblastomas, TGFbeta receptor binding, Medulloblastoma, l(2)60A-J, infratentorial primitive neuroectodermal tumour, Desmoplastic Medulloblastomas, Medulloblastomas, Dm-DPP, TFIID TAF250, M(2)23AB, cel, Gbb-60A, F10N7_150, brain medulloblastoma, Adult Medulloblastomas, Adult, Melanocytic Medulloblastomas, RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity, tgfb-60A, activin, Sarcoma, TGF-beta receptor binding, cdk11, signaling process, inhibin, AGAMOUS-like 4, CG4268, atrII, zinc ion regulated proximal promoter sequence-specific DNA binding, sequence-specific transcription regulatory region DNA binding RNA polymerase II transcription factor recruiting transcription factor activity, somatic mutation, TRANSCRIPTION FACTOR, Atr, single organism signaling, RNA polymerase II distal enhancer sequence-specific binding, RNA polymerase II core promoter proximal region sequence-specific binding, dTAF[[II]]230, localized primitive neuroectodermal tumor, Punt, TGF-beta, TAF200, Tg, CG9885, TAFII-250, metal ion regulated sequence-specific DNA binding RNA polymerase II transcription factor activity, CNS PNET, medulloblastomas, somatic, TAF250/230, CG7904, TAFII250, Atr88CD, Atr-II, l(2)22Fa, PUNT, sequence-specific distal enhancer binding RNA polymerase II transcription factor activity, l(3)10460, Cerebellar, Gat, autosomal recessive, Desmoplastic Medulloblastoma, l(2)k17036, shv, F14P3.4, FSH-Releasing, DmelCG4268, Gbb, GBB, 60A, Circumscribed, transforming growth factor beta receptor anchoring activity, F14P3_4, FSH-Releasing Protein, CG17603, TAF[[II]], Transcription factor, Tgfbeta-60A, Taf250, SR3-5, Put, Childhood Medulloblastoma, copper ion regulated core promoter proximal region sequence-specific DNA binding RNA polymerase II transcription factor activity, Gta, metal ion regulated sequence-specific DNA binding, metal ion regulated proximal promoter sequence-specific DNA binding, TAF230, biological signaling, d230, ho, pun, PITSLRE, M(2)LS1, Arachnoidal Cerebellar Sarcoma, gcn, dTAFII250, SEPALLATA 2, EfW1, autosomal dominant, DmelCG5562, zinc ion regulated core promoter proximal region sequence-specific DNA binding, dmTAF1, Taf230, cerebellum embryonal neoplasm, sequence-specific DNA binding, TAF250, Taf200, Dpp, DPP, dTAF[[II]]250, dlhC, cell, Taf1p, blk, dTAF250, BMP, RNA polymerase II proximal promoter sequence-specific DNA binding, copper ion regulated proximal promoter sequence-specific DNA binding, TAF, Childhood Medulloblastomas, Activin, CORD2, l(3)j5A5, TAF[[II]]250, Tgf-r, TGF-b, MDB, malignant, l(3)84Ab, zinc ion regulated core promoter proximal region sequence-specific DNA binding RNA polymerase II transcription factor activity, homeobox 1, CG5562, BG:DS00004.13, medulloblastoma with extensive nodularity, Melanocytic, Cell, dTAF230, transcription factor activity, Tgfb-60, OTX3, medulloblastoma, vgr/60A, FSH Releasing Protein, Crx1, p230, Protein, group 3, RNA polymerase II transcription factor activity, TAF[[II]]250/230, transforming growth factor beta receptor ligand, TFIID, CRD, gbb-60A, metal ion regulated core promoter proximal region sequence-specific DNA binding RNA polymerase II transcription factor activity, KNOTTED1-like homeobox gene 5, Dm-GBB, Taf[[II]]250, transforming growth factor beta, TAF[[II]]230, l(2)10638, Desmoplastic, TAF[II]250, Childhood, sequence-specific DNA binding RNA polymerase II transcription factor activity, Adult Medulloblastoma, metal ion regulated core promoter proximal region sequence-specific binding, copper ion regulated core promoter proximal region sequence-specific binding, localised primitive neuroectodermal tumour, transforming growth factor beta ligand binding to type II receptor, F10N7.150, signalling, infratentorial primitive neuroectodermal tumor, Medullomyoblastoma, DmelCG17603, signalling process, TAF1., TGF-B, LCA7, STK-C, SixtyA, Melanocytic Medulloblastoma, sequence-specific transcription regulatory region DNA binding0.00.00.00.00.0falseDownregulation of CRX, a Group 3 specific oncogenic transcription factor, inhibits TGF-b/activin signaling in medulloblastoma cellsDownregulation of CRX, a Group 3 specific oncogenic transcription factor, inhibits TGF-b/activin signaling in medulloblastoma cells2022-06-042021-08-29PRJNA730800GSE174620341926079606