title: 0064f_hd

description: 50K Hind Array data

source_name: Unaffected biological father of mentally retarded child 0064c (child).


title: 9299f_xb

status: Public on Mar 12 2007

type: genomic

city: Vancouver

first: BCGSC

last: BC Cancer Agency

state: BC

address: 675 West 10th Avenue

department: Gene Expression

country: Canada

institute: Canada's Michael Smith Genome Sciences Centre

description: 50K Xba Array data

hyb_protocol: Hybridization, washes and staining were performed as described in the Affymetrix GeneChip® Mapping 100K Assay Manual (www.affymetrix.com). Samples were hybridized to GeneChip® Human Mapping 50K Xba240 or Hind240 arrays in an Affymetrix Hybridization Oven 640. Washes and staining of the arrays were performed with an Affymetrix Fluidics Station 450.

scan_protocol: Array images were obtained using an Affymetrix GeneChip® Scanner 3000, as described in the Affymetrix GeneChip® Mapping 100K Assay Manual (www.affymetrix.com).

data_processing: Mapping algorithm settings: Gtype(dm) heterozygote call threshold= 0.25, homozygote call threshold=0.25

label: Biotin with Streptavidin, R-phycoerythrin conjugate (SAPE).

molecule: genomic DNA

organism: Homo sapiens

source_name: Unaffected biological father of mentally retarded child 9299c (child).

label_protocol: Labeling was performed according to the Affymetrix GeneChip® Mapping 100K Assay Manual (www.affymetrix.com).

extract_protocol: Genomic DNA was isolated from whole blood using the Puregen Gentra® DNA Purification Kit following the manufacturer's protocol.

tag: Tissue

value: whole blood


title: 9263m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 9263c (child).


title: 9263f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 9263c (child).


title: 9236m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 9236c (child).


title: 9236c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 9236m (mother) and 9236f (father).


title: 9143m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 9143c (child).


title: 9143c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 9143m (mother) and 9143f (father).


title: 9263c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 9263m (mother) and 9263f (father).


title: 9143f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 9143c (child).


title: 0167c_hd

description: 50K Hind Array data

source_name: Mentally retarded child of unaffected biological parents 0167m (mother) and 0167f (father).


title: 8939f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 8939c (child).


title: 8939c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 8939m (mother) and 8939f (father).


title: 8565m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 8565c (child).


title: 8785c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 8785m (mother) and 8785f (father).


title: 9042m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 9042c (child).


title: 8939m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 8939c (child).


title: 9042f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 9042c (child).


title: 0091m_hd

description: 50K Hind Array data

source_name: Unaffected biological mother of mentally retarded child 0091c (child).


title: 8785f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 8785c (child).


title: 8565c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 8565m (mother) and 8565f (father).


title: 9042c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 9042m (mother) and 9042f (father).


title: 8565f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 8565c (child).


title: 0064c_hd

description: 50K Hind Array data

source_name: Mentally retarded child of unaffected biological parents 0064m (mother) and 0064f (father).


title: 8541m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 8541c (child).


title: 8541f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 8541c (child).


title: 0134m_hd

description: 50K Hind Array data

source_name: Unaffected biological mother of mentally retarded child 0134c (child).


title: 8552f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 8552c (child).


title: 8552c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 8552m (mother) and 8552f (father).


title: 0064m_hd

description: 50K Hind Array data

source_name: Unaffected biological mother of mentally retarded child 0064c (child).


title: 8531m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 8531c (child).


title: 8531f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 8531c (child).


title: 8531c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 8531m (mother) and 8531f (father).


title: 8005m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 8005c (child).


title: 8541c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 8541m (mother) and 8541f (father).


title: 8326c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 8326m (mother) and 8326f (father).


title: 8326m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 8326c (child).


title: 8379m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 8379c (child).


title: 9962f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 9962c (child).


title: 8005f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 8005c (child).


title: 8379c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 8379m (mother) and 8379f (father).


title: 8552m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 8552c (child).


title: 7807f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 7807c (child).


title: 7690m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 7690c (child).


title: 9236f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 9236c (child).


title: 8326f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 8326c (child).


title: 7807m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 7807c (child).


title: 7690f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 7690c (child).


title: 8005c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 8005m (mother) and 8005f (father).


title: 7690c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 7690m (mother) and 7690f (father).


title: 9299c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 9299m (mother) and 9299f (father).


title: 7551f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 7551c (child).


title: 7353f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 7353c (child).


title: 8379f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 8379c (child).


title: 7551c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 7551m (mother) and 7551f (father).


title: 7415m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 7415c (child).


title: 7353m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 7353c (child).


title: 7415c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 7415m (mother) and 7415f (father).


title: 8785m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 8785c (child).


title: 7807c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 7807m (mother) and 7807f (father).


title: 7353c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 7353m (mother) and 7353f (father).


title: 7415f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 7415c (child).


title: 7047c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 7047m (mother) and 7047f (father).


title: 7047f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 7047c (child).


title: 7048c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 7048m (mother) and 7048f (father).


title: 7048m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 7048c (child).


title: 6913c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 6913m (mother) and 6913f (father).


title: 6913f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 6913c (child).


title: 6913m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 6913c (child).


title: 7048f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 7048c (child).


title: 7047m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 7047c (child).


title: 6607f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 6607c (child).


title: 7551m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 7551c (child).


title: 6607m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 6607c (child).


title: 6545c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 6545m (mother) and 6545f (father).


title: 6789m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 6789c (child).


title: 6434f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 6434c (child).


title: 6349m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 6349c (child).


title: 6434m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 6434c (child).


title: 6434c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 6434m (mother) and 6434f (father).


title: 6789c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 6789m (mother) and 6789f (father).


title: 6128m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 6128c (child).


title: 6789f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 6789c (child).


title: 6607c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 6607m (mother) and 6607f (father).


title: 6168m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 6168c (child).


title: 6349f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 6349c (child).


title: 6349c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 6349m (mother) and 6349f (father).


title: 6168f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 6168c (child).


title: 5994c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 5994m (mother) and 5994f (father).


title: 6128c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 6128m (mother) and 6128f (father).


title: 6168c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 6168m (mother) and 6168f (father).


title: 5994m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 5994c (child).


title: 6128f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 6128c (child).


title: 5923c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 5923m (mother) and 5923f (father).


title: 5923m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 5923c (child).


title: 5495m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 5495c (child).


title: 6545f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 6545c (child).


title: 5566c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 5566m (mother) and 5566f (father).


title: 5923f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 5923c (child).


title: 5994f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 5994c (child).


title: 5434m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 5434c (child).


title: 5566f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 5566c (child).


title: 5495c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 5495m (mother) and 5495f (father).


title: 5202c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 5202m (mother) and 5202f (father).


title: 5566m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 5566c (child).


title: 5358c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 5358m (mother) and 5358f (father).


title: 5202m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 5202c (child).


title: 5358f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 5358c (child).


title: 4794m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 4794c (child).


title: 5202f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 5202c (child).


title: 5434c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 5434m (mother) and 5434f (father).


title: 4840m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 4840c (child).


title: 5358m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 5358c (child).


title: 4818m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 4818c (child).


title: 4840c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 4840m (mother) and 4840f (father).


title: 4794f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 4794c (child).


title: 4794c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 4794m (mother) and 4794f (father).


title: 4535m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 4535c (child).


title: 6545m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 6545c (child).


title: 5434f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 5434c (child).


title: 4535c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 4535m (mother) and 4535f (father).


title: 4818c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 4818m (mother) and 4818f (father).


title: 4484c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 4484m (mother) and 4484f (father).


title: 4395m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 4395c (child).


title: 4484m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 4484c (child).


title: 5003m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 5003c (child).


title: 4395f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 4395c (child).


title: 4484f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 4484c (child).


title: 4462m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 4462c (child).


title: 5495f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 5495c (child).


title: 4840f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 4840c (child).


title: 4462c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 4462m (mother) and 4462f (father).


title: 4462f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 4462c (child).


