title: 006/08_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 006/08, cerebellar cortex


title: 015/10_cerebellar cortex

status: Public on Aug 29 2014

type: RNA

city: London

first: Mina

last: Ryten

address: Queen Square

department: Department of Molecular Neuroscience

country: United Kingdom

institute: UCL Institute of Neurology

hyb_protocol: Samples were hybridized using Affymetrix hybridization kit materials • Heat cocktails at 95° for 5 minutes, then 45° for 5 minutes. • Transfer 200μl of hyb solution to each array, then tape holes and parafilm. • Hybridize 16 hours at 45° at 60rpm• Fluidics washing is FS450_0001.

scan_protocol: Affymetrix GeneChip Scanner 3000 7G.

data_processing:
Data were processed using Affymetrix Power Tools 1.14.3. Arrays were pre-processed using RMA quantile normalization with background correction. Gene level summary signals were generated by calculating the Winsorized mean (10% and 90%) of all probe sets annotated to a transcript.
Probe group file: HuEx-1_0-st-v2.r2.pgf
Meta-probeset file: Core_adapted_from_netaffyx31
Transcript assignments are based on genome build hg19
Core exons only are included in this analysis

label: biotin

molecule: total RNA

organism: Homo sapiens

source_name: post-mortem brain tissue, individual ID 015/10, cerebellar cortex

label_protocol: Samples were enzymatically fragmented and biotinylated using the WT Terminal labelling kit (Affymetrix).

growth_protocol: Not applicable.

extract_protocol: Total RNA was extracted using the miRNeasy kit (Qiagen, UK). cDNA synthesis and amplification were performed using the Ambion┬«WT Expression Kit (Ambion, UK).

treatment_protocol: Not applicable.

tag: individual id

tag: brain region

value: cerebellar cortex

tag: disease status

value: neurologically and neuropathologically normal

tag: brain bank

value: MRC Sudden Death Brain & Tissue Bank in Edinburgh

tag: Cause of death

value: Ischaemic heart disease

tag: Sex

value: Male

tag: age at death (in years)

tag: post-mortem interval (in hours)

tag: ancestry

value: European

tag: brain ph

tag: rin


title: 020/10_thalamus

description: This entry supercedes previous accession: GSM1136062

source_name: post-mortem brain tissue, individual ID 020/10, thalamus

value: thalamus

value: Cardiac


title: 022/09_thalamus

description: This entry supercedes previous accession: GSM1136019

source_name: post-mortem brain tissue, individual ID 022/09, thalamus

value: Female


title: 07_28_thalamus

source_name: post-mortem brain tissue, individual ID 07_28, thalamus

value: Sun Health Research Institute


title: 010/09_thalamus

description: This entry supercedes previous accession: GSM1136006

source_name: post-mortem brain tissue, individual ID 010/09, thalamus


title: 023/09_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 023/09, cerebellar cortex


title: 030/06_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 030/06, cerebellar cortex


title: 023/10_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 023/10, cerebellar cortex


title: 022/09_white matter

description: This entry supercedes previous accession: GSM1135807

source_name: post-mortem brain tissue, individual ID 022/09, white matter

value: white matter


title: 007/06_white matter

description: This entry supercedes previous accession: GSM1135851

source_name: post-mortem brain tissue, individual ID 007/06, white matter


title: 99_14_thalamus

source_name: post-mortem brain tissue, individual ID 99_14, thalamus


title: 016/08_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 016/08, cerebellar cortex


title: 07_28_temporal cortex

source_name: post-mortem brain tissue, individual ID 07_28, temporal cortex

value: temporal cortex


title: 021/09_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 021/09, cerebellar cortex


title: 018/10_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 018/10, cerebellar cortex


title: 018/07_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 018/07, cerebellar cortex


title: 011/09_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 011/09, cerebellar cortex


title: 009/09_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 009/09, cerebellar cortex


title: 016/10_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 016/10, cerebellar cortex


title: 06_53_temporal cortex

source_name: post-mortem brain tissue, individual ID 06_53, temporal cortex


title: 039/06_temporal cortex

description: This entry supercedes previous accession: GSM1135933

source_name: post-mortem brain tissue, individual ID 039/06, temporal cortex


title: 007/06_temporal cortex

description: This entry supercedes previous accession: GSM1135923

source_name: post-mortem brain tissue, individual ID 007/06, temporal cortex


title: 039/06_white matter

description: This entry supercedes previous accession: GSM1135793

source_name: post-mortem brain tissue, individual ID 039/06, white matter


title: 027/09_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 027/09, cerebellar cortex


title: 06_53_substantia nigra

source_name: post-mortem brain tissue, individual ID 06_53, substantia nigra

value: substantia nigra


title: 022/09_temporal cortex

description: This entry supercedes previous accession: GSM1135910

source_name: post-mortem brain tissue, individual ID 022/09, temporal cortex


title: 010/09_temporal cortex

description: This entry supercedes previous accession: GSM1135945

source_name: post-mortem brain tissue, individual ID 010/09, temporal cortex


title: 025/09_temporal cortex

description: This entry supercedes previous accession: GSM1135939

source_name: post-mortem brain tissue, individual ID 025/09, temporal cortex


title: 014/10_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 014/10, cerebellar cortex


title: 024/08_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 024/08, cerebellar cortex


title: 028/09_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 028/09, cerebellar cortex


title: 04_19_temporal cortex

source_name: post-mortem brain tissue, individual ID 04_19, temporal cortex


title: 040/08_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 040/08, cerebellar cortex


title: 022/09_substantia nigra

description: This entry supercedes previous accession: GSM1135165

source_name: post-mortem brain tissue, individual ID 022/09, substantia nigra


title: 010/09_substantia nigra

description: This entry supercedes previous accession: GSM1135148

source_name: post-mortem brain tissue, individual ID 010/09, substantia nigra


title: 012/08_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 012/08, cerebellar cortex


title: 004/06_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 004/06, cerebellar cortex


title: 001/10_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 001/10, cerebellar cortex


title: 025/09_substantia nigra

description: This entry supercedes previous accession: GSM1135164

source_name: post-mortem brain tissue, individual ID 025/09, substantia nigra


title: 026/09_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 026/09, cerebellar cortex


title: 039/06_substantia nigra

description: This entry supercedes previous accession: GSM1135154

source_name: post-mortem brain tissue, individual ID 039/06, substantia nigra


title: 004/10_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 004/10, cerebellar cortex


title: 002/08_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 002/08, cerebellar cortex


title: 038/09_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 038/09, cerebellar cortex


title: 99_14_substantia nigra

source_name: post-mortem brain tissue, individual ID 99_14, substantia nigra


title: 007/08_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 007/08, cerebellar cortex


title: 038/08_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 038/08, cerebellar cortex


title: 007/06_putamen

description: This entry supercedes previous accession: GSM1135735

source_name: post-mortem brain tissue, individual ID 007/06, putamen

value: putamen


title: 025/09_putamen

description: This entry supercedes previous accession: GSM1135705

source_name: post-mortem brain tissue, individual ID 025/09, putamen


title: 07_28_substantia nigra

source_name: post-mortem brain tissue, individual ID 07_28, substantia nigra


title: 07_28_putamen

source_name: post-mortem brain tissue, individual ID 07_28, putamen


title: 022/06_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 022/06, cerebellar cortex


title: 008/10_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 008/10, cerebellar cortex


title: 026/08_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 026/08, cerebellar cortex


title: 039/06_occipital cortex

description: This entry supercedes previous accession: GSM1135597

source_name: post-mortem brain tissue, individual ID 039/06, occipital cortex

value: occipital cortex


title: 004/08_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 004/08, cerebellar cortex


title: 039/06_putamen

description: This entry supercedes previous accession: GSM1135673

source_name: post-mortem brain tissue, individual ID 039/06, putamen


title: 020/10_putamen

description: This entry supercedes previous accession: GSM1135691

source_name: post-mortem brain tissue, individual ID 020/10, putamen


title: 033/09_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 033/09, cerebellar cortex


title: 018/08_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 018/08, cerebellar cortex


title: 06_53_putamen

source_name: post-mortem brain tissue, individual ID 06_53, putamen


title: 007/06_occipital cortex

description: This entry supercedes previous accession: GSM1135648

source_name: post-mortem brain tissue, individual ID 007/06, occipital cortex


title: 022/09_putamen

description: This entry supercedes previous accession: GSM1135683

source_name: post-mortem brain tissue, individual ID 022/09, putamen


title: 04_19_putamen

source_name: post-mortem brain tissue, individual ID 04_19, putamen


title: 010/09_putamen

description: This entry supercedes previous accession: GSM1135693

source_name: post-mortem brain tissue, individual ID 010/09, putamen


title: 003/08_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 003/08, cerebellar cortex


title: 043/06_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 043/06, cerebellar cortex


title: 011/10_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 011/10, cerebellar cortex


title: 025/09_occipital cortex

description: This entry supercedes previous accession: GSM1135611

source_name: post-mortem brain tissue, individual ID 025/09, occipital cortex


title: 07_28_occipital cortex

source_name: post-mortem brain tissue, individual ID 07_28, occipital cortex


title: 024/09_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 024/09, cerebellar cortex


title: 022/09_occipital cortex

description: This entry supercedes previous accession: GSM1135624

source_name: post-mortem brain tissue, individual ID 022/09, occipital cortex


title: 010/09_occipital cortex

description: This entry supercedes previous accession: GSM1135580

source_name: post-mortem brain tissue, individual ID 010/09, occipital cortex


title: 020/10_occipital cortex

description: This entry supercedes previous accession: GSM1135582

source_name: post-mortem brain tissue, individual ID 020/10, occipital cortex


title: 031/08_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 031/08, cerebellar cortex


