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Effect of Doxorubicin on gene expression of HS578T cells with or without heterozygous chromosomal 17p deletion [scRNA-seq]

ABSTRACT: Effect of Doxorubicin on gene expression of HS578T cells with or without heterozygous chromosomal 17p deletion [scRNA-seq]

PROVIDER: PRJNA907843 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR22509458.fastq.gz	Fastqsanger.gz
	SRR22509459.fastq.gz	Fastqsanger.gz
	SRR22509460.fastq.gz	Fastqsanger.gz
	SRR22509461.fastq.gz	Fastqsanger.gz

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Effect of Doxorubicin on gene expression of HS578T cells with or without heterozygous chromosomal 17p deletion

Project description:Effect of Doxorubicin on gene expression of HS578T cells with or without heterozygous chromosomal 17p deletion

| PRJNA907837 | ENA

Effect of Doxorubicin on gene expression of HS578T cells with or without heterozygous chromosomal 17p deletion [RNA-seq]

Project description:Effect of Doxorubicin on gene expression of HS578T cells with or without heterozygous chromosomal 17p deletion [RNA-seq]

| PRJNA907844 | ENA

Effect of Doxorubicin on gene expression of HS578T cells with or without heterozygous chromosomal 17p deletion [scRNA-seq]

Project description:Our preliminary data found that TNBC cells with Chrom 17p loss are more resistant to chemotherapy drug treatment, compare to cell with 17p intact.To investigate the role of cancer stemness, weg performed this gene expression profiling analysis

2022-12-10 | GSE219275 | GEO

Effect of Doxorubicin on gene expression of HS578T cells with or without heterozygous chromosomal 17p deletion [RNA-seq]

2022-12-10 | GSE219274 | GEO

Effect of Doxorubicin on gene expression of HS578T cells with or without heterozygous chromosomal 17p deletion

Project description:This SuperSeries is composed of the SubSeries listed below.

2022-12-10 | GSE219276 | GEO

Molecular and transcriptional characterization of chromosome 17p loss in chronic lymphocytic leukemia

Project description:Distinct genetic abnormalities such as TP53 deletion at 17p13.1, have been identified as having an adverse prognostic relevance in B-cell chronic lymphocytic leukemia (B-CLL). Conventional cytogenetic studies have shown that TP53 deletion in B-CLL is associated predominantly with 17p loss resulting from complex chromosomal rearrangements. We performed genome-wide DNA (SNPs arrays), fluorescence in situ hybridization (FISH) and gene expression profiling (GEP) analyses to investigate the significance of 17p loss in a panel of 71 genetically well-characterized B-CLLs in Binet stage A, 18 of which carried a TP53 monoallelic deletion. Combined SNP arrays and FISH approaches showed 17p loss in all of the TP53-deleted cases, with breakpoints scattered along the 17p11.2 region. Mutations in exons 5 to 9 of TP53 were found in 9/12 deleted samples. GEP of 60 B-CLLs, including 7 patients with 17p loss, identified 40 differentially expressed genes in 17p- versus 17p normal samples, 35 of which were down-regulated in 17p- tumors. The majority (30/35) of these transcripts, including putative tumor suppressor genes, mapped to 17p. Overall, these data indicate that, beside TP53 deletion, the concomitant loss of 17p arm may contribute to the strong negative prognostic impact known to be associated with this lesion in B-CLL. This SuperSeries is composed of the SubSeries listed below.

2008-11-11 | GSE11038 | GEO

Molecular and transcriptional characterization of chromosome 17p loss in chronic lymphocytic leukemia, experiment B

