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Affymetrix SNP array data for acute lymphoblastic leukemia and lymphoblastic lymphoma samples

ABSTRACT: Childhood T-cell malignancies include T-cell acute lymphoblastic leukemia (T-ALL) and T-cell lymphoblastic lymphoma (T-LBL). T-ALL and T-LBL share common morphologic and immunophenotypic features and are treated with similar therapeutic approaches. Nonetheless, they show distinct clinical presentations suggesting that they may represent two different biological entities. In order to investigate the common and unique genetic aberrations of T-LBL and T-ALL, copy number alteration (CNA) analysis was performed on a subset of the samples analyzed by GEP

ORGANISM(S): Homo sapiens

PROVIDER: GSE30319 | GEO | 2012/06/30

SECONDARY ACCESSION(S): PRJNA143553

REPOSITORIES: GEO

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Affymetrix SNP array data for acute lymphoblastic leukemia and lymphoblastic lymphoma samples

Project description:Childhood T-cell malignancies include T-cell acute lymphoblastic leukemia (T-ALL) and T-cell lymphoblastic lymphoma (T-LBL). T-ALL and T-LBL share common morphologic and immunophenotypic features and are treated with similar therapeutic approaches. Nonetheless, they show distinct clinical presentations suggesting that they may represent two different biological entities. In order to investigate the common and unique genetic aberrations of T-LBL and T-ALL, copy number alteration (CNA) analysis was performed on a subset of the samples analyzed by GEP Affymetrix SNP arrays were performed according to the manufacturer's directions on DNA extracted from diagnostic bone marrow aspirates or tumor tissue samples. Copy number analysis of Affymetrix 100K SNP arrays was performed for 9 T-ALL and 9 T-LBL pediatric samples. The samples from leukemia/lymphoma remission were used as references for copy number inference.

2012-06-29 | E-GEOD-30319 | biostudies-arrayexpress

gene expression analyses of pediatric lymphoblastic lymphomas and leukemias

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gene expression analyses of pediatric lymphoblastic lymphomas and leukemias

2012-06-01 | GSE29986 | GEO

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Project description:T-cell lymphoblastic lymphoma T-LBL is a rare aggressive neoplasm of precursor T cells whose pathogenesis is not fully elucidated and it is closely related to acute lymphoblastic leukemia (T-ALL), the most common subtype of cancer in children, although recent studies suggest biological differences between the two entities.

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Global genetic profiling of a pediatric series of T-cell lymphoblastic lymphoma [Cytoscan]

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Genomic profiling data of 19 pediatric lympohoblastic lymphoma patients

Project description:Lymphoblastic lymphoma (LBL) is one of the most frequent occurring pediatric non-Hodgkin lymphomas. In the WHO classification scheme pediatric LBL is considered to be the same disease entity as pediatric acute lymphoblastic leukemia (ALL). However, it is unclear whether the genetic basis of pediatric LBL development is similar to that of pediatric ALL. We performed genome-wide analyses of copy number aberrations in 12 T-LBL and 7 precursor B-cell LBL pediatric cases using high-resolution SNP-based array CGH. Similar to what previously has been found in T-ALLs, T-LBLs exhibited recurrent deletions of the CDKN2A locus, occurring in 92% of the cases. Additionally, we detected deletions of RB1 (16%), duplications of MYB (16%) and an amplification of ABL1 in one case. These results show that, similar to T-ALL, the genomic alterations in T-LBL predominantly target genes involved in cell cycle progression. The majority of precursor B-cell LBLs was characterized by high-hyperdiploidy (71%), and showed high resemblance with high-hyperdiploid precursor B-cell ALLs. These results show that, similar to T-ALL, the genomic alterations in T-LBL predominantly target genes involved in cell cycle progression and that high-hyperdiploidy is a commen event in B-LBL. Taken together, our data suggest that pediatric LBLs and ALLs exhibit similar genomic abnormalities within confined immunophenotypic and cytogenetic subgroups, but that the representations of these subgroups differs between the two entities. Copy number detection was performed using CNAG2.0 software, Reference genomes are included in this data set Keywords: comparative genome hybridization

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Project description:Genome-wide DNA methylation profiling of relapse and relapse-free T-cell lymphoblastic lymphoma (T-LBL) samples. The Illumina 850k Human DNA methylation EPIC BeadChip was used to obtain DNA methylation profiles across approximately 850,000 CpGs in T-LBL samples. Samples included 21 relapse T-LBL samples, and 28 relapse-free T-LBL samples.

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2018-04-25 | GSE109231 | GEO

small-RNA-Seq in human T-cell lymphoblastic lymphoma samples and control thymuses

Project description:Precursor T-cell lymphoblastic neoplasms are aggressive haematological neoplasm that most often manifest with extensive marrow and blood affectation (T-cell acute lymphoblastic leukaemia or T-ALL) or less commonly as a thymic mass with limited bone marrow infiltration (T-cell lymphoblastic lymphoma or T-LBL). Here we show data from small-RNA-Seq in a sample series of T-LBL from Spanish patients.The goal was to determine the levels of expression of coding genes and microRNAs, and to identify all genetic variants including SNVs, indels, and fusion transcripts.

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