title: 4395c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 4395m (mother) and 4395f (father).


title: 4357m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 4357c (child).


title: 4535f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 4535c (child).


title: 5003f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 5003c (child).


title: 4357f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 4357c (child).


title: 4287c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 4287m (mother) and 4287f (father).


title: 4287m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 4287c (child).


title: 4268m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 4268c (child).


title: 4287f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 4287c (child).


title: 4246m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 4246c (child).


title: 3923c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 3923m (mother) and 3923f (father).


title: 3923m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 3923c (child).


title: 3923f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 3923c (child).


title: 4246c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 4246m (mother) and 4246f (father).


title: 3890c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 3890m (mother) and 3890f (father).


title: 4246f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 4246c (child).


title: 4357c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 4357m (mother) and 4357f (father).


title: 3855m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 3855c (child).


title: 3890f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 3890c (child).


title: 3717f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 3717c (child).


title: 3855c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 3855m (mother) and 3855f (father).


title: 3855f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 3855c (child).


title: 3588f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 3588c (child).


title: 3717m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 3717c (child).


title: 3595m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 3595c (child).


title: 3717c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 3717m (mother) and 3717f (father).


title: 3588c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 3588m (mother) and 3588f (father).


title: 3890m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 3890c (child).


title: 3588m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 3588c (child).


title: 3811f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 3811c (child).


title: 3553f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 3553c (child).


title: 3595f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 3595c (child).


title: 3202f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 3202c (child).


title: 3202m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 3202c (child).


title: 3595c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 3595m (mother) and 3595f (father).


title: 3476m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 3476c (child).


title: 3476f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 3476c (child).


title: 3553m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 3553c (child).


title: 4268c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 4268m (mother) and 4268f (father).


title: 3153m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 3153c (child).


title: 3153c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 3153m (mother) and 3153f (father).


title: 3025f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 3025c (child).


title: 3153f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 3153c (child).


title: 3476c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 3476m (mother) and 3476f (father).


title: 3025m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 3025c (child).


title: 3811m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 3811c (child).


title: 4818f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 4818c (child).


title: 3025c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 3025m (mother) and 3025f (father).


title: 2890m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 2890c (child).


title: 2806m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 2806c (child).


title: 2926c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 2926m (mother) and 2926f (father).


title: 3202c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 3202m (mother) and 3202f (father).


title: 2890c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 2890m (mother) and 2890f (father).


title: 2890f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 2890c (child).


title: 2806c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 2806m (mother) and 2806f (father).


title: 2926m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 2926c (child).


title: 2738m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 2738c (child).


title: 2738f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 2738c (child).


title: 2472m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 2472c (child).


title: 2472c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 2472m (mother) and 2472f (father).


title: 2711c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 2711m (mother) and 2711f (father).


title: 2806f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 2806c (child).


title: 3811c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 3811m (mother) and 3811f (father).


title: 2711f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 2711c (child).


title: 1978m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 1978c (child).


title: 2738c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 2738m (mother) and 2738f (father).


title: 2346m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 2346c (child).


title: 1978f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 1978c (child).


title: 2346f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 2346c (child).


title: 2346c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 2346m (mother) and 2346f (father).


title: 2472f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 2472c (child).


title: 2135m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 2135c (child).


title: 1978c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 1978m (mother) and 1978f (father).


title: 2135c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 2135m (mother) and 2135f (father).


title: 1895f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 1895c (child).


title: 1889c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 1889m (mother) and 1889f (father).


title: 1895m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 1895c (child).


title: 1889m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 1889c (child).


title: 1895c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 1895m (mother) and 1895f (father).


title: 1889f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 1889c (child).


title: 1608m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 1608c (child).


title: 1765c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 1765m (mother) and 1765f (father).


title: 1605m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 1605c (child).


title: 1765f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 1765c (child).


title: 1605f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 1605c (child).


title: 1605c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 1605m (mother) and 1605f (father).


title: 1538f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 1538c (child).


title: 2711m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 2711c (child).


title: 1523f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 1523c (child).


title: 1608f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 1608c (child).


title: 2135f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 2135c (child).


title: 1492c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 1492m (mother) and 1492f (father).


title: 1492f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 1492c (child).


title: 1608c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 1608m (mother) and 1608f (father).


title: 1523m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 1523c (child).


title: 1538c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 1538m (mother) and 1538f (father).


title: 1492m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 1492c (child).


title: 1523c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 1523m (mother) and 1523f (father).


title: 2926f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 2926c (child).


title: 1765m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 1765c (child).


title: 1467m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 1467c (child).


title: 1538m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 1538c (child).


title: 1280m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 1280c (child).


title: 1252m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 1252c (child).


title: 1252f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 1252c (child).


title: 1360f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 1360c (child).


title: 1252c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 1252m (mother) and 1252f (father).


title: 1360c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 1360m (mother) and 1360f (father).


title: 1280f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 1280c (child).


title: 1467c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 1467m (mother) and 1467f (father).


title: 1014m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 1014c (child).


title: 1097c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 1097m (mother) and 1097f (father).


title: 1097f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 1097c (child).


title: 1097m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 1097c (child).


title: 1280c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 1280m (mother) and 1280f (father).


title: 1014c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 1014m (mother) and 1014f (father).


title: 1234m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 1234c (child).


title: 0899f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 0899c (child).


title: 0899m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 0899c (child).


title: 1467f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 1467c (child).


title: 1014f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 1014c (child).


title: 0899c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 0899m (mother) and 0899f (father).


title: 0866m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 0866c (child).


title: 1234c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 1234m (mother) and 1234f (father).


title: 1234f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 1234c (child).


title: 1360m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 1360c (child).


title: 0491c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 0491m (mother) and 0491f (father).


title: 0451c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 0451m (mother) and 0451f (father).


title: 0674c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 0674m (mother) and 0674f (father).


title: 0648c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 0648m (mother) and 0648f (father).


title: 0517f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 0517c (child).


title: 0674m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 0674c (child).


title: 0674s_xb

description: 50K Xba Array data

source_name: Unaffected sibling of mentally retarded child 0674c (child).


title: 0674f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 0674c (child).


title: 0491f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 0491c (child).


title: 0421c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 0421m (mother) and 0421f (father).


title: 0866f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 0866c (child).


title: 0621c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 0621m (mother) and 0621f (father).


title: 0421f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 0421c (child).


title: 0491m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 0491c (child).


title: 0451m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 0451c (child).


title: 0648m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 0648c (child).


title: 0421m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 0421c (child).


title: 0866c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 0866m (mother) and 0866f (father).


title: 0621m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 0621c (child).


title: 0517m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 0517c (child).


title: 0392f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 0392c (child).


title: 0337f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 0337c (child).


title: 0232f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 0232c (child).


title: 0451f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 0451c (child).


title: 0395m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 0395c (child).


title: 0337m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 0337c (child).


title: 0232c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 0232m (mother) and 0232f (father).


title: 0392c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 0392m (mother) and 0392f (father).


title: 0517c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 0517m (mother) and 0517f (father).


title: 0648f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 0648c (child).


title: 0232m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 0232c (child).


title: 0231m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 0231c (child).


title: 0231f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 0231c (child).


title: 0231c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 0231m (mother) and 0231f (father).


title: 0392m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 0392c (child).


title: 0167m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 0167c (child).


title: 0395c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 0395m (mother) and 0395f (father).


title: 0621f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 0621c (child).


title: 0337c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 0337m (mother) and 0337f (father).


title: 0167f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 0167c (child).


title: 1196 (4.5K BAC array)

status: Public on Mar 10 2007

city: Philadelphia

first: Jayanti

last: Jagannathan

state: PA

address: 34th & Civic center blvd

department: Oncology

country: USA

institute: Childrens Hospital of Philadelphia

description: Primary neuroblastoma tumor.

