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GenomicsGenome-wide mutation analysis of germinal-center B-cell derived lymphomas within the ICGC MMML-Seq Consortium
Germinal-center B-cell derived lymphomas (GCB-lymphomas) are the most common B-cell lymphomas in children and adults, with Burkitt Lymphomas (BL) predominating in childhood and follicular lymphoma (FL) and diffuse large B-cell lymphomas (DLBCL) predominating in older age groups. The cell-of-origin i...
EGAS00001000394 | EGA
TranscriptomicsSNP array detection for comparison of WGS technologies.
We sequenced two tumor/normal pairs obtained from two paediatric medulloblastoma patients (MB14 and MB24) with at least 30x coverage on all commonly used next-generation sequencing platforms for whole genome sequencing (SOLiD 4, 5500xl SOLiD, Illumina's HiSeq2000, and Complete Genomic' technology). ...
ORGANISM(S): Homo sapiens 
2013-06-01 | E-MTAB-1159 | biostudies-arrayexpress
TranscriptomicsMethylation profiling by array of a solitary Peutz-Jeghers colon polyp in a healthy individual
Colon polyps represent precursor lesions of colon cancers and their malignant potential varies according to histological subtype. A rare subtype of colon polyps is the Peutz-Jeghers (PJ) polyp. PJ polyps mostly occur in the context of Peutz-Jeghers Syndrome which is characterized by the development ...
ORGANISM(S): Homo sapiens 
2017-01-23 | E-MTAB-5255 | biostudies-arrayexpress
Genomicsena-DATASET-DKFZ-IBIOS-29-08-2014-08:27:40:831-1015 - samples
Whole-exome sequencing of a chronic lymphocytic leukemia (CLL) developed during vemurafenib treatment of a patient with malignant melanoma. Peripheral blood mononuclear cells were separated by Ficoll gradient centrifugation. DNA was extracted from highly purified (>97%) CD19+CD5+ cells obtained from...
EGAD00001000997 | EGA
Genomicsena-DATASET-DKFZ-IBIOS-28-05-2015-11:13:32:451-82 - samples
Mutations that activate the RAF-MEK-ERK signaling pathway, in particular BRAFV600E, occur in many cancers, and mutant BRAF-selective inhibitors have clinical activity in these diseases. Activating BRAF alleles are usually considered to be mutually exclusive with mutant RAS, whereas inactivating muta...
EGAD00001001384 | EGA
GenomicsDATA_SET_Coverage_bias_sensitivity_of_variant_calling_for_4_WG_seq_tech - samples
DATA_SET_Coverage_bias_sensitivity_of_variant_calling_for_4_WG_seq_tech
EGAD00001000174 | EGA
GenomicsDKFZ-HIPO Project H021/NCT MASTER
Clinical genome and transcriptome sequencing in younger adults with advanced-stage cancer across all histologies: DKFZ-HIPO Project H021 (http://www.hipo-heidelberg.org/hipo2/index.php/menu-item-2/32-021-prospective-genetic-characterization-of-tumors-from-individual-patients-of-special-interest) / N...
EGAS00001000948 | EGA
GenomicsCoverage bias and sensitivity of variant calling for four whole-genome sequencing technologies
Massively parallel sequencing has revolutionized research in cancer genetics and genomics and enhanced our understanding of natural human genetic variation. Recently, Lam et al. have performed a detailed comparison of two next-generation sequencing technologies with respect to their sensitivity to c...
EGAS00001000274 | EGA
GenomicsWGSeq_HealthyHuman_DATA_SET_xmas_MB_2013_07_10 - samples
HSC73_clone: Bone marrow mononuclear cells from the healthy 73 years old female were thawed and labeled with Alexa-Fluor 488-conjugated anti-CD34 (581, Biolegend), Alexa-Fluor 700-conjugated anti-CD38 (HIT2, eBioscience), a cocktail of APC-conjugated lineage antibodies consisting of anti-CD4 (RPA-T4...
EGAD00001000666 | EGA
GenomicsWGSeq_PreMalignant_DATA_SET_xmas_MB_2013_07_10 - samples
Illumina HiSeq sequence data (with >30x coverage) were aligned to the hg19 human reference genome assembly using BWA (Li and Durbin, 2009); duplicate reads were removed from the final BAM file. No realignment or recalibration was performed. Sample derived from secondary myelodysplastic syndrome (MDS...
EGAD00001000665 | EGA
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