title: 015/07_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 015/07, cerebellar cortex


title: 04_19_occipital cortex

source_name: post-mortem brain tissue, individual ID 04_19, occipital cortex


title: 026/07_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 026/07, cerebellar cortex


title: 010/09_medulla

description: This entry supercedes previous accession: GSM1135518

source_name: post-mortem brain tissue, individual ID 010/09, medulla

value: medulla


title: 007/10_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 007/10, cerebellar cortex


title: 017/07_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 017/07, cerebellar cortex


title: 025/09_medulla

description: This entry supercedes previous accession: GSM1135528

source_name: post-mortem brain tissue, individual ID 025/09, medulla


title: 013/09_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 013/09, cerebellar cortex


title: 007/06_medulla

description: This entry supercedes previous accession: GSM1135561

source_name: post-mortem brain tissue, individual ID 007/06, medulla


title: 039/06_medulla

description: This entry supercedes previous accession: GSM1135522

source_name: post-mortem brain tissue, individual ID 039/06, medulla


title: 015/09_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 015/09, cerebellar cortex


title: 016/09_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 016/09, cerebellar cortex


title: 06_53_medulla

source_name: post-mortem brain tissue, individual ID 06_53, medulla


title: 020/10_medulla

description: This entry supercedes previous accession: GSM1135501

source_name: post-mortem brain tissue, individual ID 020/10, medulla


title: 07_28_medulla

source_name: post-mortem brain tissue, individual ID 07_28, medulla


title: 022/09_medulla

description: This entry supercedes previous accession: GSM1135507

source_name: post-mortem brain tissue, individual ID 022/09, medulla


title: 99_14_medulla

source_name: post-mortem brain tissue, individual ID 99_14, medulla


title: 025/08_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 025/08, cerebellar cortex


title: 018/05_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 018/05, cerebellar cortex


title: 020/08_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 020/08, cerebellar cortex


title: 028/10_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 028/10, cerebellar cortex


title: 06_53_white matter

source_name: post-mortem brain tissue, individual ID 06_53, white matter


title: 013/10_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 013/10, cerebellar cortex


title: 007/06_hippocampus

description: This entry supercedes previous accession: GSM1135456

source_name: post-mortem brain tissue, individual ID 007/06, hippocampus

value: hippocampus


title: 020/10_hippocampus

description: This entry supercedes previous accession: GSM1135410

source_name: post-mortem brain tissue, individual ID 020/10, hippocampus


title: 039/06_white matter

source_name: post-mortem brain tissue, individual ID 039/06, white matter


title: 022/09_white matter

source_name: post-mortem brain tissue, individual ID 022/09, white matter


title: 06_53_occipital cortex

source_name: post-mortem brain tissue, individual ID 06_53, occipital cortex


title: 07_28_hippocampus

source_name: post-mortem brain tissue, individual ID 07_28, hippocampus


title: 07_28_white matter

source_name: post-mortem brain tissue, individual ID 07_28, white matter


title: 017/09_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 017/09, cerebellar cortex

value: cerebellar cortex


title: 025/09_white matter

source_name: post-mortem brain tissue, individual ID 025/09, white matter

value: neurologically and neuropathologically normal


title: 010/09_hippocampus

description: This entry supercedes previous accession: GSM1135431

source_name: post-mortem brain tissue, individual ID 010/09, hippocampus

value: MRC Sudden Death Brain & Tissue Bank in Edinburgh


title: 04_19_hippocampus

source_name: post-mortem brain tissue, individual ID 04_19, hippocampus


title: 06_53_hippocampus

source_name: post-mortem brain tissue, individual ID 06_53, hippocampus


title: 010/09_white matter

source_name: post-mortem brain tissue, individual ID 010/09, white matter


title: 039/06_hippocampus

description: This entry supercedes previous accession: GSM1135428

source_name: post-mortem brain tissue, individual ID 039/06, hippocampus


title: 022/09_hippocampus

description: This entry supercedes previous accession: GSM1135422

source_name: post-mortem brain tissue, individual ID 022/09, hippocampus


title: 025/10_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 025/10, cerebellar cortex

