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Transcription profiling of human ALL patients, first bone marrow relapse with or without initial diagnosis

ABSTRACT: This SuperSeries comprises the following subset Series:; GSE3910: 35 patients at diagnosis and relapse; GSE3911: 60 samples obtained at relapse Experiment Overall Design: Refer to individual Series

ORGANISM(S): Homo sapiens

SUBMITTER: Deepa Bhojwani

PROVIDER: E-GEOD-3912 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Biologic pathways associated with relapse in childhood acute lymphoblastic leukemia: a Children's Oncology Group study.

Bhojwani Deepa D Kang Huining H Moskowitz Naomi P NP Min Dong-Joon DJ Lee Hokyung H Potter Jeffrey W JW Davidson George G Willman Cheryl L CL Borowitz Michael J MJ Belitskaya-Levy Ilana I Hunger Stephen P SP Raetz Elizabeth A EA Carroll William L WL

Blood 20060701 2

Outcome for children with childhood acute lymphoblastic leukemia (ALL) who relapse is poor. To gain insight into the mechanisms of relapse, we analyzed gene-expression profiles in 35 matched diagnosis/relapse pairs as well as 60 uniformly treated children at relapse using the Affymetrix platform. Matched-pair analyses revealed significant differences in the expression of genes involved in cell-cycle regulation, DNA repair, and apoptosis between diagnostic and early-relapse samples. Many of these ...[more]

PMID: 16822902

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Transcription profiling of human ALL - 35 patients at diagnosis and relapse

Project description:35 paired samples from initial diagnosis and first marrow relapse. Genes and pathways differentiating diagnosis and relapse were identified. Potential therapeutic targets were also identified. Experiment Overall Design: 35 patients with samples from initial diagnosis and first marrow relapse.

2008-06-12 | E-GEOD-3910 | biostudies-arrayexpress

Transcription profiling of human ALL patients with first bone marrow relapse

Project description:Gene expression profiles were analyzed from 60 children with first bone marrow relapse. Genes and pathways differentiating early vs. late relapse were identified. Signatures predicting early response to therapy were also identified. Experiment Overall Design: 60 patients at relapse were analyzed

2008-06-13 | E-GEOD-3911 | biostudies-arrayexpress

Expression data from ALL diagnosis and relapse pediatric acute lymphoblastic leukemia cases

Project description:There is a distinct signature of differentially expressed probes from diagnosis to relapse Gene expression profiles of pediatric patients with B-precursor ALL were compared to at 2 time points, diagnosis and relapse. The overall design was a comparison of gene expression at diagnosis and relapse within individual patients. A subset analysis (comparing diagnosis to relapse expression within individuals), was done for early relapse (less than 36 months) cases only and late relapse (greater than 36 months) cases only.

2011-09-23 | E-GEOD-28460 | biostudies-arrayexpress

First bone marrow relapse with or without initial diagnosis

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

2006-03-20 | GSE3912 | GEO

Diagnosis-relapse in ALL

Project description:Almost a quarter of pediatric patients with Acute Lymphoblastic Leukemia (ALL) suffer from relapses. The biological mechanisms underlying therapy response and development of relapses have remained unclear. In an attempt to better understand this phenomenon, we have analyzed 41 matched diagnosis relapse pairs of ALL patients using genomeâ??wide expression arrays (82 arrays) on purified leukemic cells. In roughly half of the patients very few differences between diagnosis and relapse samples were found (â??stable groupâ??), suggesting that mostly extra-leukemic factors (e.g., drug distribution, drug metabolism, compliance) contributed to the relapse. Therefore, we focused our further analysis on 20 samples with clear differences in gene expression (â??skewed groupâ??), reasoning that these would allow us to better study the biological mechanisms underlying relapsed ALL. After finding the differences between diagnosis and relapse pairs in this group, we identified four major gene clusters corresponding to several pathways associated with changes in cell cycle, DNA replication, recombination and repair, as well as B cell developmental genes. We also identified cancer genes commonly associated with colon carcinomas and ubiquitination to be upregulated in relapsed ALL. Thus, about half of relapses are due to selection or emergence of a clone with deregulated expression of a genes involved in pathways that regulate B cell signaling, development, cell cycle, cellular division and replication. The study contains 41 pairs of samples taken from patients at diagnosis and relapse (a total of 82 arrays).

2010-03-23 | E-GEOD-18497 | biostudies-arrayexpress

Diagnosis-relapse in ALL

Project description:Almost a quarter of pediatric patients with Acute Lymphoblastic Leukemia (ALL) suffer from relapses. The biological mechanisms underlying therapy response and development of relapses have remained unclear. In an attempt to better understand this phenomenon, we have analyzed 41 matched diagnosis relapse pairs of ALL patients using genome–wide expression arrays (82 arrays) on purified leukemic cells. In roughly half of the patients very few differences between diagnosis and relapse samples were found (“stable group”), suggesting that mostly extra-leukemic factors (e.g., drug distribution, drug metabolism, compliance) contributed to the relapse. Therefore, we focused our further analysis on 20 samples with clear differences in gene expression (“skewed group”), reasoning that these would allow us to better study the biological mechanisms underlying relapsed ALL. After finding the differences between diagnosis and relapse pairs in this group, we identified four major gene clusters corresponding to several pathways associated with changes in cell cycle, DNA replication, recombination and repair, as well as B cell developmental genes. We also identified cancer genes commonly associated with colon carcinomas and ubiquitination to be upregulated in relapsed ALL. Thus, about half of relapses are due to selection or emergence of a clone with deregulated expression of a genes involved in pathways that regulate B cell signaling, development, cell cycle, cellular division and replication.

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35 patients at diagnosis and relapse

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7 paired AML Diagnosis vs Relapse patient samples

Project description:MS-based proteomics and phosphoproteomics study based on 7 paired diagnosis-first relapse AML patient samples

2020-06-12 | PXD018359 | Pride

Integrated Genomic Analysis of Relapsed Childhood Acute Lymphoblastic Leukemia reveals therapeutic strategies

Project description:This SuperSeries is composed of the following subset Series: GSE28460: Expression data from ALL diagnosis and relapse pediatric acute lymphoblastic leukemia cases GSE28461: Promoter methylation data from ALL diagnosis and relapse pediatric acute lymphoblastic leukemia cases Refer to individual Series

2011-09-22 | E-GEOD-28462 | biostudies-arrayexpress

Transcriptome analysis of AML samples at diagnosis and relapse after Hematopoietic Stem Cell Transplantation (HSCT)

Project description:Transcriptome profiling of Acute Myeloid Leukemia samples. This dataset includes patients with diagnosis of de novo or secondary AML who experienced non-HLA loss disease relapse after allo-HCT, and for whom paired pre- and post-transplant viable leukemic samples were available.

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