Project description:Distinct genetic abnormalities such as TP53 deletion at 17p13.1, have been identified as having an adverse prognostic relevance in B-cell chronic lymphocytic leukemia (B-CLL). Conventional cytogenetic studies have shown that TP53 deletion in B-CLL is associated predominantly with 17p loss resulting from complex chromosomal rearrangements. We performed genome-wide DNA (SNPs arrays), fluorescence in situ hybridization (FISH) and gene expression profiling (GEP) analyses to investigate the significance of 17p loss in a panel of 71 genetically well-characterized B-CLLs in Binet stage A, 18 of which carried a TP53 monoallelic deletion. Combined SNP arrays and FISH approaches showed 17p loss in all of the TP53-deleted cases, with breakpoints scattered along the 17p11.2 region. Mutations in exons 5 to 9 of TP53 were found in 9/12 deleted samples. GEP of 60 B-CLLs, including 7 patients with 17p loss, identified 40 differentially expressed genes in 17p- versus 17p normal samples, 35 of which were down-regulated in 17p- tumors. The majority (30/35) of these transcripts, including putative tumor suppressor genes, mapped to 17p. Overall, these data indicate that, beside TP53 deletion, the concomitant loss of 17p arm may contribute to the strong negative prognostic impact known to be associated with this lesion in B-CLL. Keywords: genomic analysis of B-CLL with 17p loss patients

2008-11-11 | GSE11036 | GEO

Molecular and transcriptional characterization of chromosome 17p loss in chronic lymphocytic leukemia, experiment A

Project description:Distinct genetic abnormalities such as TP53 deletion at 17p13.1, have been identified as having an adverse prognostic relevance in B-cell chronic lymphocytic leukemia (B-CLL). Conventional cytogenetic studies have shown that TP53 deletion in B-CLL is associated predominantly with 17p loss resulting from complex chromosomal rearrangements. We performed genome-wide DNA (SNPs arrays), fluorescence in situ hybridization (FISH) and gene expression profiling (GEP) analyses to investigate the significance of 17p loss in a panel of 71 genetically well-characterized B-CLLs in Binet stage A, 18 of which carried a TP53 monoallelic deletion. Combined SNP arrays and FISH approaches showed 17p loss in all of the TP53-deleted cases, with breakpoints scattered along the 17p11.2 region. Mutations in exons 5 to 9 of TP53 were found in 9/12 deleted samples. GEP of 60 B-CLLs, including 7 patients with 17p loss, identified 40 differentially expressed genes in 17p- versus 17p normal samples, 35 of which were down-regulated in 17p- tumors. The majority (30/35) of these transcripts, including putative tumor suppressor genes, mapped to 17p. Overall, these data indicate that, beside TP53 deletion, the concomitant loss of 17p arm may contribute to the strong negative prognostic impact known to be associated with this lesion in B-CLL. Keywords: transcriptional analysis of B-CLL with 17p loss patients

2008-11-11 | GSE9992 | GEO

Molecular and transcriptional characterization of chromosome 17p loss in chronic lymphocytic leukemia

2008-11-11 | E-GEOD-11038 | biostudies-arrayexpress

COX-2/PGE2 upregulation contributes to the chromosome 17p-deleted lymphoma

Project description:Chromosome 17p deletions are one of the most frequent chromosomal alterations in human cancers and also lymphoma. Although it has been assumed to be equal to p53 loss for a long time, there are emerging evidence suggesting that there would be additional p53–independent mechanisms. Our previous work identified ALOX15B, an arachidonate lipoxygenase, as a 17p tumor suppressor in lymphoma. Interestingly, five of the six ALOX genes locate on this region and frequently co-deleted with TP53. Among them, ALOX15B, ALOX12B and ALOXE3 are adjacent to one another and proximal to the centromere relative to TP53, while ALOX12 and ALOX15 are distal to the centromere relative to TP53. Herein, we show that each of the five 17p ALOX genes repress Myc-driven lymphomagenesis in mice. Mechanistically, deficiency of the ALOX arachidonate metabolism pathway activates the paralleling COX-PGE2 pathway, resulting in increasing PTGS2 expression and PGE2 level. PGE2 prevents apoptosis of pre-B cells and Ptgs2 knockdown extends the latency of Myc;shAlox15b lymphoma in vivo. Further, shAlox15b lymphoma cells are more sensitive to COX-2 inhibitor celecoxib than control lymphoma cells. Importantly, the ALOX-COX metabolism unbalance is also observed in human cancers with del(17p). Taken together, our studies reveal the tumor suppression functions of all of the five ALOX genes on chromosome 17p in lymphoma and an unprecedented arachidonate metabolism unbalance between the ALOX and COX pathways underlying human cancers with 17p deletions.

2022-12-21 | GSE147264 | GEO

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