value: Ischaemic heart disease


title: 025/09_hippocampus

description: This entry supercedes previous accession: GSM1135387

source_name: post-mortem brain tissue, individual ID 025/09, hippocampus

value: Male


title: 99_14_hippocampus

source_name: post-mortem brain tissue, individual ID 99_14, hippocampus

value: European


title: 007/06_white matter

source_name: post-mortem brain tissue, individual ID 007/06, white matter


title: 020/10_white matter

source_name: post-mortem brain tissue, individual ID 020/10, white matter


title: 010/09_frontal cortex

description: This entry supercedes previous accession: GSM1135335

source_name: post-mortem brain tissue, individual ID 010/09, frontal cortex

value: frontal cortex


title: 07_28_frontal cortex

source_name: post-mortem brain tissue, individual ID 07_28, frontal cortex

value: Cardiac


title: 99_14_white matter

source_name: post-mortem brain tissue, individual ID 99_14, white matter


title: 06_53_frontal cortex

source_name: post-mortem brain tissue, individual ID 06_53, frontal cortex


title: 039/06_frontal cortex

description: This entry supercedes previous accession: GSM1135302

source_name: post-mortem brain tissue, individual ID 039/06, frontal cortex

value: Female


title: 025/09_frontal cortex

description: This entry supercedes previous accession: GSM1135286

source_name: post-mortem brain tissue, individual ID 025/09, frontal cortex


title: 04_19_white matter

source_name: post-mortem brain tissue, individual ID 04_19, white matter

value: Sun Health Research Institute


title: 007/06_thalamus

source_name: post-mortem brain tissue, individual ID 007/06, thalamus

value: thalamus


title: 022/09_frontal cortex

description: This entry supercedes previous accession: GSM1135290

source_name: post-mortem brain tissue, individual ID 022/09, frontal cortex


title: 025/09_thalamus

source_name: post-mortem brain tissue, individual ID 025/09, thalamus


title: 039/06_thalamus

source_name: post-mortem brain tissue, individual ID 039/06, thalamus


title: 022/09_thalamus

source_name: post-mortem brain tissue, individual ID 022/09, thalamus


title: 020/10_frontal cortex

description: This entry supercedes previous accession: GSM1135318

source_name: post-mortem brain tissue, individual ID 020/10, frontal cortex


title: 07_28_thalamus

source_name: post-mortem brain tissue, individual ID 07_28, thalamus


title: 06_53_thalamus

source_name: post-mortem brain tissue, individual ID 06_53, thalamus


title: 020/10_thalamus

source_name: post-mortem brain tissue, individual ID 020/10, thalamus


title: 07_28_temporal cortex

source_name: post-mortem brain tissue, individual ID 07_28, temporal cortex

value: temporal cortex


title: 99_14_thalamus

source_name: post-mortem brain tissue, individual ID 99_14, thalamus


title: 04_19_frontal cortex

source_name: post-mortem brain tissue, individual ID 04_19, frontal cortex


title: 99_14_frontal cortex

source_name: post-mortem brain tissue, individual ID 99_14, frontal cortex


title: 010/09_thalamus

source_name: post-mortem brain tissue, individual ID 010/09, thalamus


title: 96_32_white matter

source_name: post-mortem brain tissue, individual ID 96_32, white matter

value: white matter

value: Cancer


title: 97_14_white matter

source_name: post-mortem brain tissue, individual ID 97_14, white matter


title: 039/06_temporal cortex

source_name: post-mortem brain tissue, individual ID 039/06, temporal cortex


title: 08_88_white matter

source_name: post-mortem brain tissue, individual ID 08_88, white matter


title: 07_28_substantia nigra

source_name: post-mortem brain tissue, individual ID 07_28, substantia nigra

value: substantia nigra


title: 04_05_white matter

source_name: post-mortem brain tissue, individual ID 04_05, white matter


title: 025/09_temporal cortex

source_name: post-mortem brain tissue, individual ID 025/09, temporal cortex


title: 010/09_substantia nigra

source_name: post-mortem brain tissue, individual ID 010/09, substantia nigra


title: 039/06_substantia nigra

source_name: post-mortem brain tissue, individual ID 039/06, substantia nigra


title: 025/09_substantia nigra

source_name: post-mortem brain tissue, individual ID 025/09, substantia nigra


title: 025/09_putamen

source_name: post-mortem brain tissue, individual ID 025/09, putamen

value: putamen


title: 020/10_putamen

source_name: post-mortem brain tissue, individual ID 020/10, putamen


title: 022/09_temporal cortex

source_name: post-mortem brain tissue, individual ID 022/09, temporal cortex


title: 04_19_temporal cortex

source_name: post-mortem brain tissue, individual ID 04_19, temporal cortex


title: 022/09_substantia nigra

source_name: post-mortem brain tissue, individual ID 022/09, substantia nigra


title: 06_53_temporal cortex

source_name: post-mortem brain tissue, individual ID 06_53, temporal cortex


title: 99_14_substantia nigra

source_name: post-mortem brain tissue, individual ID 99_14, substantia nigra


title: 03_28_white matter

source_name: post-mortem brain tissue, individual ID 03_28, white matter


title: 010/09_temporal cortex

source_name: post-mortem brain tissue, individual ID 010/09, temporal cortex


title: 96_13_white matter

source_name: post-mortem brain tissue, individual ID 96_13, white matter


title: 022/09_putamen

source_name: post-mortem brain tissue, individual ID 022/09, putamen


title: 94_35_white matter

source_name: post-mortem brain tissue, individual ID 94_35, white matter


title: 007/06_temporal cortex

source_name: post-mortem brain tissue, individual ID 007/06, temporal cortex


title: 039/06_putamen

source_name: post-mortem brain tissue, individual ID 039/06, putamen


title: 007/06_putamen

source_name: post-mortem brain tissue, individual ID 007/06, putamen


title: 09_56_white matter

source_name: post-mortem brain tissue, individual ID 09_56, white matter


title: 05_10_white matter

source_name: post-mortem brain tissue, individual ID 05_10, white matter


title: 06_53_substantia nigra

source_name: post-mortem brain tissue, individual ID 06_53, substantia nigra


title: 96_13_thalamus

source_name: post-mortem brain tissue, individual ID 96_13, thalamus


title: 95_26_white matter

source_name: post-mortem brain tissue, individual ID 95_26, white matter


title: 98_34_white matter

source_name: post-mortem brain tissue, individual ID 98_34, white matter


title: 04_05_thalamus

source_name: post-mortem brain tissue, individual ID 04_05, thalamus


title: 09_56_thalamus

source_name: post-mortem brain tissue, individual ID 09_56, thalamus


title: 04_19_putamen

source_name: post-mortem brain tissue, individual ID 04_19, putamen


title: 07_28_putamen

source_name: post-mortem brain tissue, individual ID 07_28, putamen


title: 97_14_thalamus

source_name: post-mortem brain tissue, individual ID 97_14, thalamus


title: 010/09_putamen

source_name: post-mortem brain tissue, individual ID 010/09, putamen


title: 025/09_occipital cortex

source_name: post-mortem brain tissue, individual ID 025/09, occipital cortex

value: occipital cortex


title: 98_34_thalamus

source_name: post-mortem brain tissue, individual ID 98_34, thalamus


title: 007/06_occipital cortex

source_name: post-mortem brain tissue, individual ID 007/06, occipital cortex


title: 010/09_occipital cortex

source_name: post-mortem brain tissue, individual ID 010/09, occipital cortex


title: 039/06_occipital cortex

source_name: post-mortem brain tissue, individual ID 039/06, occipital cortex


title: 96_13_temporal cortex

source_name: post-mortem brain tissue, individual ID 96_13, temporal cortex


title: 94_35_thalamus

source_name: post-mortem brain tissue, individual ID 94_35, thalamus


title: 95_26_thalamus

source_name: post-mortem brain tissue, individual ID 95_26, thalamus


title: 06_53_occipital cortex

source_name: post-mortem brain tissue, individual ID 06_53, occipital cortex


title: 96_32_thalamus

source_name: post-mortem brain tissue, individual ID 96_32, thalamus


title: 007/06_frontal cortex

description: This entry supercedes previous accession: GSM1135347

source_name: post-mortem brain tissue, individual ID 007/06, frontal cortex


title: 07_28_occipital cortex

source_name: post-mortem brain tissue, individual ID 07_28, occipital cortex


title: 04_05_temporal cortex

source_name: post-mortem brain tissue, individual ID 04_05, temporal cortex


title: 08_88_temporal cortex

source_name: post-mortem brain tissue, individual ID 08_88, temporal cortex


title: 09_56_temporal cortex

source_name: post-mortem brain tissue, individual ID 09_56, temporal cortex


title: 06_53_putamen

source_name: post-mortem brain tissue, individual ID 06_53, putamen


title: Chimeric liver_human_PB_1000ppm_14

city: Osaka

first: Kayo

last: Sumida

address: 1-98, Kasugadenaka 3-chome, Konohana-ku

department: Environmental Health Science Laboratory

country: Japan

institute: Sumitomo Chemical Co., Ltd.

description: Gene expression after 7 days of administration

hyb_protocol: 600 ng of Cy3-labelled cRNA (specific activity >6.0 pmol Cy3/ug cRNA) was fragmented at 60°C for 30 minutes in a reaction volume of 25 ul containing 25x Agilent fragmentation buffer and 10x Agilent blocking agent following the manufacturers instructions. On completion of the fragmentation reaction, 25 ul of 2x Agilent hybridization buffer was added to the fragmentation mixture and hybridized to Agilent SurePrint G3 Human GE v2 8x60K Microarrays for 17 hours at 65 °C in a rotating Agilent hybridization oven.  After hybridization, microarrays were washed 1 minute at room temperature with GE Wash Buffer 1 (Agilent) and 1 minute with 37 °C GE Wash buffer 2 (Agilent), then dried immediately by brief centrifugation.

scan_protocol: Slides were scanned immediately after washing on the Agilent DNA Microarray Scanner (G2565CA) using one color scan setting for 8x60k array slides (Scan Area 61x21.6 mm, Scan resolution 3 um, Dye channel is set to Green and Green PMT is set to 100%).

data_processing: The scanned images were analyzed with Feature Extraction Software 10.7 (Agilent) using default parameters (protocol GE1_107_Sep09 and Grid: 039494_D_F_20120628) to obtain background subtracted and spatially detrended Processed Signal intensities.  Features flagged in Feature Extraction as Feature Non-uniform outliers were excluded.

organism:
Homo sapiens
Mus musculus

source_name: Chimeric Liver, 7days, 1000ppm, replicate 5

label_protocol: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.1 ug RNA using the Low Input Quick Amp Labeling kit, one-color (Agilent) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).  Dye incorporation and cRNA yield were checked with the NanoDrop ND-2000 Spectrophotometer.

extract_protocol: Total RNA was prepared using the Isogen solution (Nippon Gene, Tokyo, Japan) and RNeasy Mini Kits (QIAGEN, Valencia, CA) from liver following the manufacturer's recommendations.  RNA was quantified using a NanoDrop-2000 spectrophotometer (Thermo Fisher Scientific, Waltham, MA).

treatment_protocol: Male chimeric mice (4-5 animals/dose) also fed diets containing 0 (control) or 1000 ppm NaPB for 7 days. Liver samples were used for gene expression analysis.

tag: background strain

tag: tissue

value: Liver (human hepatocytes)

tag: gender

value: male


title: 039/06_medulla

source_name: post-mortem brain tissue, individual ID 039/06, medulla

value: medulla

value: neurologically and neuropathologically normal

value: MRC Sudden Death Brain & Tissue Bank in Edinburgh


title: 022/09_occipital cortex

source_name: post-mortem brain tissue, individual ID 022/09, occipital cortex

value: European


title: 020/10_occipital cortex

source_name: post-mortem brain tissue, individual ID 020/10, occipital cortex

value: Male


title: 96_32_temporal cortex

source_name: post-mortem brain tissue, individual ID 96_32, temporal cortex


title: 04_19_occipital cortex

source_name: post-mortem brain tissue, individual ID 04_19, occipital cortex

value: Cardiac


title: Chimeric liver_human_PB_1000ppm_10

source_name: Chimeric Liver, 7days, 1000ppm, replicate 1


title: 010/09_medulla

source_name: post-mortem brain tissue, individual ID 010/09, medulla


title: 007/06_medulla

source_name: post-mortem brain tissue, individual ID 007/06, medulla


title: Chimeric liver_human_PB_1000ppm_13

source_name: Chimeric Liver, 7days, 1000ppm, replicate 4


title: Chimeric liver_human_PB_1000ppm_12

source_name: Chimeric Liver, 7days, 1000ppm, replicate 3


title: Chimeric liver_human_PB_1000ppm_11

source_name: Chimeric Liver, 7days, 1000ppm, replicate 2


title: 95_26_temporal cortex

source_name: post-mortem brain tissue, individual ID 95_26, temporal cortex


title: 97_14_temporal cortex

source_name: post-mortem brain tissue, individual ID 97_14, temporal cortex


title: 025/09_medulla

source_name: post-mortem brain tissue, individual ID 025/09, medulla


title: Chimeric liver_human_PB_control_3

source_name: Chimeric Liver, 7days, 0ppm, replicate 3


title: 06_53_medulla

source_name: post-mortem brain tissue, individual ID 06_53, medulla


title: 020/10_medulla

source_name: post-mortem brain tissue, individual ID 020/10, medulla


title: Chimeric liver_human_PB_control_4

source_name: Chimeric Liver, 7days, 0ppm, replicate 4


title: 94_35_temporal cortex

source_name: post-mortem brain tissue, individual ID 94_35, temporal cortex

value: Female


title: Chimeric liver_human_PB_control_2

source_name: Chimeric Liver, 7days, 0ppm, replicate 2


title: Chimeric liver_human_PB_control_1

source_name: Chimeric Liver, 7days, 0ppm, replicate 1


title: 08_88_thalamus

source_name: post-mortem brain tissue, individual ID 08_88, thalamus

value: Sun Health Research Institute


title: 022/09_medulla

source_name: post-mortem brain tissue, individual ID 022/09, medulla


title: Liver_HC_04a

city: Nanjing

first: Dong

last: Haibo

state: Jiangsu

department: Nanjing Agricultural University

country: China

institute: Nanjing Agricultural University

description:
Sample name: 4a
Gene expression after feeding high concentrate diet for a long term

hyb_protocol: 1.5 ug of Cy3-labelled cRNA (specific activity >10.0 pmol Cy3/ug cRNA) was fragmented at 60°C for 30 minutes in a reaction volume of 250 ml containing 1x Agilent fragmentation buffer and 2x Agilent blocking agent following the manufacturers instructions. On completion of the fragmentation reaction, 250 ml of 2x Agilent hybridization buffer was added to the fragmentation mixture and hybridized to Agilent Capra hircus Custom Microarray for 17 hours at 65°C in a rotating Agilent hybridization oven.  After hybridization, microarrays were washed 1 minute at room temperature with GE Wash Buffer 1 (Agilent) and 1 minute with 37°C GE Wash buffer 2 (Agilent), then dried immediately by brief centrifugation.

scan_protocol: Slides were scanned immediately after washing on the Agilent DNA Microarray Scanner (G2505C) using one color scan setting for 8x60k array slides.