hyb_protocol: 48-72 h at 37 deg C on a slowly rotating platform. Slide washing was done using published protocols (Hodgson et al. 2001)

scan_protocol: Affymetrix 428 microarray scanner and analyzed with Genepix software (Axon)

data_processing: Normalized by global print-tip adjustment of the median dye ratio(Cy3/Cy5), quality filtered, replicate spots and dye swaps merged

source_name: Primary Tumor

label_protocol: Random primer labeling kit (Invitrogen)

extract_protocol: Qiagen DNA extraction standard protocol

tag: Age Diagnosis

value: 145, INSS Stage:3, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:97Event Free Survival=no event, Outcome=no event


title: 0134m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 0134c (child).


title: 1194 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 1367, INSS Stage:4, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:LOH, Unb11qLOH:Unbalanced LOH, 17q gain:Unbalanced Gain, Tumor %:93Event Free Survival=event, Outcome=Death


title: 1167 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 1157, INSS Stage:4, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:LOH, Unb11qLOH:Unbalanced LOH, 17q gain:Unbalanced Gain, Tumor %:94Event Free Survival=no event, Outcome=no event


title: 1170 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 307, INSS Stage:1, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:96Event Free Survival=no event, Outcome=no event


title: 0395f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 0395c (child).


title: 0134f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 0134c (child).


title: 0162f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 0162c (child).


title: 1174 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 1739, INSS Stage:3, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:83Event Free Survival=no event, Outcome=no event


title: 0162c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 0162m (mother) and 0162f (father).


title: 0064m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 0064c (child).


title: 0162m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 0162c (child).


title: 0167c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 0167m (mother) and 0167f (father).


title: 0091m_xb

description: 50K Xba Array data

source_name: Unaffected biological mother of mentally retarded child 0091c (child).


title: 1156 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 1004, INSS Stage:3, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:89Event Free Survival=no event, Outcome=no event


title: 0064c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 0064m (mother) and 0064f (father).


title: 0091c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 0091m (mother) and 0091f (father).


title: 0064f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 0064c (child).


title: 0091f_xb

description: 50K Xba Array data

source_name: Unaffected biological father of mentally retarded child 0091c (child).


title: 1133 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 510, INSS Stage:3, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:90Event Free Survival=no event, Outcome=no event


title: 1122 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 478, INSS Stage:1, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:100Event Free Survival=no event, Outcome=no event


title: 1118 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 4697, INSS Stage:4, MYCN:Not Amplified, 1p36 LOH:LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:Unbalanced Gain, Tumor %:90Event Free Survival=event, Outcome=no event


title: 1139 (4.5K BAC array)

description: Primary neuroblastoma tumor. Tumor annotation : ND is Not Done.

value: 388, INSS Stage:1, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:ND, Tumor %:88Event Free Survival=no event, Outcome=no event


title: 1163 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 362, INSS Stage:4, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:Unbalanced Gain, Tumor %:86Event Free Survival=event, Outcome=no event


title: 1100 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 1279, INSS Stage:4, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:LOH, Unb11qLOH:Unbalanced LOH, 17q gain:Unbalanced Gain, Tumor %:92Event Free Survival=event, Outcome=Death


title: 1109 (4.5K BAC array)

value: 1502, INSS Stage:4, MYCN:Amplified, 1p36 LOH:LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:ND, Tumor %:88Event Free Survival=event, Outcome=no event


title: 1097 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 512, INSS Stage:4, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:Unbalanced Gain, Tumor %:87Event Free Survival=event, Outcome=Death


title: 1254 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 303, INSS Stage:1, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:100Event Free Survival=no event, Outcome=no event


title: 1129 (4.5K BAC array)

value: 823, INSS Stage:4, MYCN:Amplified, 1p36 LOH:LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:Unbalanced Gain, Tumor %:NDEvent Free Survival=no event, Outcome=no event


title: 1220 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 1810, INSS Stage:4, MYCN:Not Amplified, 1p36 LOH:LOH, 11q23 LOH:LOH, Unb11qLOH:Unbalanced LOH, 17q gain:Unbalanced Gain, Tumor %:94Event Free Survival=event, Outcome=Death


title: 1236 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 1390, INSS Stage:4, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:ND, Unb11qLOH:ND, 17q gain:Unbalanced Gain, Tumor %:100Event Free Survival=event, Outcome=Death


title: 1246 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 1564, INSS Stage:4, MYCN:Amplified, 1p36 LOH:LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:Unbalanced Gain, Tumor %:100Event Free Survival=no event, Outcome=no event


title: 1066 (4.5K BAC array)

value: 200, INSS Stage:4, MYCN:Amplified, 1p36 LOH:LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:ND, Tumor %:93Event Free Survival=event, Outcome=Death


title: 1250 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 859, INSS Stage:3, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:96Event Free Survival=no event, Outcome=no event


title: 1243 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 577, INSS Stage:4, MYCN:Amplified, 1p36 LOH:LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:97Event Free Survival=event, Outcome=Death


title: 1068 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 405, INSS Stage:4, MYCN:Amplified, 1p36 LOH:No LOH, 11q23 LOH:LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:85Event Free Survival=event, Outcome=Death


title: 1218 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 1133, INSS Stage:4, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:Unbalanced Gain, Tumor %:96Event Free Survival=event, Outcome=no event


title: 1204 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 1105, INSS Stage:4, MYCN:Not Amplified, 1p36 LOH:LOH, 11q23 LOH:LOH, Unb11qLOH:Unbalanced LOH, 17q gain:Unbalanced Gain, Tumor %:97Event Free Survival=no event, Outcome=no event


title: 1213 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 1214, INSS Stage:4, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:LOH, Unb11qLOH:Unbalanced LOH, 17q gain:Unbalanced Gain, Tumor %:91Event Free Survival=no event, Outcome=no event


title: 0134c_xb

description: 50K Xba Array data

source_name: Mentally retarded child of unaffected biological parents 0134m (mother) and 0134f (father).

value: whole blood


title: 982 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 1544, INSS Stage:4, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:LOH, Unb11qLOH:Unbalanced LOH, 17q gain:Unbalanced Gain, Tumor %:100Event Free Survival=event, Outcome=Death


title: 1039 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 269, INSS Stage:4, MYCN:Not Amplified, 1p36 LOH:LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:100Event Free Survival=no event, Outcome=no event


title: 975 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 1786, INSS Stage:3, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:100Event Free Survival=no event, Outcome=no event


title: 1319 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 231, INSS Stage:1, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:73Event Free Survival=no event, Outcome=no event


title: 1322 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 188, INSS Stage:1, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:88Event Free Survival=no event, Outcome=no event


title: 499 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 1873, INSS Stage:4, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:Unbalanced Gain, Tumor %:96Event Free Survival=event, Outcome=no event


title: 1310 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 2069, INSS Stage:4, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:Unbalanced Gain, Tumor %:100Event Free Survival=event, Outcome=no event


title: 969 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 364, INSS Stage:4, MYCN:Amplified, 1p36 LOH:LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:Unbalanced Gain, Tumor %:97Event Free Survival=, Outcome=


title: 974 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 1232, INSS Stage:4, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:LOH, Unb11qLOH:Unbalanced LOH, 17q gain:Unbalanced Gain, Tumor %:100Event Free Survival=event, Outcome=Death


title: 1317 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 348, INSS Stage:3, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:98Event Free Survival=no event, Outcome=no event


title: 1303 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 519, INSS Stage:3, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:92Event Free Survival=no event, Outcome=no event


title: 491 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 69, INSS Stage:1, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:90Event Free Survival=no event, Outcome=no event


title: 495 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 804, INSS Stage:4, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:LOH, Unb11qLOH:Unbalanced LOH, 17q gain:Unbalanced Gain, Tumor %:99Event Free Survival=event, Outcome=Death


title: 1290 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 238, INSS Stage:3, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:98Event Free Survival=no event, Outcome=no event


title: 1288 (4.5K BAC array)

value: 1626, INSS Stage:4, MYCN:Amplified, 1p36 LOH:LOH, 11q23 LOH:LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:ND, Tumor %:97Event Free Survival=no event, Outcome=no event


