GEO DataSets

(Submitter supplied) The secondary genetic events associated with follicular lymphoma (FL) progression are not well defined. We applied genome-wide BAC array comparative genomic hybridization to 106 diagnostic biopsies of FL to characterize regional genomic imbalances. Using an analytical approach that defined regions of copy number change as intersections between visual annotations and a Hidden Markov model-based algorithm, we identified 71 regional alterations that were recurrent in ≥10% of cases. more...

Organism:

Homo sapiens

Type:

Genome variation profiling by genome tiling array

Platform:

GPL2616

106 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens

Type:

Genome variation profiling by SNP array; Expression profiling by array

Platforms:

GPL570 GPL3718

319 Samples

Download data: CEL

(Submitter supplied) We studied 277 lymphoma samples (198 FL and 79 transformed FL [tFL]) using a single-nucleotide polymorphism array to identify the secondary chromosomal abnormalities that drive the development of FL and its transformation to diffuse large B-cell lymphoma. This dataset is corresponding Gene expression data that is available for a subset of the tFL cases for Series GSE67385.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

42 Samples

Download data: CEL

(Submitter supplied) We studied 277 lymphoma samples (198 FL and 79 transformed FL [tFL]) using a single-nucleotide polymorphism array to identify the secondary chromosomal abnormalities that drive the development of FL and its transformation to diffuse large B-cell lymphoma.

Organism:

Homo sapiens

Type:

Genome variation profiling by SNP array

Platform:

GPL3718

277 Samples

Download data: CEL

(Submitter supplied) We investigated the biological features of FL and their relationship to patients’ outcome. Gene expression analysis was carried out on diagnosis biopsies from 148 follicular lymphoma patients enrolled in the PRIMA clinical trial. We developed a gene expression-based predictor of progression-free survival (PFS) in high-tumour burden FL patients and we analysed gene-expression signatures reflecting different aspects of tumour biology for their association with outcome. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

149 Samples

Download data: CEL

(Submitter supplied) Transformation of follicular lymphoma (FL) to a more aggressive disease is associated with rapid progression and death. Existing molecular markers for transformation are few and their clinical impact is limited. Here, we report on a whole-genome study of DNA copy numbers and gene expression profiles in serial FL biopsies. We identified 698 genes with high correlation between gene expression and copy number and the molecular network most enriched for these cis-associated genes. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS4975

Platform:

GPL570

81 Samples

Download data: CEL

Analysis of lymph node tumor from follicular lymphoma (FL) and higher grade diffuse large B-cell lymphoma (DLBCL) patients. Transformation of FL to a more aggressive disease is often followed by rapid progression and death. Results provide insight into the molecular basis of FL transformation.

Organism:

Homo sapiens

Type:

Expression profiling by array, transformed count, 5 disease state sets

Platform:

GPL570

Series:

GSE53820

81 Samples

Download data: CEL

(Submitter supplied) Pediatric-type follicular lymphoma (PTFL) is a variant of FL with distinctive clinico-pathological features. Patients are predominantly young males presenting with localized lymphadenopathy; the tumor shows high grade cytology and lacks both BCL2 expression and t(14;18) translocation. The genetic alterations involved in the pathogenesis of PTFL are not known.

Organism:

Homo sapiens

Type:

Genome variation profiling by SNP array

Platforms:

GPL18602 GPL21558

46 Samples

Download data: CEL, OSCHP, XLSX

(Submitter supplied) BACKGROUND AND OBJECTIVES: Low-grade B-cell lymphomas include several subtypes of tumors with different degrees of histological, biological or clinical features. Differential diagnosis is frequently compromised by the lack of specific cytogenetic or molecular features. As a consequence, therapies remain in many lymphoma types largely based in common protocols with largely variable success. Our objectives were to describe and to compare the genomic profile of a series of samples from the most prevalent low-grade lymphoma subtypes; all of them systematically analyzed with the same approach. more...

Organism:

Homo sapiens

Type:

Genome variation profiling by genome tiling array

Platform:

GPL2879

87 Samples

Download data: TXT

(Submitter supplied) Background: Follicular lymphoma (FL) is a clinically and genetically heterogeneous disease. The prognostic value of somatic mutations has not been systematically evaluated and no genetic factors have been identified that distinguish patients at highest risk of treatment failure. Methods: We performed deep sequencing of 74 genes in 151 patients treated with R-CHOP from a phase III trial. Mutations and clinical factors were incorporated into a risk model using multivariable L1-penalized Cox regression. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL13938

138 Samples

Download data: TXT

(Submitter supplied) Since follicular lymphoma (FL) grade 3A often coexist with a FL1/2 component a linear progression model of FL1, FL2 and FL3A has been developed. FL3B, on the other hand, is supposed to be more closely related to diffuse large B-cell lymphoma (DLBCL) and both FL3B and DLBCL are often simultaneously present in one tumor (DLBCL/FL3B). To obtain more detailed insight into FL progression, comprehensive analysis of a well-defined set of FL1/2 (n=22), FL3A (n=16), FL3B (n=6), DLBCL/FL3B (n=9) and DLBCL (n=45) was performed using gene expression profiling, immunohistochemical staining and genetic analysis by fluorescence in situ hybridization (FISH).

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL96

84 Samples

Download data: CEL

(Submitter supplied) Whole-genome screening of DNA-copy number changes by array-based or matrix comparative genomic hybridization (matrix-CGH). Keywords: Repeat sample.

Organism:

Homo sapiens

Type:

Genome variation profiling by genome tiling array

Platform:

GPL2920

68 Samples

Download data

(Submitter supplied) Whole-genome BAC-array. Isolated BAC-DNA was amplified by two-step DOP-PCR. PCR products were dissolved in 3xSSC, 1.5M betaine and spotted as triplicates on epoxysilane-coated slides.

Organism:

Homo sapiens

1 Series

68 Samples

Download data

(Submitter supplied) Fallopian tube carcinoma (FTC) is a rare, poorly studied and aggressive cancer, associated with poor survival. Since tumorigenesis is related to acquisition of genetic changes, we used genome-wide array CGH to analyze copy number aberrations occurring in FTC in order to obtain a better understanding of FTC carcinogenesis and to identify prognostic events and targets for therapy. We used arrays of 2464 genomic clones, providing ~1.4 Mb resolution across the genome to quantitatively map genomic DNA copy number aberrations from fourteen FTC onto the human genome sequence. more...

Organism:

Homo sapiens

Type:

Genome variation profiling by genome tiling array

Platform:

GPL4896

14 Samples

Download data: TXT