data_processing: The scanned images were analyzed with Feature Extraction Software 9.1 (Agilent) using default parameters (protocol GE1_107_Sep09 and Grid: 041492_D_F_20120605) to obtain background subtracted and spatially detrended Processed Signal intensities.  Features flagged in Feature Extraction as Feature Non-uniform outliers were excluded.

organism: Capra hircus

source_name: High concentrate diet, liver

label_protocol: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the One-Color Low RNA Input Linear Amplification PLUS kit (Agilent) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).  Dye incorporation and cRNA yield were checked with the NanoDrop ND-1000 Spectrophotometer.

growth_protocol: Eight mid-lactating goats with rumen cannulas were randomly assigned to two groups. For 9 weeks, the treatment group was fed a high-concentrate diet (60% concentrate of dry matter, HC) and the control group was fed a low-concentrate diet (40% concentrate of dry matter, LC).

extract_protocol: Total RNA was extracted from each dairy goat using TRIZOL reagent (Takara, Dalian, China) according to the manufacturer’s protocols.

treatment_protocol: The treatment group was fed a high-concentrate diet (60% concentrate of dry matter, HC) and the control group was fed a low-concentrate diet (40% concentrate of dry matter, LC) for 9 weeks.

value: Liver

value: female

tag: developmental stage

value: Mid-lactating

tag: diet

value: High concentrate diet


title: Liver_HC_007

description:
Sample name: 7
Gene expression after feeding high concentrate diet for a long term


title: 03_28_temporal cortex

source_name: post-mortem brain tissue, individual ID 03_28, temporal cortex

value: temporal cortex

value: Cancer


title: 98_34_temporal cortex

source_name: post-mortem brain tissue, individual ID 98_34, temporal cortex


title: Liver_HC_008

description:
Sample name: 8
Gene expression after feeding high concentrate diet for a long term


title: Liver_LC_001

description:
Sample name: 1
Gene expression after feeding low concentrate diet for a long term

source_name: Low concentrate diet, liver

value: Low concentrate diet


title: Liver_HC_004

description:
Sample name: 4
Gene expression after feeding high concentrate diet for a long term


title: Liver_LC_002

description:
Sample name: 2
Gene expression after feeding low concentrate diet for a long term


title: Liver_HC_005

description:
Sample name: 5
Gene expression after feeding high concentrate diet for a long term


title: 98_34_substantia nigra

source_name: post-mortem brain tissue, individual ID 98_34, substantia nigra

value: substantia nigra


title: 07_28_medulla

source_name: post-mortem brain tissue, individual ID 07_28, medulla


title: 05_10_temporal cortex

source_name: post-mortem brain tissue, individual ID 05_10, temporal cortex


title: 95_26_substantia nigra

source_name: post-mortem brain tissue, individual ID 95_26, substantia nigra


title: Pediatric LGG 81

city: Boston

first: Rameen

last: Beroukhim

state: MA

address: 450 Brookline Av

department: Cancer Biology

country: USA

institute: DANA-FARBER CANCER INSTITUTE

hyb_protocol: Refer to the Illumina beadarray Assay System

data_processing: Data were extracted and normalized using cubic spline algorithm implemented in GenePattern Illumina normalizer module (www.broadinstitute.org/genepattern).

label: Cy3 and Cy5

source_name: FFPE pediatric low-grade gliomas (PLGG)

treatment_protocol: FFPE tissue sections (10 micron-thick) sliced from FFPE blocks

value: low-grade glioma

tag: age

value: INF

tag: location

value: SUP

tag: histology

value: NOS

tag: braf status

value: MUT

tag: primary (p) or recurrent tumor

value: P

tag: primary tumor that further progressed


title: Pediatric LGG 78

scan_protocol: Refer to the Illumina beadarray Assay System

value: CHILD

value: DUP


title: Pediatric LGG 80

label_protocol: Refer to the Illumina beadarray Assay System

value: PA


title: Pediatric LGG 79

extract_protocol: Refer to the Illumina beadarray Assay System

value: DNT

value: WT


title: Pediatric LGG 76


title: Pediatric LGG 77


title: 94_35_substantia nigra

source_name: post-mortem brain tissue, individual ID 94_35, substantia nigra

tag: individual id

tag: brain region

tag: disease status

value: neurologically and neuropathologically normal

tag: brain bank

value: Sun Health Research Institute

tag: Cause of death

tag: Sex

value: Female

value: European


title: 007/06_hippocampus

source_name: post-mortem brain tissue, individual ID 007/06, hippocampus

value: hippocampus

value: MRC Sudden Death Brain & Tissue Bank in Edinburgh

value: Cardiac

value: Male

tag: age at death (in years)

tag: post-mortem interval (in hours)

tag: ancestry

tag: brain ph

tag: rin


title: Pediatric LGG 75

tag: tissue

value: low-grade glioma

tag: age

value: INF


title: Pediatric LGG 70

value: ADO

tag: location

value: SUP

tag: histology

value: DA


title: Pediatric LGG 71

tag: braf status

tag: primary (p) or recurrent tumor

value: P


title: Pediatric LGG 72

value: CHILD

value: PA

value: DUP

tag: primary tumor that further progressed


title: Pediatric LGG 74


title: 03_28_substantia nigra

source_name: post-mortem brain tissue, individual ID 03_28, substantia nigra

tag: individual id

tag: brain region

value: substantia nigra

value: neurologically and neuropathologically normal

value: Cancer


title: 96_13_substantia nigra

source_name: post-mortem brain tissue, individual ID 96_13, substantia nigra

tag: disease status

tag: brain bank

value: Sun Health Research Institute

value: Female

value: European


title: Pediatric LGG 73

value: MUT


title: Liver_LC_003

description:
Sample name: 3
Gene expression after feeding low concentrate diet for a long term

value: Liver

tag: gender

value: female

tag: developmental stage

value: Mid-lactating

tag: diet

value: Low concentrate diet


title: 99_14_hippocampus

source_name: post-mortem brain tissue, individual ID 99_14, hippocampus

value: hippocampus

tag: Cause of death

value: Cardiac

tag: Sex

value: Male

tag: age at death (in years)

tag: post-mortem interval (in hours)

tag: ancestry


title: Pediatric LGG 69

tag: tissue

value: low-grade glioma

tag: age

value: CHILD

tag: location

value: SUP

value: NOS

value: P


title: 99_14_medulla

source_name: post-mortem brain tissue, individual ID 99_14, medulla

value: medulla

value: neurologically and neuropathologically normal

tag: brain ph

tag: rin


title: 08_88_substantia nigra

source_name: post-mortem brain tissue, individual ID 08_88, substantia nigra

tag: individual id

value: substantia nigra

value: Sun Health Research Institute

value: Cancer


title: 020/10_hippocampus

source_name: post-mortem brain tissue, individual ID 020/10, hippocampus

tag: brain region

value: MRC Sudden Death Brain & Tissue Bank in Edinburgh

value: European


title: Pediatric LGG 66

tag: histology

value: DA

tag: braf status

value: MUT

tag: primary (p) or recurrent tumor

tag: primary tumor that further progressed


title: 05_10_substantia nigra

source_name: post-mortem brain tissue, individual ID 05_10, substantia nigra

tag: disease status

tag: brain bank


title: 07_28_hippocampus

source_name: post-mortem brain tissue, individual ID 07_28, hippocampus

value: hippocampus

tag: Cause of death

tag: Sex


title: 022/09_hippocampus

source_name: post-mortem brain tissue, individual ID 022/09, hippocampus

value: Cardiac

value: Female

tag: age at death (in years)

tag: post-mortem interval (in hours)


title: 04_19_hippocampus

source_name: post-mortem brain tissue, individual ID 04_19, hippocampus

value: Male

tag: ancestry


title: Pediatric LGG 68

tag: tissue

value: low-grade glioma

tag: age

value: ADO

value: INF

value: PA

value: DUP


title: Pediatric LGG 65

tag: location

value: SUP

value: GG

value: ND

value: P


title: Pediatric LGG 67

value: WT


title: Pediatric LGG 62

value: CHILD

value: R


title: Pediatric LGG 63


title: Pediatric LGG 64


title: 98_34_putamen

source_name: post-mortem brain tissue, individual ID 98_34, putamen

value: putamen

value: neurologically and neuropathologically normal

value: Sun Health Research Institute

value: Cancer

value: European

tag: brain ph

tag: rin


title: 04_05_substantia nigra

source_name: post-mortem brain tissue, individual ID 04_05, substantia nigra

tag: individual id

tag: brain region

value: substantia nigra

value: Female


title: Pediatric LGG 57

value: low-grade glioma

value: INF

tag: histology

tag: braf status


title: Pediatric LGG 60

value: PA

value: DUP

tag: primary (p) or recurrent tumor

tag: primary tumor that further progressed


title: Pediatric LGG 58

value: ADO


title: 96_32_substantia nigra

source_name: post-mortem brain tissue, individual ID 96_32, substantia nigra

tag: disease status

tag: brain bank


title: 025/09_hippocampus

source_name: post-mortem brain tissue, individual ID 025/09, hippocampus

value: hippocampus

value: MRC Sudden Death Brain & Tissue Bank in Edinburgh

tag: Cause of death

value: Cardiac

tag: Sex

value: Male


title: 039/06_hippocampus

source_name: post-mortem brain tissue, individual ID 039/06, hippocampus

tag: age at death (in years)

tag: post-mortem interval (in hours)


title: 06_53_hippocampus

source_name: post-mortem brain tissue, individual ID 06_53, hippocampus

tag: ancestry


title: Pediatric LGG 56

source_name: FFPE pediatric low-grade gliomas (PLGG)