title: 1292 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 433, INSS Stage:3, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:Unbalanced Gain, Tumor %:100Event Free Survival=no event, Outcome=no event


title: 401 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 392, INSS Stage:1, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:90Event Free Survival=no event, Outcome=no event


title: 241 (4.5K BAC array)

value: 177, INSS Stage:4, MYCN:Amplified, 1p36 LOH:LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:ND, Tumor %:95Event Free Survival=event, Outcome=Death


title: 1258 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 632, INSS Stage:3, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:100Event Free Survival=no event, Outcome=no event


title: 1287 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 746, INSS Stage:4, MYCN:Amplified, 1p36 LOH:LOH, 11q23 LOH:LOH, Unb11qLOH:Unbalanced LOH, 17q gain:Unbalanced Gain, Tumor %:100Event Free Survival=event, Outcome=Death


title: 73 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 4580, INSS Stage:4, MYCN:Not Amplified, 1p36 LOH:LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:Unbalanced Gain, Tumor %:85Event Free Survival=no event, Outcome=no event


title: 1285 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 42, INSS Stage:1, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:100Event Free Survival=no event, Outcome=no event


title: 1266 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 699, INSS Stage:4, MYCN:Amplified, 1p36 LOH:LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:Unbalanced Gain, Tumor %:100Event Free Survival=no event, Outcome=no event


title: 260 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 235, INSS Stage:4, MYCN:Amplified, 1p36 LOH:LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:96Event Free Survival=event, Outcome=Death


title: 46 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 193, INSS Stage:3, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:87Event Free Survival=no event, Outcome=no event


title: 1291 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 325, INSS Stage:3, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:LOH, Unb11qLOH:Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:97Event Free Survival=no event, Outcome=no event


title: 15 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 348, INSS Stage:3, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:88Event Free Survival=no event, Outcome=no event


title: 1267 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 470, INSS Stage:3, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:96Event Free Survival=no event, Outcome=no event


title: 1257 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 3972, INSS Stage:4, MYCN:Amplified, 1p36 LOH:LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:100Event Free Survival=event, Outcome=Death


title: 1260 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 405, INSS Stage:1, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:100Event Free Survival=event, Outcome=no event


title: 433 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 1083, INSS Stage:4, MYCN:Amplified, 1p36 LOH:LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:Unbalanced Gain, Tumor %:100Event Free Survival=event, Outcome=Death


title: 338 (4.5K BAC array)

value: 730, INSS Stage:3, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:LOH, Unb11qLOH:Unbalanced LOH, 17q gain:Unbalanced Gain, Tumor %:NDEvent Free Survival=no event, Outcome=no event


title: 396 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 417, INSS Stage:4, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:LOH, Unb11qLOH:Unbalanced LOH, 17q gain:Unbalanced Gain, Tumor %:99Event Free Survival=no event, Outcome=no event


title: 1073 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 117, INSS Stage:1, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:93Event Free Survival=no event, Outcome=no event


title: 493 (4.5K BAC array)

value: 1500, INSS Stage:4, MYCN:Amplified, 1p36 LOH:LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:ND, Tumor %:100Event Free Survival=event, Outcome=Death


title: Normal (023_Breast)

type: RNA

city: Redwood City

first: Xinhao

last: Wang

state: CA

address: 800 Chesapeake

institute: OncoMed Pharmaceuticals Inc

description: Normal breast epithelium cells isolated using fluorescence activated cell sorting

hyb_protocol: Following fragmentation, 15 ug of cRNA were hybridized according to the manufacturer's instructions.

data_processing: To obtain an expression measure for a given probeset, the mismatch hybridization values were subtracted from the perfect match values, and the average of the middle 50% of these differences was used as the expression measure for the probe set. A quantile normalization procedure was then applied to adjust for differences in the probe intensity distribution across different chips. Specifically, we applied a monotone linear spline to each chip that mapped quantiles 0.01 up to 0.99 (in increments of 0.01) exactly to the corresponding quantiles of a standard chip. The transform log2 [200 + max(X;0)] was then applied.

label: biotin

molecule: total RNA

source_name: Normal breast epithelium tissue obtained from reduction mammoplasties.

label_protocol: Biotinylated cRNA were prepared according to the standard Affymetrix protocol

extract_protocol: Trizol extraction of total RNA was performed according to the manufacturer's instructions.

tag: Normal breast epithelium cells


title: 205 (4.5K BAC array)

value: 2321, INSS Stage:4, MYCN:Not Amplified, 1p36 LOH:LOH, 11q23 LOH:LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:ND, Tumor %:90Event Free Survival=no event, Outcome=no event


title: Normal (068_Breast)


title: 1256 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 105, INSS Stage:1, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:100Event Free Survival=no event, Outcome=no event


title: 406 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 141, INSS Stage:1, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:100Event Free Survival=no event, Outcome=no event


title: 58 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 723, INSS Stage:4, MYCN:Not Amplified, 1p36 LOH:LOH, 11q23 LOH:LOH, Unb11qLOH:Unbalanced LOH, 17q gain:Unbalanced Gain, Tumor %:72Event Free Survival=event, Outcome=Death


title: 1092 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 1634, INSS Stage:4, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:Unbalanced Gain, Tumor %:94Event Free Survival=event, Outcome=Death


title: Normal (022_Breast)


title: Tumorigenic (T2TG)

description: Tumorigenic population (ESA+ CD44+ CD24-/low Lin-) of a breast tumor isolated using fluorescence activated cell sorting. Sample consists of three replicates.

source_name: breast tumor (ESA+ CD44+ CD24-/low Lin-)

tag: tumorigenic population (ESA+ CD44+ CD24-/low Lin-)


title: 417 (4.5K BAC array)

description: Primary neuroblastoma tumor.

source_name: Primary Tumor

value: 215, INSS Stage:3, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:98Event Free Survival=no event, Outcome=no event


title: 415 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 182, INSS Stage:3, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:99Event Free Survival=no event, Outcome=no event


title: 37 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 38, INSS Stage:1, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:78Event Free Survival=no event, Outcome=no event


title: Tumorigenic (T3TG)


title: Tumorigenic (T1TG)


title: 158 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 4174, INSS Stage:4, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:96Event Free Survival=event, Outcome=Death


title: Tumorigenic (PE13TG)

description: Tumorigenic population (ESA+ CD44+ CD24-/low Lin-) of a breast tumor isolated using fluorescence activated cell sorting


title: 1SC: 1 day Solbitol C

city: Hachioji

first: Miyama

last: Masashi

state: Tokyo

address: Katakura 1404-1

department: School of Bionics

country: Japan

institute: Tokyo University of Technology

description: Biological Replicate C (3/3). 1 M Solbitol treated for 1 d (24 h).

hyb_protocol: The microarrays were pre-hybridized for 30 min at 45°C in a solution containing 6x SSPE, 0.05% Tween-20, 20 mM EDTA, 5x Denhardt’s solution, 100 ng/μl salmon sperm DNA and 0.05% SDS. The microarrays were then hybridized heat-denatured labeled and fragmented target cRNAs in 6x SSPE, 0.05% Tween-20, 20mM EDTA, , 25% DI formamide, 100 ng/μl salmon sperm DNA (Ambion, TX, USA) and 0.04% SDS, for 16 h at 42°C with gentle rotation. After hybridization, the arrays were washed in 6x SSPE, 0.05% Tween-20 for 5 min at 42°C, in 3x SSPE, 0.05% Tween-20 for 1 min, in 0.5x SSPE, 0.05% Tween-20 for 1 min, in 2x PBS, 0.1% Tween-20 for 1 min, and finally in 2x PBS for 1 min.

scan_protocol: The fluorescent images were read out in the ScanArray 4000XL (Perkin Elmer, MA, USA).

data_processing: Intensity values of manually flagged spots were filtered out. Missing values were imputed using K Nearest Neighbors (KNN) algorihm (number of neighbours = 10). Data were transformed by variance stabilizing normalization method (off set = 16) followed by quantile-normalization.

