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Diagnostic miniarray of childhood acute lymphoblastic leukemia (ALL)

ABSTRACT: We developed and validated a diagnostic miniarray to recognize different subtypes of ALL. We analyzed blindly the gene expression profiling of 17 patients: 10 ALL-B, 5 ALL-T and 2 MLL/AF4. This miniarray was able to assign all samples to the correct class. We compared the transcription profiles of the leukemic samples by miniarray competitive hybridisation against an arbitrary total RNA reference prepared from normal human bone marrow. ALL-B patients: GSM50368, GSM50369, GSM50370, GSM50371, GSM50372, GSM50373, GSM50374, GSM50375, GSM50376, GSM50377 ALL-T patients: GSM50379, GSM50380, GSM50381, GSM50382, GSM50383 ALL-B patients with the specific chromosomal aberration MLL/AF4: GSM50384, GSM50385 Keywords = Acute lymphoblastic leukemia Keywords = human bone marrow Keywords = transcriptional profiling Keywords = miniarray Reference: Haematologica 2005;90:890-898 Keywords: ordered

ORGANISM(S): Homo sapiens

PROVIDER: GSE2617 | GEO | 2005/07/04

SECONDARY ACCESSION(S): PRJNA92081

REPOSITORIES: GEO

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Gene expression profiling of children affected by acute lymphoblastic leukemia

Project description:We have examined gene expression profiling of 18 children with acute lymphoblastic leukemia (ALL). In particular, the ALL patients are subdivided in three different subtypes by morphological, immunophenotypic and cytogenetical parameters: 10 ALL-B, 5 ALL-T and 3 ALL-B with the specific chromosomal aberration MLL/AF4. We compared the transcription profiles of the leukemic samples by microarray competitive hybridization against an arbitrary total RNA reference prepared from normal human bone marrow. Two replicates of each experiment were done using different microarray slides, in which the sample and reference RNAs labeled either with Cy3 or Cy5 fluorochromes were crossed in both combinations. ALL-B patients: GSM49966, GSM49967, GSM49969, GSM49970, GSM49971, GSM49972, GSM49973, GSM49974, GSM49976, GSM49977, GSM49978, GSM49979, GSM49980, GSM49981, GSM49982, GSM49983, GSM49984, GSM49985, GSM49986, GSM49987 ALL-T patients: GSM49988, GSM49989, GSM49990, GSM49991, GSM49992, GSM49993, GSM49994, GSM49995, GSM49996, GSM49997 ALL-B patients with the specific chromosomal aberration MLL/AF4: GSM49999, GSM50001, GSM50004, GSM50005, GSM50006, GSM50007 Keywords = Acute lymphoblastic leukemia (ALL) Keywords = human bone marrow Keywords = gene expression profiling Reference: Haematologica 2005;90:890-898 Keywords: ordered

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Gene expression analysis of leukemic samples in C57BL6 mice

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Transcription profiling of mouse activated or control 5-FU bone marrow from MLL-AF4stop knockins

Project description:We created a mouse model where conditional expression of physiologic levels of an Mll-AF4 fusion oncogene induces development of acute lymphoblastic (ALL) or acute myeloid leukemias (AML). Immunophenotypic and gene expression analysis of the ALL cells demonstrated bone marrow replacement with B-precursor cells which express a gene expression profile that has significant overlap with profiles in human MLL-rearranged ALL. To examine early, pre-leukemic changes in lymphoid cells due to Mll-AF4 expression, we infected 5-FU bone marrow cells from Mll-AF4stop knocking mice with activating (Cre-GFP) or control (MIF-GFP) retrovirus ex vivo and measured expression changes after culture under lymphoid growth conditions. Experiment Overall Design: Mll-AF4stop knock-in mice were treated with 5-FU and 5 days later their bone marrow infected ex vivo with either Cre-GFP to activate the Mll-AF4 fusion construct or with a control MIG-Cre retrovirus. GFP+ cells were sorted 2 days post-infection and cultured for 14 days under lymphoid growth conditions before total RNA was isolated for hybridization to Affymetrix expression microarrays.

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Gene Expression Profiling of the MLL-AF4 and Flt3 tyrosine kinase domain (TKD) genes in 32Dc cell

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Remodeling of the DNA methylation landscape of CD34+ cells from fetal liver / cord blood upon upon CRISPR mediated t(4:11) rearrangements.

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