tag: tissue

tag: age

value: P


title: Pediatric LGG 55

value: CHILD

tag: location

value: R


title: 07_28_frontal cortex

source_name: post-mortem brain tissue, individual ID 07_28, frontal cortex

value: frontal cortex

value: neurologically and neuropathologically normal

value: Sun Health Research Institute

tag: brain ph

tag: rin


title: Pediatric LGG 54


title: Pediatric LGG 59

value: SUP

value: WT


title: 03_28_putamen

source_name: post-mortem brain tissue, individual ID 03_28, putamen

tag: individual id

tag: brain region

value: putamen

value: Cancer

value: European


title: 95_26_putamen

source_name: post-mortem brain tissue, individual ID 95_26, putamen


title: 97_14_putamen

source_name: post-mortem brain tissue, individual ID 97_14, putamen


title: Pediatric LGG 52

value: low-grade glioma

tag: histology

value: GG

tag: braf status

value: MUT


title: 06_53_frontal cortex

source_name: post-mortem brain tissue, individual ID 06_53, frontal cortex


title: Pediatric LGG 51

value: ADO

value: INF

value: NOS

value: DUP

tag: primary (p) or recurrent tumor

tag: primary tumor that further progressed


title: Pediatric LGG 53

value: CHILD

value: P


title: 039/06_frontal cortex

source_name: post-mortem brain tissue, individual ID 039/06, frontal cortex

value: frontal cortex

tag: disease status

tag: brain bank

value: MRC Sudden Death Brain & Tissue Bank in Edinburgh

value: Cardiac

value: Female


title: 96_32_putamen

source_name: post-mortem brain tissue, individual ID 96_32, putamen

value: neurologically and neuropathologically normal

value: Sun Health Research Institute

tag: Cause of death

tag: Sex


title: 010/09_frontal cortex

source_name: post-mortem brain tissue, individual ID 010/09, frontal cortex

value: Male

tag: age at death (in years)

tag: post-mortem interval (in hours)


title: 94_35_putamen

source_name: post-mortem brain tissue, individual ID 94_35, putamen

value: putamen

value: Cancer

tag: ancestry

value: European


title: Pediatric LGG 44

tag: tissue

value: low-grade glioma

tag: age

value: SUP

value: PA

value: WT


title: Pediatric LGG 45

tag: location

value: INF

value: DUP


title: Pediatric LGG 48

value: CHILD

value: R


title: 025/09_frontal cortex

source_name: post-mortem brain tissue, individual ID 025/09, frontal cortex

value: frontal cortex

value: MRC Sudden Death Brain & Tissue Bank in Edinburgh

tag: brain ph

tag: rin


title: Pediatric LGG 50

value: ADO

value: P


title: 09_56_putamen

source_name: post-mortem brain tissue, individual ID 09_56, putamen

tag: individual id

tag: brain region

value: neurologically and neuropathologically normal

value: Sun Health Research Institute


title: Pediatric LGG 43

tag: histology

value: NOS

tag: braf status


title: Pediatric LGG 49

tag: primary (p) or recurrent tumor

tag: primary tumor that further progressed


title: Pediatric LGG 46

value: DA


title: 08_88_putamen

source_name: post-mortem brain tissue, individual ID 08_88, putamen

value: putamen

tag: disease status

tag: brain bank

value: Cancer

value: Male

value: European


title: 05_10_putamen

source_name: post-mortem brain tissue, individual ID 05_10, putamen

tag: Cause of death

tag: Sex


title: 04_05_putamen

source_name: post-mortem brain tissue, individual ID 04_05, putamen

value: Female

tag: age at death (in years)

tag: post-mortem interval (in hours)


title: 04_05_occipital cortex

source_name: post-mortem brain tissue, individual ID 04_05, occipital cortex

value: occipital cortex

tag: ancestry


title: Pediatric LGG 42

tag: tissue

value: low-grade glioma

tag: age

value: SUP

value: DUP


title: 020/10_frontal cortex

source_name: post-mortem brain tissue, individual ID 020/10, frontal cortex

value: frontal cortex

value: Cardiac

tag: brain ph


title: 007/06_frontal cortex

source_name: post-mortem brain tissue, individual ID 007/06, frontal cortex

value: MRC Sudden Death Brain & Tissue Bank in Edinburgh

tag: rin


title: Pediatric LGG 40

source_name: FFPE pediatric low-grade gliomas (PLGG)

value: CHILD

tag: location

value: WT

value: P


title: 039/06_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 039/06, cerebellar cortex

tag: individual id

tag: brain region

value: cerebellar cortex

value: neurologically and neuropathologically normal


title: 97_14_occipital cortex

source_name: post-mortem brain tissue, individual ID 97_14, occipital cortex

value: Sun Health Research Institute


title: 010/09_hippocampus

source_name: post-mortem brain tissue, individual ID 010/09, hippocampus

value: hippocampus


title: 99_14_frontal cortex

source_name: post-mortem brain tissue, individual ID 99_14, frontal cortex

value: Male


title: 04_19_frontal cortex

source_name: post-mortem brain tissue, individual ID 04_19, frontal cortex

value: European


title: Pediatric LGG 37

value: INF

tag: histology

value: PA

tag: braf status


title: Pediatric LGG 35

value: low-grade glioma

value: ADO

tag: primary (p) or recurrent tumor

tag: primary tumor that further progressed


title: Pediatric LGG 41

value: SUP

value: GG

value: MUT


title: 022/09_frontal cortex

source_name: post-mortem brain tissue, individual ID 022/09, frontal cortex

value: frontal cortex

tag: disease status

tag: brain bank

value: MRC Sudden Death Brain & Tissue Bank in Edinburgh

value: Cardiac

value: Female


title: Pediatric LGG 33

value: DUP

value: P


title: 07_28_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 07_28, cerebellar cortex

value: cerebellar cortex

value: neurologically and neuropathologically normal

value: Sun Health Research Institute

tag: Cause of death

tag: Sex


title: Pediatric LGG 34

value: CHILD


title: Pediatric LGG 38

value: INF

value: NOS

value: R


title: 09_56_occipital cortex

source_name: post-mortem brain tissue, individual ID 09_56, occipital cortex

value: occipital cortex

value: Cancer

value: Male

tag: age at death (in years)

tag: post-mortem interval (in hours)

value: European


title: Pediatric LGG 32

tag: tissue

value: low-grade glioma

value: SUP

value: WT


title: 96_13_occipital cortex

source_name: post-mortem brain tissue, individual ID 96_13, occipital cortex

value: Female

tag: ancestry


title: Pediatric LGG 31

tag: age

value: ADO

value: GG

value: MUT


title: 03_28_occipital cortex

source_name: post-mortem brain tissue, individual ID 03_28, occipital cortex

value: neurologically and neuropathologically normal

tag: brain ph

tag: rin


title: Pediatric LGG 30

tag: location

value: PA

value: DUP


title: 08_88_occipital cortex

source_name: post-mortem brain tissue, individual ID 08_88, occipital cortex

tag: individual id

tag: brain region

value: Sun Health Research Institute


title: 96_32_occipital cortex

source_name: post-mortem brain tissue, individual ID 96_32, occipital cortex


title: 020/10_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 020/10, cerebellar cortex

value: cerebellar cortex

value: MRC Sudden Death Brain & Tissue Bank in Edinburgh

value: Cardiac


title: 98_34_occipital cortex

source_name: post-mortem brain tissue, individual ID 98_34, occipital cortex

value: occipital cortex

value: Cancer


title: 010/09_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 010/09, cerebellar cortex

value: Male

value: European


title: 06_53_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 06_53, cerebellar cortex


title: Pediatric LGG 39

source_name: FFPE pediatric low-grade gliomas (PLGG)

value: low-grade glioma

value: SUP

tag: histology

value: OD

tag: braf status

value: P


title: 99_14_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 99_14, cerebellar cortex


title: Pediatric LGG 28

value: CHILD

value: GG

tag: primary (p) or recurrent tumor

tag: primary tumor that further progressed


title: Pediatric LGG 29

value: DNT

value: ND


title: Pediatric LGG 25

value: PA

value: DUP


title: Pediatric LGG 26

value: INF

value: R


title: 025/09_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 025/09, cerebellar cortex

value: cerebellar cortex

tag: disease status

value: neurologically and neuropathologically normal

tag: brain bank

value: MRC Sudden Death Brain & Tissue Bank in Edinburgh

value: Cardiac


title: Pediatric LGG 22

value: WT


title: Pediatric LGG 23

value: low-grade glioma

value: NOS


title: Pediatric LGG 27

value: SUP


title: Pediatric LGG 20

value: ADO

value: P


title: Pediatric LGG 21

value: CHILD


title: 94_35_occipital cortex

source_name: post-mortem brain tissue, individual ID 94_35, occipital cortex

value: occipital cortex

value: Sun Health Research Institute

tag: Cause of death

value: Cancer

tag: Sex

value: Female

value: European


title: Pediatric LGG 24

value: INF

value: PA

value: DUP


title: 05_10_occipital cortex

source_name: post-mortem brain tissue, individual ID 05_10, occipital cortex

value: neurologically and neuropathologically normal

value: Male

tag: age at death (in years)

tag: post-mortem interval (in hours)


title: Pediatric LGG 61

tag: tissue

value: WT


title: 95_26_occipital cortex

source_name: post-mortem brain tissue, individual ID 95_26, occipital cortex

tag: ancestry


title: Pediatric LGG 19

value: low-grade glioma

tag: age

value: GG

value: MUT


title: Pediatric LGG 47

value: ND

value: R


title: Pediatric LGG 18

value: ADO

value: SUP

value: DA

value: P


title: 04_19_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 04_19, cerebellar cortex