organism: Bruguiera gymnorhiza

label_protocol: cRNA was generated and linearly amplified from 1 μg of total RNA using Ambion MessageAmpII kit (Ambion, TX, USA) according to the manufacturer’s protocol. All labelling reaction were performed with the Cy5 conjugates from the Universal Linkage System (ULS, Kreatech Biotechnology, Netherlands). The labeled cRNAs were then fragmented with Fragmentation Reagents (Ambion, TX, USA).

growth_protocol: Viviparous seeds of Burma mangrove were collected from Iriomote Island, Okinawa, Japan. These seeds were subsequently germinated in culture pots filed with vermiculite in laboratory. The plants were grown with 1000-fold diluted Hyponex on a 12-h light and 12-h dark cycle. Incandescent lighting provides a photon flux density of 350 μmol photons m-2 s-1. The temperature and humidity were controlled at 25°C and 70%.

extract_protocol: Total RNA was extracted from Burma mangrove leaves as follows. Frozen tissues were pulverized in liquid nitrogen-cooled pestle and mortar. The powdered tissue was then incubated at 65°C for 15 min in 20 ml extraction buffer; containing 20% CTAB, 100 mM Tris-HCl (pH 8.0), 25 mM EDTA, 2 M NaCl and 4% 2-mercaptoethanol. The suspension was centrifuged at 2500g for 12 min. An equal volume of chloroform : isoamylalcohol (24:1, v/v) was added to the supernatant, and centrifuged at 2500g for 7 min. RNA was selectively precipitated and purified by overnight 2 M LiCl precipitation at -20°C, and recovered by centrifugation at 18,000g for 20 min. The precipitation was resuspended in 200 μl water and centrifugation at 18,000g for 5 min. The supernatant was precipitated ethanol and recovered 18,000g for 30 min, and rinsed with 500 μl of 80% ethanol, gently desiccated. Finally, precipitation was dissolved in 100 μl of water. Purity and RNA quality and quantity was then analyzed by absorbance and by denaturing formaldehyde agarose gel electrophoresis. High quality RNAs with A260/A280 ratio over 1.8 and intact 28S and 18S RNA bands were used for microarray analysis.

treatment_protocol: Stress treatment was conducted by replacing culture water with 1 M solbitol solution. A day after the treatment, leaf was sampled and was flash frozen in liquid nitrogen and then stored at -80ºC.

tag: Age

value: leaf

tag: Treatment

value: 1M Solbitol treated for 1d (24h)

tag: Biological Replicate


title: 430 (4.5K BAC array)

value: 160, INSS Stage:4, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:LOH, Unb11qLOH:Unbalanced LOH, 17q gain:ND, Tumor %:98Event Free Survival=event, Outcome=no event


title: Non-tumorigenic (SUMNTG)

description: Non-tumorigenic population of a breast tumor isolated using fluorescence activated cell sorting

source_name: non-tumorigenic breast tumor

tag: non-tumorigenic breast tumor


title: Tumorigenic (SUMTG)


title: 0NC 2: 0 hour NaCl C 2nd

description:
Technological replicate of 0NC (GSM173576).
The same sample was used in this and GSM173576 experiment.

data_processing: Intensity values of manually flagged spots were filtered out. Unprocessed statistically.

source_name: 0h_NaCl_C_2nd for technical replicate of 0NC (GSM173576)

treatment_protocol: Stress treatment was conducted by replacing culture water with 500 mM NaCl solution. Just before the treatment, leaf was sampled and was flash frozen in liquid nitrogen and then stored at -80ºC.

value: NaCl treated for 0 h

tag: Technological validation of 0NC (GSM173576)


title: 1SB: 1 day Solbitol B

description: Biological Replicate B (2/3). 1 M Solbitol treated for 1 d (24 h).


title: 1SA: 1 day Solbitol A

description: Biological Replicate A (1/3). 1 M Solbitol treated for 1 d (24 h).


title: 6SB: 6 hour Solbitol B

description: Biological Replicate B (2/3). 1 M Solbitol treated for 6h.

treatment_protocol: Stress treatment was conducted by replacing culture water with 1 M solbitol solution. Six hours after the treatment, leaf was sampled and was flash frozen in liquid nitrogen and then stored at -80ºC.

value: 1M Solbitol treated for 6 h


title: 733T

city: Berlin

first: Andreas

last: Klein

address: Charitéplatz 1

department: Institute of Biochemistry

country: Germany

institute: Charité (CCO)

description: Age at diagnosis: 49, Histology: IDC + ILC, Tumor stage: 1, Tumor grade: 2

hyb_protocol: Following fragmentation, the cRNA was hybridized for 16 hr at 45C on GeneChip® Human Genome U133A Array. Washing steps for the chip, staining with streptavidin-phycoerythrin and signal-amplification were performed according to the manufacturer’s instructions.

scan_protocol: Each hybridized Affymetrix GeneChip array was scanned with GeneChip Scanner 2500.

data_processing: The raw experimental microarray data were normalized with the Affymetrix GeneChip analysis software (Microarray Suite Version 5.0). Further analyses were performed with the software “CorrXpression”.

label: Biotin

source_name: Mammary gland from patient with human breast cancer

label_protocol: cRNA was amplified from 1-2 µg of total RNA using the small sample labeling version II protocol (Affymetrix, Santa Clara, CA).

extract_protocol: TRIzol extraction of total RNA was performed according to the manufacturer's instructions (Life Technologies).

tag: Human breast cancer


title: 726T

description: Age at diagnosis: 60, Histology: IDC, Tumor stage: 1, Tumor grade: 2


title: 719T

description: Age at diagnosis: 45, Histology: IDC, Tumor stage: 1, Tumor grade: 1


title: 1005 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 229, INSS Stage:1*, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:Unbalanced Gain, Tumor %:100Event Free Survival=, Outcome=


title: 6SA: 6 hour Solbitol A

description: Biological Replicate A (1/3). Solbitol treated for 6h.


title: 1009 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 1240, INSS Stage:4, MYCN:Amplified, 1p36 LOH:No LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:Unbalanced Gain, Tumor %:98Event Free Survival=event, Outcome=Death


title: 6SC: 6 hour Solbitol C

description: Biological Replicate C (3/3). 1 M Solbitol treated for 6h.


title: 728T


title: 716T

description: Age at diagnosis: 53, Histology: ILC, Tumor stage: 1, Tumor grade: 2


title: 1013 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 488, INSS Stage:1, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:100Event Free Survival=no event, Outcome=no event


title: 0SB: 0 hour Solbitol B

description: Biological Replicate B (2/3). Solbitol treated for 0h (control, non-treated).

treatment_protocol: Stress treatment was conducted by replacing culture water with 1M solbitol. Sampled leaves were flash frozen in liquid nitrogen and then stored at -80ºC.

value: 1M Solbitol treated for 0 h (control)


title: 1059 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 91, INSS Stage:1, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:97Event Free Survival=no event, Outcome=no event


title: 1NC: 1 day NaCl C

description: Biological Replicate A (1/3). 500 mM NaCl treated for 1 d (24 h).

treatment_protocol: Stress treatment was conducted by replacing culture water with 500 mM NaCl solution. A day after the treatment, leaf was sampled and was flash frozen in liquid nitrogen and then stored at -80ºC.

value: 500 mM NaCl treated for 1d


title: 0SC: 0 hour Solbitol C

description: Biological Replicate C (3/3). Solbitol treated for 0h (control, non-treated).

treatment_protocol: Stress treatment was conducted by replacing culture water with 1 M solbitol solution. Just before stress treatment (0h), leaf was sampled and was flash frozen in liquid nitrogen and then stored at -80ºC.

value: 1M Solbitol treated for 0 h (control, non-treated)


title: 0SA: 0 hour Solbitol A

description: Biological Replicate A (1/3). Solbitol treated for 0h (control, non-treated).


title: 712T

description: Age at diagnosis: 40, Histology: IDC, Tumor stage: 1, Tumor grade: 2


title: 1NB: 1 day NaCl B

description: Biological Replicate B (2/3). 500 mM NaCl treated for 1 d (24 h).