value: cerebellar cortex

value: Sun Health Research Institute

value: Cardiac

tag: brain ph

tag: rin


title: 97_14_white matter

source_name: post-mortem brain tissue, individual ID 97_14, white matter

tag: individual id

value: white matter

value: Cancer

value: European


title: Pediatric LGG 17

value: CHILD

tag: location


title: 96_32_medulla

source_name: post-mortem brain tissue, individual ID 96_32, medulla

tag: brain region

value: medulla

value: neurologically and neuropathologically normal

value: Female


title: 04_05_medulla

source_name: post-mortem brain tissue, individual ID 04_05, medulla


title: 96_13_medulla

source_name: post-mortem brain tissue, individual ID 96_13, medulla


title: 08_88_white matter

source_name: post-mortem brain tissue, individual ID 08_88, white matter

value: Male


title: Pediatric LGG 16

value: low-grade glioma

value: INF

tag: histology

value: PA

tag: braf status

value: DUP


title: 96_32_white matter

source_name: post-mortem brain tissue, individual ID 96_32, white matter


title: Pediatric LGG 14

tag: primary (p) or recurrent tumor

tag: primary tumor that further progressed


title: 04_05_white matter

source_name: post-mortem brain tissue, individual ID 04_05, white matter

tag: disease status

tag: brain bank


title: Pediatric LGG 11

value: ADO


title: 08_88_medulla

source_name: post-mortem brain tissue, individual ID 08_88, medulla

tag: Cause of death

tag: Sex


title: Pediatric LGG 8

value: SUP

value: DNT

value: WT

value: P


title: Pediatric LGG 13


title: Pediatric LGG 10

value: GG

value: DUP/MUT


title: 09_56_medulla

source_name: post-mortem brain tissue, individual ID 09_56, medulla

value: Sun Health Research Institute

value: Cancer

tag: age at death (in years)

tag: post-mortem interval (in hours)

value: European


title: 95_26_white matter

source_name: post-mortem brain tissue, individual ID 95_26, white matter

value: white matter

value: neurologically and neuropathologically normal

tag: ancestry


title: Pediatric LGG 15

source_name: FFPE pediatric low-grade gliomas (PLGG)

tag: tissue

tag: age

value: CHILD


title: Pediatric LGG 12

value: low-grade glioma

value: NOS

value: MUT


title: 97_14_medulla

source_name: post-mortem brain tissue, individual ID 97_14, medulla

value: medulla

value: Male

tag: brain ph

tag: rin


title: Pediatric LGG 36

tag: location

value: SUP


title: 98_34_hippocampus

source_name: post-mortem brain tissue, individual ID 98_34, hippocampus

tag: individual id

tag: brain region

value: hippocampus

value: Female


title: Pediatric LGG 9

tag: histology

tag: braf status

value: WT

value: P


title: 09_56_white matter

source_name: post-mortem brain tissue, individual ID 09_56, white matter


title: 022/09_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 022/09, cerebellar cortex

value: cerebellar cortex

value: MRC Sudden Death Brain & Tissue Bank in Edinburgh

value: Cardiac


title: Pediatric LGG 5

value: DA

value: ND

tag: primary (p) or recurrent tumor

tag: primary tumor that further progressed


title: Pediatric LGG 4

value: ADO

value: PA


title: 03_28_white matter

source_name: post-mortem brain tissue, individual ID 03_28, white matter

value: white matter

tag: disease status

value: neurologically and neuropathologically normal

tag: brain bank

value: Sun Health Research Institute

value: Cancer

value: European


title: Pediatric LGG 3

value: low-grade glioma

value: CHILD

value: INF


title: 96_13_white matter

source_name: post-mortem brain tissue, individual ID 96_13, white matter

tag: Cause of death

tag: Sex

value: Female


title: Pediatric LGG 2

value: SUP

value: DNT

value: WT

value: P


title: Pediatric LGG 1

value: NOS


title: 94_35_hippocampus

source_name: post-mortem brain tissue, individual ID 94_35, hippocampus

value: hippocampus

tag: age at death (in years)

tag: post-mortem interval (in hours)


title: 94_35_white matter

source_name: post-mortem brain tissue, individual ID 94_35, white matter

tag: ancestry


title: 98_34_white matter

source_name: post-mortem brain tissue, individual ID 98_34, white matter


title: Pediatric LGG 6

tag: tissue

tag: age

value: MUT


title: 05_10_hippocampus

source_name: post-mortem brain tissue, individual ID 05_10, hippocampus

value: Male

tag: brain ph

tag: rin


title: Pediatric LGG 7

tag: location

value: GG


title: 95_26_hippocampus

source_name: post-mortem brain tissue, individual ID 95_26, hippocampus

tag: individual id

tag: brain region

value: neurologically and neuropathologically normal


title: 05_10_white matter

source_name: post-mortem brain tissue, individual ID 05_10, white matter

value: white matter

value: Sun Health Research Institute


title: 09_56_hippocampus

source_name: post-mortem brain tissue, individual ID 09_56, hippocampus

value: Cancer

value: European


title: 96_13_thalamus

source_name: post-mortem brain tissue, individual ID 96_13, thalamus

value: thalamus


title: 96_13_hippocampus

source_name: post-mortem brain tissue, individual ID 96_13, hippocampus


title: 04_05_thalamus

source_name: post-mortem brain tissue, individual ID 04_05, thalamus


title: IL1_8_5

city: Stevenage

first: Glyn

last: Bradley

address: Medicines Research Centre

department: Computational Biology

institute: GSK

description: Gene expression Data from HLF cells incubated with IL1 for 8 hour

hyb_protocol: Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetwix U133A arrays.

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

data_processing: Data were analysed in R/Bioconductor, normalised by RMA

label: Biotin

source_name: Human Lung Fibroblasts

label_protocol: Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA

growth_protocol: Standard culturing conditions

extract_protocol: Trizol extraction of total RNA according to the manufactures instructions

treatment_protocol: The agents were added to the cell culture medium and incubated for the desired time.

tag: cell type

value: fibroblasts

value: lung

tag: treatment

tag: time


title: IL1_8_6


title: 09_56_thalamus

source_name: post-mortem brain tissue, individual ID 09_56, thalamus

tag: disease status


title: 97_14_hippocampus

source_name: post-mortem brain tissue, individual ID 97_14, hippocampus

tag: brain bank


title: IL1_1_6

description: Gene expression Data from HLF cells incubated with IL1 for 1 hour


title: IL1_2_5

description: Gene expression Data from HLF cells incubated with IL1 for 2 hour


title: IL1_2_6


title: Cntl_8h_6

description: Gene expression Data from HLF cells


title: Cntl_2h_6

description: Gene expression Data from HLF cells


title: 97_14_thalamus

source_name: post-mortem brain tissue, individual ID 97_14, thalamus

tag: Cause of death


title: IL1_1_5


title: 04_05_hippocampus

source_name: post-mortem brain tissue, individual ID 04_05, hippocampus

tag: Sex

value: Female


title: 08_88_hippocampus

source_name: post-mortem brain tissue, individual ID 08_88, hippocampus

tag: age at death (in years)


title: 98_34_thalamus

source_name: post-mortem brain tissue, individual ID 98_34, thalamus

tag: post-mortem interval (in hours)


title: 03_28_hippocampus

source_name: post-mortem brain tissue, individual ID 03_28, hippocampus

tag: ancestry


title: IL1_0.5h_6

description: Gene expression Data from HLF cells incubated with IL1 for 0.5 hours

tag: tissue


title: 08_88_thalamus

source_name: post-mortem brain tissue, individual ID 08_88, thalamus


title: Cntl_1h_6

description: Gene expression Data from HLF cells


title: 04_05_frontal cortex

source_name: post-mortem brain tissue, individual ID 04_05, frontal cortex

value: frontal cortex


title: 95_26_thalamus

source_name: post-mortem brain tissue, individual ID 95_26, thalamus


title: GW849825X_8h_1_2

description: Gene expression Data from HLF cells incubated with TGFBeta and GW849825X for 8hours

value: TGFbeta and GW849825X


title: 97_14_frontal cortex

source_name: post-mortem brain tissue, individual ID 97_14, frontal cortex


title: Cntl_0.5h_6

description: Gene expression Data from HLF cells


title: 96_32_thalamus

source_name: post-mortem brain tissue, individual ID 96_32, thalamus


title: TGFBeta_8h_6

description: Gene expression Data from HLF cells incubated with TGFBeta for 8hours

value: TGFBeta


title: IL1_0.5h_5


title: GW849825X_8h_1_3


title: 96_13_frontal cortex

source_name: post-mortem brain tissue, individual ID 96_13, frontal cortex


title: 04_05_temporal cortex

source_name: post-mortem brain tissue, individual ID 04_05, temporal cortex

value: temporal cortex


title: 94_35_thalamus

source_name: post-mortem brain tissue, individual ID 94_35, thalamus


title: Cntl_8h_5

description: Gene expression Data from HLF cells


title: 09_56_frontal cortex

source_name: post-mortem brain tissue, individual ID 09_56, frontal cortex


title: EGF_8_6

description: Gene expression Data from HLF cells incubated with EGF for 8 hour

source_name: Human Lung Fibroblasts

value: EGF


title: GSK258899A_1_8h_3

description: Gene expression Data from HLF cells incubated with GSK258899A for 8hours


title: TGFBeta_8h_5


title: EGF_2_6

description: Gene expression Data from HLF cells incubated with EGF for 2 hour


title: EGF_2_5


title: 96_13_temporal cortex

source_name: post-mortem brain tissue, individual ID 96_13, temporal cortex


title: Cntl_2h_5

description: Gene expression Data from HLF cells


title: 08_88_frontal cortex

source_name: post-mortem brain tissue, individual ID 08_88, frontal cortex


title: 95_26_frontal cortex

source_name: post-mortem brain tissue, individual ID 95_26, frontal cortex


title: 09_56_temporal cortex

source_name: post-mortem brain tissue, individual ID 09_56, temporal cortex


title: EGF_8_5


title: EGF_1_6

description: Gene expression Data from HLF cells incubated with EGF for 1 hour


title: 03_28_frontal cortex

source_name: post-mortem brain tissue, individual ID 03_28, frontal cortex


title: 96_32_frontal cortex

source_name: post-mortem brain tissue, individual ID 96_32, frontal cortex


title: EGF_0.5h_5

description: Gene expression Data from HLF cells incubated with EGF for 0.5 hours


title: 96_32_temporal cortex

source_name: post-mortem brain tissue, individual ID 96_32, temporal cortex


title: 08_88_temporal cortex

source_name: post-mortem brain tissue, individual ID 08_88, temporal cortex


title: Cntl_1h_5

description: Gene expression Data from HLF cells


title: 97_14_temporal cortex

source_name: post-mortem brain tissue, individual ID 97_14, temporal cortex


title: 98_34_frontal cortex

source_name: post-mortem brain tissue, individual ID 98_34, frontal cortex


title: GW849825X_8h_1_1


title: EGF_0.5h_6


title: TGFBeta_8h_4


title: TGFBeta_8h_3


title: 95_26_temporal cortex

source_name: post-mortem brain tissue, individual ID 95_26, temporal cortex


title: GSK258899A_1_8h_2


title: 94_35_frontal cortex

source_name: post-mortem brain tissue, individual ID 94_35, frontal cortex


title: Cntl_0.5h_5

description: Gene expression Data from HLF cells


title: 05_10_frontal cortex

source_name: post-mortem brain tissue, individual ID 05_10, frontal cortex


title: Cntl_2h_4

description: Gene expression Data from HLF cells


title: 94_35_temporal cortex

source_name: post-mortem brain tissue, individual ID 94_35, temporal cortex


title: Cntl_0.5h_4

description: Gene expression Data from HLF cells


title: Cntl_1h_4

description: Gene expression Data from HLF cells


title: 03_28_temporal cortex

source_name: post-mortem brain tissue, individual ID 03_28, temporal cortex


title: 05_10_temporal cortex

source_name: post-mortem brain tissue, individual ID 05_10, temporal cortex


title: EGF_2_3

source_name: Human Lung Fibroblasts


title: Cntl_2h_3

description: Gene expression Data from HLF cells


title: Cntl_8h_3

description: Gene expression Data from HLF cells


title: 98_34_temporal cortex

source_name: post-mortem brain tissue, individual ID 98_34, temporal cortex


title: Cntl_8h_4

description: Gene expression Data from HLF cells


title: EGF_8_3


title: EGF_2_4


title: EGF_0.5h_4


title: 94_35_substantia nigra

source_name: post-mortem brain tissue, individual ID 94_35, substantia nigra

value: substantia nigra


title: Cntl_1h_3

description: Gene expression Data from HLF cells


title: 03_28_substantia nigra

source_name: post-mortem brain tissue, individual ID 03_28, substantia nigra

value: Male


title: EGF_0.5h_3


title: Cntl_0.5h_3

description: Gene expression Data from HLF cells


title: EGF_1_3


title: EGF_8_4


title: 98_34_substantia nigra

source_name: post-mortem brain tissue, individual ID 98_34, substantia nigra


title: 95_26_substantia nigra

source_name: post-mortem brain tissue, individual ID 95_26, substantia nigra


title: 96_13_substantia nigra

source_name: post-mortem brain tissue, individual ID 96_13, substantia nigra


title: EGF_1_4


title: 05_10_substantia nigra

source_name: post-mortem brain tissue, individual ID 05_10, substantia nigra


title: 08_88_substantia nigra

source_name: post-mortem brain tissue, individual ID 08_88, substantia nigra


title: 96_32_substantia nigra

source_name: post-mortem brain tissue, individual ID 96_32, substantia nigra


title: IL1_2_3


title: IL1_8_4


title: 02_06_white matter

source_name: post-mortem brain tissue, individual ID 02_06, white matter

value: cerebrovascular accident


title: IL1_1_4


title: 98_27_white matter

source_name: post-mortem brain tissue, individual ID 98_27, white matter

value: neurologically and neuropathologically normal


title: 96_03_white matter

source_name: post-mortem brain tissue, individual ID 96_03, white matter

value: white matter


title: EGF_2_2


title: IL1_0.5h_4


title: IL1_2_4


title: EGF_2_1


title: IL1_8_3


title: EGF_8_2


title: IL1_1_3


title: EGF_1_2


title: EGF_8_1


title: 04_05_substantia nigra

source_name: post-mortem brain tissue, individual ID 04_05, substantia nigra

value: Sun Health Research Institute


title: IL1_0.5h_3


title: EGF_1h_1


title: 95_21_white matter

source_name: post-mortem brain tissue, individual ID 95_21, white matter


title: EGF_0.5h_2


title: 03_28_putamen

source_name: post-mortem brain tissue, individual ID 03_28, putamen

value: putamen

value: Cancer


title: 98_34_putamen

source_name: post-mortem brain tissue, individual ID 98_34, putamen

value: European


title: 94_35_putamen

source_name: post-mortem brain tissue, individual ID 94_35, putamen


title: EGF_1_5

source_name: Human Lung Fibroblasts

value: fibroblasts


title: 97_14_putamen

source_name: post-mortem brain tissue, individual ID 97_14, putamen


title: 96_32_putamen

source_name: post-mortem brain tissue, individual ID 96_32, putamen


title: 95_21_thalamus

source_name: post-mortem brain tissue, individual ID 95_21, thalamus

value: thalamus


title: 98_27_temporal cortex

source_name: post-mortem brain tissue, individual ID 98_27, temporal cortex


title: EGF_0.5h_1

value: lung


title: 95_21_temporal cortex

source_name: post-mortem brain tissue, individual ID 95_21, temporal cortex


title: IL1_2_2


title: Cntl_8h_2

description: Gene expression Data from HLF cells


title: 98_27_thalamus

source_name: post-mortem brain tissue, individual ID 98_27, thalamus


title: 02_06_thalamus

source_name: post-mortem brain tissue, individual ID 02_06, thalamus

value: Female


title: Cntl_0.5h_2

description: Gene expression Data from HLF cells


title: 09_56_putamen

source_name: post-mortem brain tissue, individual ID 09_56, putamen


title: 96_03_temporal cortex

source_name: post-mortem brain tissue, individual ID 96_03, temporal cortex


title: IL1_0.5h_1


title: 95_26_putamen

source_name: post-mortem brain tissue, individual ID 95_26, putamen


title: 02_06_temporal cortex

source_name: post-mortem brain tissue, individual ID 02_06, temporal cortex


title: Cntl_2h_2

description: Gene expression Data from HLF cells


title: IL1_1h_1


title: 08_88_putamen

source_name: post-mortem brain tissue, individual ID 08_88, putamen


title: IL1_8_1


title: IL1_1_2


title: IL1_8_2


title: Cntl_1h_2

description: Gene expression Data from HLF cells


title: 04_05_putamen

source_name: post-mortem brain tissue, individual ID 04_05, putamen


title: 04_05_occipital cortex

source_name: post-mortem brain tissue, individual ID 04_05, occipital cortex

value: occipital cortex


title: 97_14_occipital cortex

source_name: post-mortem brain tissue, individual ID 97_14, occipital cortex


title: TGFBeta_8h_2

value: TGFBeta


title: 09_56_occipital cortex

source_name: post-mortem brain tissue, individual ID 09_56, occipital cortex


title: 98_27_substantia nigra

source_name: post-mortem brain tissue, individual ID 98_27, substantia nigra


title: Cntl_2h_1

description: Gene expression Data from HLF cells

source_name: Human Lung Fibroblasts


title: TGFBeta_8h_1


title: 96_03_substantia nigra

source_name: post-mortem brain tissue, individual ID 96_03, substantia nigra


title: 95_21_substantia nigra

source_name: post-mortem brain tissue, individual ID 95_21, substantia nigra


title: Cntl_1h_1

description: Gene expression Data from HLF cells


title: GSK258899A_1_8h_1


title: Cntl_0.5h_1

description: Gene expression Data from HLF cells


title: Peripheral blood CD34+ cells, UPIN 993

city: Baltimore

first: Jerry

middle: L.

last: Spivak

state: MD

address: 720 Rutland Avenue

department: Medicine

institute: Johns Hopkins University

description: UPIN 993

hyb_protocol: 16hrs at 45 C with rotation (60rpm) as described by Affymetrix in their GeneChip Expression Analysis Technical Manual, 2004.

scan_protocol: Using Affymetrix’ GeneChip Scanner 3000 and default parameters described by the manufacturer in their GeneChip Expression Analysis Technical Manual, 2004.

data_processing: Primary image analysis using GCOS 1.1.1, MAS 5.0 algorithm and manufacturer’s specifications. Global scaling of images to a target intensity of 150. RMA normalization was then performed in R using the Bioconductor Affy package.

source_name: Patient peripheral blood CD34+ cells, female, indolent PV

label_protocol: One round amplification protocol for total RNA following Affymetrix’ specifications using T7 promoter oligo dT primer for cDNA synthesis, and ENZO IVT kit (GeneChip Expression Analysis, Technical Manual, 2003).