title: 1NA: 1 day NaCl A


title: 6NC: 6 hour NaCl C

description: Biological Replicate C (3/3). 500 mM NaCl treated for 6h.

treatment_protocol: Stress treatment was conducted by replacing culture water with 500 mM NaCl solution. Six hours after 500 mM NaCl treatment, leaf was sampled and was flash frozen in liquid nitrogen and then stored at -80ºC.

value: 500 mM NaCl treated for 6 h


title: 1052 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 126, INSS Stage:3, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:93Event Free Survival=no event, Outcome=no event


title: 692T

description: Age at diagnosis: 73, Histology: IDC, Tumor stage: 2, Tumor grade: 3


title: 1012 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 1843, INSS Stage:4, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:LOH, Unb11qLOH:Unbalanced LOH, 17q gain:Unbalanced Gain, Tumor %:100Event Free Survival=no event, Outcome=no event


title: 1043 (4.5K BAC array)

description: Primary neuroblastoma tumor. Tumor annotation : ND is Not Done.

value: 1119, INSS Stage:4, MYCN:Amplified, 1p36 LOH:No LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:ND, Tumor %:93Event Free Survival=no event, Outcome=no event


title: 484T

description: Age at diagnosis: 53, Histology: IDC, Tumor stage: 1, Tumor grade: 3


title: 11 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 336, INSS Stage:3, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:ND, Tumor %:93Event Free Survival=no event, Outcome=no event


title: 6NB: 6 hour NaCl B

description: Biological Replicate B (2/3). 500 mM NaCl treated for 6h.

value: leaf


title: 6NA: 6 hour NaCl A

description: Biological Replicate A (1/3). 500 mM NaCl treated for 6h.

hyb_protocol: The microarrays were pre-hybridized for 30 min at 45°C in a solution containing 6x SSPE, 0.05% Tween-20, 20 mM EDTA, 5x Denhardt’s solution, 100 ng/μl salmon sperm DNA and 0.05% SDS. The microarrays were then hybridized heat-denatured labeled and fragmented target cRNAs in 6x SSPE, 0.05% Tween-20, 20 mM EDTA, , 25% DI formamide, 100 ng/μl salmon sperm DNA (Ambion, TX, USA) and 0.04% SDS, for 16 h at 42°C with gentle rotation. After hybridization, the arrays were washed in 6x SSPE, 0.05% Tween-20 for 5 min at 42°C, in 3x SSPE, 0.05% Tween-20 for 1 min, in 0.5x SSPE, 0.05% Tween-20 for 1 min, in 2x PBS, 0.1% Tween-20 for 1 min, and finally in 2x PBS for 1 min.

growth_protocol: Viviparous seeds of Burma mangrove were collected from Iriomote Island, Okinawa, Japan. These seeds were subsequently germinated in culture pots filed with vermiculite in laboratory. The plants were grown with 1000-fold diluted Hyponex on a 12-h light and 12-h dark cycle. Incandescent lighting provides a photon flux density of 350 μmol photons m-2 s-1. The temperature and humidity were controlled at 25°C and 70%


title: 303T

description: Age at diagnosis: 57, Histology: IDC, Tumor stage: 1, Tumor grade: 2


title: Normal breast (068_Breast_B)

description: Normal breast epithelium cells isolated using fluorescence activated cell sorting


title: Normal breast (023_Breast_B)


title: 268T

description: Age at diagnosis: 56, Histology: IDC, Tumor stage: 4, Tumor grade: 3


title: 457T

description: Age at diagnosis: 51, Histology: DCIS, Tumor stage: is, Tumor grade: 3


title: 0NA: 0 hour NaCl A

description: Biological Replicate A (1/3). NaCl treated for 0h (control).

treatment_protocol: Stress treatment was conducted by replacing culture water with 500 mM NaCl solution. Just before stress treatment (0h), leaf was sampled and was flash frozen in liquid nitrogen and then stored at -80ºC.

value: NaCl treated for 0 h (control)


title: 1326 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 946, INSS Stage:4, MYCN:Not Amplified, 1p36 LOH:LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:Unbalanced Gain, Tumor %:90Event Free Survival=no event, Outcome=no event


title: 263T

description: Age at diagnosis: 75, Histology: ILC, Tumor stage: 4, Tumor grade: 2


title: 0NB: 0 hour NaCl B

description: Biological Replicate B (2/3). NaCl treated for 0h (control).

value: NaCl treated for 0 h


title: Tumorigenic (T2TG_B)

description: Tumorigenic population (ESA+ CD44+ CD24-/low Lin-) of a breast tumor isolated using fluorescence activated cell sorting. Sample consists of three replicates.

source_name: breast tumor


title: Non-tumorigenic (PE15NTG_B)

description: Non-tumorigenic population of a breast tumor isolated using fluorescence activated cell sorting. Sample consists of three replicates.


title: Tumorigenic (PE15TG_B)


title: Tumorigenic (T1TG_B)


title: 427 (4.5K BAC array)

description: Primary neuroblastoma tumor.

value: 4249, INSS Stage:4, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:Unbalanced Gain, Tumor %:96Event Free Survival=no event, Outcome=no event


title: 09T

description: Age at diagnosis: 75, Histology: IDC, Tumor stage: 2, Tumor grade: 2


title: 597pos7 tumor 3: WAP-SVT/t breast cancer

description: see: Klein A, Guhl E, Zollinger R, Tzeng YJ, Wessel R, Hummel M, Graessmann M, Graessmann A. Gene expression profiling: cell cycle deregulation and aneuploidy do not cause breast cancer formation in WAP-SVT/t transgenic animals. J Mol Med. 2005 May;83(5):362-76.

hyb_protocol: The Affymetrix GeneChip was hybridized with the biotin-labelled cRNA fragments for 16 hr at 45°C. Washing steps for the chip, staining with streptavidin-phycoerythrin and signal-amplification were performed according to the manufacturer’s instructions.

scan_protocol: Each hybridized Affymetrix GeneChip array was scanned with GeneChip Scanner 3000.

data_processing: The raw experimental microarray data were normalized with the Affymetrix Microarray Suite (MAS 5.0) based on the housekeeping gene method. Further analyses were performed with the software CorrXpression.

organism: Mus musculus

source_name: breast cancer

label_protocol: The dsDNA was in vitro transcribed into biotinylated cRNA by RNA Transcript labeling Kit (Enzo Life Sciences, Inc).

extract_protocol: RNA was isolated from mammary gland tissue segments stored in liquid nitrogen. The frozen tissue segments were ground to a fine powder using a liquid nitrogen chilled mortar and pestle. Total RNA was extracted with RNAzol reagent in accordance with the manufacturer’s protocol (PeQLab, Biotechnology), and the isolated RNA was treated with RNasefree DNase (DNA-free Ambion, Austin, Tex., USA). The integrity of RNA was verified with the Agilent Bioanalyzer (Agilent Technologies) by the presence of prominent 28S and 18S bands on agarose gels and an A260/280 ratio in the range of 1.9–2.1.

tag: This animal synthesizes the SV40 T/t- antigens selectively in the mammary gland epithelial cells. Strain

value: NMRI, female, breast cancer.


title: 266T

description: Age at diagnosis: 53, Histology: ILC, Tumor stage: 1, Tumor grade: 2


title: 583 tumor 1: WAP-SVT/t breast cancer


title: Tumorigenic (PE13TG_B)

description: Tumorigenic population (ESA+ CD44+ CD24-/low Lin-) of a breast tumor isolated using fluorescence activated cell sorting


title: Non-tumorigenic (PE13NTG_B)

description: Non-tumorigenic population of a breast tumor isolated using fluorescence activated cell sorting


title: 585pos1 tumor 2: WAP-SVT/t breast cancer


title: Tumorigenic (T3TG_B)


title: WAP-SVT/t-LAK sample III: WAP-SVT/t mouse on the first day of lactation

source_name: mammary gland

value: NMRI, female, mammary gland on the first day of lactation.


title: 05T

description: Age at diagnosis: 68, Histology: IDC, Tumor stage: 1, Tumor grade: 2


title: WAP-SVT/t-LAK sample II: WAP-SVT/t mouse on the first day of lactation


title: Normal breast (022_Breast_B)


title: S1P3-KO-hippocampus, biological rep4 (female)

status: Public on Mar 09 2007

city: Maebashi

first: Noriyuki

last: Akahoshi

state: Gunma

address: 3-39-22 Showa-machi

department: Molecular and Cellular Neurobiology

institute: Gunma University Graduate School of Medicine

description: Gene expression data from the hippocampus of S1P3-knockout mouse

hyb_protocol: Following fragmentation, 10 microgram of cRNA was hybridized at 45C for 16 hr on GeneChip Murine Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.

scan_protocol: GeneChips were scanned by using the Hewlett-Packard GeneArray Scanner G2500A.

data_processing: The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as a normalization method. The trimmed mean target intensity of each array was arbitrarily set to 1000.

source_name: hippocampus

label_protocol: Biotinylated cRNA was prepared  from 12 microgram of total RNA according to the standard Affymetrix protocol (Expression Analysis Technical Manual, 2001, Affymetrix).

tag: C57BL/6N, adult, female


title: NOR LAK sample II: NMRI mouse on the first day of lactation

tag: Strain

value: NMRI, female, mammary gland on the first day of lactation


title: 01T

description: Age at diagnosis: 52, Histology: IDC, Tumor stage: 1, Tumor grade: 3


title: S1P3-KO-hippocampus, biological rep3 (female)


title: 04T

description: Age at diagnosis: 79, Histology: IDC (+ILC), Tumor stage: 1, Tumor grade: 2


title: S1P3-KO-hippocampus, biological rep5 (female)


title: NOR LAK sample I: NMRI mouse on the first day of lactation


title: Non-tumorigenic (SUMNTG_B)


title: 692N

description: Age: 73, Histology: Normal breast tissue

source_name: Normal Mammary gland

tag: Normal human breast tissue


title: S1P3-KO-hippocampus, biological rep2 (male)

tag: C57BL/6N, adult, male


title: WAP-SVT/t-LAK sample I: WAP-SVT/t mouse on the first day of lactation


title: S1P2-KO-hippocampus, biological rep9 (female)

description: Gene expression data from the hippocampus of S1P2-knockout mouse


title: S1P2-KO-hippocampus, biological rep10 (female)


title: NOR LAK sample III: NMRI mouse on the first day of lactation


title: Tumorigenic (SUMTG_B)


title: S1P2-KO-hippocampus, biological rep2 (male)


title: S1P2-KO-hippocampus, biological rep1 (male)


title: S1P2-KO-hippocampus, biological rep3 (male)


title: S1P2-KO-hippocampus, biological rep7 (female)


title: S1P2-KO-hippocampus, biological rep8 (female)


title: S1P2-KO-hippocampus, biological rep5 (male)


title: Wild-type-hippocampus, biological rep10 (female)

description: Gene expression data from the hippocampus of wild-type mouse


title: S1P2-KO-hippocampus, biological rep6 (female)


title: Wild-type-hippocampus, biological rep8 (female)


title: Wild-type-hippocampus, biological rep7 (female)


title: Npool

description: Epithelial cell purified sample of a normal human breast tissue pool


title: S1P2-KO-hippocampus, biological rep4 (male)


title: S1P3-KO-neocortex, biological rep4 (female)

description: Gene expression data from the neocortex of S1P3-knockout mouse

source_name: neocortex


title: Wild-type-hippocampus, biological rep4 (male)


title: S1P3-KO-neocortex, biological rep2 (male)


title: Wild-type-hippocampus, biological rep2 (male)


title: Wild-type-hippocampus, biological rep3 (male)


title: 989 (4.5K BAC array)

description: Primary neuroblastoma tumor. Tumor annotation : ND is Not Done.

value: 70, INSS Stage:1, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:ND, Tumor %:100Event Free Survival=no event, Outcome=no event


title: S1P2-KO-neocortex, biological rep10 (female)

description: Gene expression data from the neocortex of S1P2-knockout mouse


title: Wild-type-hippocampus, biological rep6 (female)


title: S1P3-KO-neocortex, biological rep5 (female)


title: S1P3-KO-neocortex, biological rep3 (female)


title: Wild-type-hippocampus, biological rep9 (female)


title: S1P2-KO-neocortex, biological rep8 (female)


title: Wild-type-hippocampus, biological rep1 (male)


title: Wild-type-hippocampus, biological rep5 (male)


title: S1P2-KO-neocortex, biological rep7 (female)


title: S1P2-KO-neocortex, biological rep5 (male)


title: S1P2-KO-neocortex, biological rep6 (female)


title: S1P2-KO-neocortex, biological rep4 (male)


title: Wild-type-neocortex, biological rep9 (female)

description: Gene expression data from the neocortex of wild-type mouse


title: S1P2-KO-neocortex, biological rep9 (female)


title: S1P2-KO-neocortex, biological rep1 (male)


title: Wild-type-neocortex, biological rep7 (female)


title: S1P2-KO-neocortex, biological rep2 (male)


title: Wild-type-neocortex, biological rep8 (female)


title: Wild-type-neocortex, biological rep10 (female)


title: Wild-type-neocortex, biological rep6 (female)


title: Wild-type-neocortex, biological rep5 (male)


title: Wild-type-neocortex, biological rep3 (male)


title: MRGR3_stationary_phase_exp1

type: mixed

city: Geneva

first: FRANCOIS

last: Patrice

state: Ge 4

address: Rue Gabrielle-Perret-Gentil, 4

department: Service of Infectious Diseases

country: Switzerland

institute: Genomic Research Laboratory

description: Extraction using Agilent's Feature Extraction software

hyb_protocol: Agilent standard protocol 17H at 60 degrees  C; Agilent proprietary Buffers

scan_protocol: Agilent scanner, 100% PMT

data_processing: Lowess on Background subtracted values using Genespring 7

organism: Staphylococcus aureus

source_name: Total cDNA strain MRGR3

label_protocol: Direct labelling using RT and Cy-3 dCTP

growth_protocol: Mueller-Hinton broth 37 degrees C

extract_protocol: RNeasy Kit from Qiagen

treatment_protocol: Fixation in Ethanol-Acetone 1:1

tag: Stationary phase grown S.aureus MRGR3 strain

source_name: DNA pool

label_protocol: Random Primers with Kleenow fragment

extract_protocol: DNeasy Kit from Qiagen

tag: Genomic DNA from strain S.aureus N315, Mu50, Col and MW2


title: Wild-type-neocortex, biological rep4 (male)


title: 14-4_stationary_phase_exp1

source_name: Total cDNA strain 14-4

tag: Stationary phase grown S.aureus 14-4 strain


title: S1P2-KO-neocortex, biological rep3 (male)


title: Revertant_stationary_phase_exp1

hyb_protocol: Agilent standard protocol 17H at 60°C; Agilent proprietary Buffers

source_name: Total cDNA strain 14-4Rev

growth_protocol: Mueller-Hinton broth 37°C

tag: Stationary phase grown S.aureus 14-4Rev strain


title: 14-4_stationary_phase_exp2


title: Yeast magnesium starvation, 90 minutes 1a

status: Public on Mar 08 2007

city: Vienna

first: Jochen

middle: A

last: Stadler

address: Dr. Bohrgasse 9

department: Department of Genetics

country: Austria

institute: MFPL, University of Vienna

hyb_protocol: as described at the UHN Microarray Center (Toronto, CA) website (ver. 2004.11.04)

scan_protocol: Microarrays were read using an axon GenePix 4000B laser scanner (Axon Instruments) and analyzed with the GenePix Pro 3.0 software.

data_processing: Ratio of Medians (532/635)

organism: Saccharomyces cerevisiae

source_name: yeast cells 90 min Mg starv

growth_protocol: yeast cultures were grown in synthetic medium containing 1 mM MgCl2 to OD600 = 0.5. The cultures were centrifuged, washed twice with pre-warmed synthetic medium containing no MgCl2 (-Mg2+), and resuspended in the same medium.  cells were harvested after 90 minutes.

extract_protocol: Ausubel, F. M., R. Brent, R. E. Kingston, D. D. Moore, J. G. Seidman, J. A. Smith, and and K. Struhl. 1997. Current Protocols in Molecular Biology, pp. 13.12.1-13.12.5, J. Wiley and Sons, New York.

treatment_protocol: 90 min Mg starvation

tag: strain BY4741

source_name: yeast cells 90 min control

growth_protocol: yeast cultures were grown in synthetic medium containing 1 mM MgCl2 to OD600 = 0.5. The cultures were centrifuged, washed twice with pre-warmed synthetic medium containing 1mM MgCl2 (+Mg2+), and resuspended in the same medium.  cells were harvested after 90 minutes.

treatment_protocol: 90 min control


title: Wild-type-neocortex, biological rep1 (male)

extract_protocol: TRIzol extraction of total RNA was performed according to the manufacturer's instructions.


title: Yeast magnesium starvation, 90 minutes 1b

label_protocol: as described at the UHN Microarray Center (Toronto, CA) website (ver. 2004.11.04)


title: Yeast magnesium starvation, 90 minutes 2b

data_processing: Ratio of Medians (635/532)


title: MRGR3_stationary_phase_exp2


title: Revertant_stationary_phase_exp2


title: Yeast magnesium starvation, 90 minutes 2a


title: HCC2450(B)

status: Public on Mar 07 2007

city: Dallas

first: Luc

last: Girard

state: TX

address: 5323 Harry Hines Blvd

department: Hamon Center for Therapeutic Oncology Research

institute: UT Southwestern Medical Center

description: lung cancer cell line

hyb_protocol: Following fragmentation, 20 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station

scan_protocol: GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A

data_processing: Data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 250

source_name: lung cancer cell line

label_protocol: Biotinylated cRNA was prepared according to standard Affymetrix protocol from 5 microgram total RNA

growth_protocol: RPMI 5% BFS

extract_protocol: Qiagen RNeasy kit including DNase1 treatment

tag: Histology

value: squamous cell carcinoma

tag: Age:

tag: Sex

value: M

tag: Race:


title: Wild-type-neocortex, biological rep2 (male)


title: NHBEC(B)

description: Unimmortalized control

source_name: Normal Human Bronchial Epithelial Cell

growth_protocol: BEGM media from Clonetics

value: immortalized normal

tag: Age

value: F


title: HCC970(B)

description: lung cancer cell line

value: SCLC


title: SAEC(B)

description: Unimmortalized control

source_name: Small Airway Epithelial Cell

growth_protocol: SAGM media from Clonetics


title: HCC33(B)

description: lung cancer cell line

tag: Race

value: Caucasian


title: HCC1833(B)

description: lung cancer cell line

value: adenocarcinoma


title: 0NC: 0 hour NaCl C

description: Biological Replicate C (3/3). NaCl treated for 0h (control).

tag: Tissue

tag: Treatment

tag: Biological Replicate


title: H526(B2)

description: lung cancer cell line

value: caucasian


title: H82(B)

description: lung cancer cell line


title: H661(B)

description: lung cancer cell line

value: large cell carcinoma


title: H289(B)

description: lung cancer cell line


title: H889(B)

description: lung cancer cell line


title: H23(B)

description: lung cancer cell line

value: black


title: HCC2429(B)

description: lung cancer cell line

value: NSCLC


title: H841f(B)

description: lung cancer cell line


title: H2195(B)

description: lung cancer cell line


title: H3122(B)

description: lung cancer cell line

tag: Sex:


title: H378(B)

description: lung cancer cell line


title: H322(B)

description: lung cancer cell line

value: bronchoalveolar


title: H524(B)

description: lung cancer cell line


title: H28(B)

description: lung cancer cell line

value: mesothelioma


title: H2171(B)

description: lung cancer cell line


title: H2227(B)

description: lung cancer cell line


title: H2107(B)

description: lung cancer cell line


title: H2141(B)

description: lung cancer cell line


title: H1963(B)

description: lung cancer cell line


title: H2052(B)

description: lung cancer cell line


title: H187(B)

description: lung cancer cell line


title: H1607(B)

description: lung cancer cell line


title: H209(B2)

description: lung cancer cell line


title: H1792(B)

description: lung cancer cell line


title: H1155f(B)

description: lung cancer cell line


title: H128(B)

description: lung cancer cell line


title: Cutaneous melanoma cell line SK-MEL-28

status: Public on Mar 06 2007

city: Lund

first: Johan

last: Staaf

address: Medicon Village

country: Sweden

institute: SCIBLU - Swegene Centre for Integrative Biology at Lund University

description: Array CGH data for SK-MEL-28 melanoma cells

hyb_protocol: Hybridized and washed as described in J÷nsson et al. (Oncogene 2007)

scan_protocol: Scanned in Agilent Microarray scanner

data_processing: Image analysis was performed using Genepix v4.0. Resultsfile were uploaded into BASE where they were filtered and pin-based lowess normalized

label_protocol: Samples were labeled using the Invitrogen BioPrime array CGH labeling module

growth_protocol: Cells were grown according to suppliers recommendations

extract_protocol: Genomic DNA was extracted using a Machery-Nagel exctraction kit

source_name: Promega reference male DNA

tag: pooled lymphoblastoid genomic DNA from ten male individuals


title: H1184(B)

description: lung cancer cell line


title: H146(B2)

description: lung cancer cell line


title: Cutaneous melanoma cell line FM79

description: Array CGH data for FM79 melanoma cells


title: Cutaneous melanoma cell line FM45

description: Array CGH data for FM48 melanoma cells


title: Cutaneous melanoma cell line FM58

description: Array CGH data for FM58 melanoma cells


title: Cutaneous melanoma cell line FM55II

description: Array CGH data for FM55II melanoma cells


title: Cutaneous melanoma cell line FM88

description: Array CGH data for FM88 melanoma cells


title: Cutaneous melanoma cell line FM3

description: Array CGH data for FM3 melanoma cells


title: Cutaneous melanoma cell line FM56

description: Array CGH data for FM56 melanoma cells


title: Cutaneous melanoma cell line FM93

description: Array CGH data for FM93 melanoma cells


title: Cutaneous melanoma cell line FM92

description: Array CGH data for FM92 melanoma cells


title: S1P3-KO-neocortex, biological rep1 (male)

tag: C57BL/6N, adult, male


title: Cutaneous melanoma cell line FM9

description: Array CGH data for FM9 melanoma cells


title: Cutaneous melanoma cell line FM72

description: Array CGH data for FM72 melanoma cells


title: Cutaneous melanoma cell line FM76

description: Array CGH data for FM76 melanoma cells


title: Cutaneous melanoma cell line FM28

description: Array CGH data for FM28 melanoma cells


title: Cutaneous melanoma cell line SK-MEL-19

description: Array CGH data for SK-MEL-19 melanoma cells


title: Cutaneous melanoma cell line FM86

description: Array CGH data for the FM86 melanoma cells


title: Cutaneous melanoma cell line SK-MEL-31

description: Array CGH data for SK-MEL-31 melanoma cells


title: Cutaneous melanoma cell line FM57

description: Array CGH data for FM57 melanoma cells


title: Cutaneous melanoma cell line FM116

description: Array CGH data for FM116 melanoma cells


title: Cutaneous melanoma cell line FM78

description: Array CGH data for FM78 melanoma cells


title: Cutaneous melanoma cell line EST71

description: Array CGH data for EST71 melanoma cells


title: Cutaneous melanoma cell line FM48

description: Array CGH data for FM48 melanoma cells


title: Cutaneous melanoma cell line FM2

description: Array CGH data for FM2 melanoma cells


title: Cutaneous melanoma cell line FM82

description: Array CGH data for FM82 melanoma cells