extract_protocol: Qiagen RNeasy kit

treatment_protocol: Peripheral blood CD34+ cells were isolated by Ficoll Paque density gradient centrifugation, purified using immunomagnetic beads and frozen at -800C until utilized

tag: gender

value: polycythemia vera (PV)

tag: age (yrs)

tag: jak2 v617 neutrophil burden (%)

tag: disease duration (yrs)

tag: drug therapy

tag: splenectomy

value: no

tag: hemoglobin

tag: leukocyte count

tag: platelet count

tag: thrombosis

tag: acute leukemia

tag: survival

value: living

tag: aggressiveness of disease

value: indolent


title: 96_03_putamen

source_name: post-mortem brain tissue, individual ID 96_03, putamen

tag: individual id

tag: brain region

tag: disease status

tag: brain bank

tag: Cause of death

value: cerebrovascular accident

tag: Sex

value: Male

tag: age at death (in years)

tag: brain ph

tag: rin


title: 98_27_putamen

source_name: post-mortem brain tissue, individual ID 98_27, putamen

value: neurologically and neuropathologically normal

tag: post-mortem interval (in hours)

tag: ancestry


title: 08_88_occipital cortex

source_name: post-mortem brain tissue, individual ID 08_88, occipital cortex

value: Sun Health Research Institute


title: Peripheral blood CD34+ cells, UPIN 997

description: UPIN 997

source_name: Control peripheral blood CD34+ cells, female

tag: gender

value: normal


title: 96_13_occipital cortex

source_name: post-mortem brain tissue, individual ID 96_13, occipital cortex

value: Cancer


title: Peripheral blood CD34+ cells, UPIN 957

description: UPIN 957

source_name: Patient peripheral blood CD34+ cells, male, aggressive PV

tag: age (yrs)

tag: jak2 v617 neutrophil burden (%)

tag: disease duration (yrs)

tag: drug therapy

value: hydroxyurea

tag: splenectomy

value: splenectomy

tag: hemoglobin

tag: leukocyte count

tag: platelet count

value: yes

value: deceased

value: aggressive


title: Peripheral blood CD34+ cells, UPIN 983

description: UPIN 983

source_name: Patient peripheral blood CD34+ cells, female, aggressive PV

value: Female

tag: disease status

value: anagrelide

tag: thrombosis

value: venous

tag: acute leukemia

tag: survival

tag: aggressiveness of disease


title: 02_06_putamen

source_name: post-mortem brain tissue, individual ID 02_06, putamen

tag: individual id

tag: brain region

value: putamen

tag: brain bank

tag: Cause of death

tag: Sex

tag: age at death (in years)

value: European

tag: brain ph

tag: rin


title: Peripheral blood CD34+ cells, UPIN 929

description: UPIN 929

tag: gender


title: Peripheral blood CD34+ cells, UPIN 950

description: UPIN 950

source_name: Patient peripheral blood CD34+ cells, male, indolent PV

value: polycythemia vera (PV)

tag: age (yrs)

tag: jak2 v617 neutrophil burden (%)

tag: disease duration (yrs)

tag: drug therapy

tag: splenectomy

value: no

tag: hemoglobin

value: living

value: indolent


title: 03_28_occipital cortex

source_name: post-mortem brain tissue, individual ID 03_28, occipital cortex

value: occipital cortex

tag: disease status

value: neurologically and neuropathologically normal

value: Sun Health Research Institute

value: Male

tag: post-mortem interval (in hours)

tag: ancestry


title: Peripheral blood CD34+ cells, UPIN 931

description: UPIN 931

value: Interferon;hydroxyurea

value: splenectomy

tag: leukocyte count

tag: platelet count

tag: thrombosis

tag: acute leukemia

tag: survival

tag: aggressiveness of disease


title: 95_21_occipital cortex

source_name: post-mortem brain tissue, individual ID 95_21, occipital cortex

tag: individual id

tag: brain region

tag: brain bank

tag: Cause of death

value: cerebrovascular accident

tag: Sex

tag: age at death (in years)

tag: brain ph

tag: rin


title: Peripheral blood CD34+ cells, UPIN 905

description: UPIN 905

source_name: Control peripheral blood CD34+ cells, male

tag: gender

tag: disease status

value: normal


title: 96_32_occipital cortex

source_name: post-mortem brain tissue, individual ID 96_32, occipital cortex

value: Cancer

value: Female

tag: post-mortem interval (in hours)

tag: ancestry


title: 96_03_occipital cortex

source_name: post-mortem brain tissue, individual ID 96_03, occipital cortex


title: Peripheral blood CD34+ cells, UPIN 684-2a

description: UPIN 684-2a


title: Peripheral blood CD34+ cells, UPIN 890

description: UPIN 890

tag: age (yrs)

tag: jak2 v617 neutrophil burden (%)

tag: disease duration (yrs)

tag: drug therapy

tag: splenectomy

tag: hemoglobin

tag: leukocyte count

tag: platelet count


title: 98_34_occipital cortex

source_name: post-mortem brain tissue, individual ID 98_34, occipital cortex

tag: individual id

tag: brain region

tag: brain bank

tag: Cause of death


title: 95_26_occipital cortex

source_name: post-mortem brain tissue, individual ID 95_26, occipital cortex

tag: Sex

tag: age at death (in years)

tag: brain ph

tag: rin


title: 98_27_occipital cortex

source_name: post-mortem brain tissue, individual ID 98_27, occipital cortex

tag: disease status

tag: post-mortem interval (in hours)

tag: ancestry


title: Peripheral blood CD34+ cells, UPIN 684-1a

description: UPIN 684-1a

tag: gender


title: Peripheral blood CD34+ cells, UPIN 592

description: UPIN 592

tag: age (yrs)

tag: jak2 v617 neutrophil burden (%)

tag: disease duration (yrs)

tag: drug therapy

tag: thrombosis

tag: acute leukemia

tag: survival

tag: aggressiveness of disease


title: 94_35_occipital cortex

source_name: post-mortem brain tissue, individual ID 94_35, occipital cortex

tag: individual id

tag: brain region

tag: brain bank

tag: Cause of death


title: 05_10_occipital cortex

source_name: post-mortem brain tissue, individual ID 05_10, occipital cortex

tag: Sex

tag: age at death (in years)

tag: brain ph

tag: rin


title: Peripheral blood CD34+ cells, UPIN 564

description: UPIN 564

source_name: Patient peripheral blood CD34+ cells, female, indolent PV

tag: gender

tag: disease status

tag: splenectomy

tag: hemoglobin

tag: leukocyte count

tag: platelet count


title: Peripheral blood CD34+ cells, UPIN 206

description: UPIN 206

tag: age (yrs)

tag: jak2 v617 neutrophil burden (%)

tag: disease duration (yrs)

tag: drug therapy

value: hydroxyurea

tag: thrombosis

value: arterial and venous

tag: acute leukemia

value: yes

value: deceased

value: aggressive


title: 02_06_occipital cortex

source_name: post-mortem brain tissue, individual ID 02_06, occipital cortex

tag: individual id

tag: brain region

tag: brain bank

tag: Cause of death

tag: post-mortem interval (in hours)

tag: ancestry

value: European


title: 98_27_medulla

source_name: post-mortem brain tissue, individual ID 98_27, medulla

value: medulla

tag: disease status

tag: Sex

tag: age at death (in years)

tag: brain ph

tag: rin


title: 96_03_medulla

source_name: post-mortem brain tissue, individual ID 96_03, medulla


title: Peripheral blood CD34+ cells, UPIN 223

description: UPIN 223

tag: gender

value: polycythemia vera (PV)

tag: age (yrs)

tag: splenectomy

value: no

tag: hemoglobin

tag: leukocyte count

tag: platelet count

tag: survival

value: living

tag: aggressiveness of disease

value: indolent


title: 04_05_medulla

source_name: post-mortem brain tissue, individual ID 04_05, medulla

tag: individual id

tag: brain region

value: neurologically and neuropathologically normal

tag: brain bank

value: Sun Health Research Institute


title: Peripheral blood CD34+ cells, UPIN 253

description: UPIN 253

source_name: Control peripheral blood CD34+ cells, female


title: 95_21_hippocampus

source_name: post-mortem brain tissue, individual ID 95_21, hippocampus

value: hippocampus

tag: Cause of death

value: cerebrovascular accident

value: Male

tag: post-mortem interval (in hours)

tag: ancestry


title: 96_32_medulla

source_name: post-mortem brain tissue, individual ID 96_32, medulla

tag: disease status

value: Cancer

tag: Sex

value: Female

tag: age at death (in years)


title: IL1_0.5h_2

source_name: Human Lung Fibroblasts

tag: cell type

value: fibroblasts

tag: tissue

value: lung

tag: treatment

tag: time


title: Peripheral blood CD34+ cells, UPIN 234

description: UPIN 234

source_name: Patient peripheral blood CD34+ cells, male, aggressive PV

tag: gender

tag: age (yrs)

tag: jak2 v617 neutrophil burden (%)

tag: disease duration (yrs)

tag: drug therapy

value: anagrelide;busulfan

tag: splenectomy

tag: hemoglobin

tag: leukocyte count

tag: thrombosis

tag: acute leukemia

value: yes

value: deceased


title: 95_21_frontal cortex

source_name: post-mortem brain tissue, individual ID 95_21, frontal cortex

tag: individual id

tag: brain region

value: frontal cortex

tag: disease status

tag: brain bank

tag: Cause of death

tag: post-mortem interval (in hours)

tag: ancestry

value: European

tag: brain ph

tag: rin


title: 98_27_frontal cortex

source_name: post-mortem brain tissue, individual ID 98_27, frontal cortex

tag: Sex

tag: age at death (in years)


title: Peripheral blood CD34+ cells, UPIN 183-1a

description: UPIN 183-1a

tag: gender

value: polycythemia vera (PV)

tag: age (yrs)

tag: jak2 v617 neutrophil burden (%)

tag: disease duration (yrs)

tag: drug therapy

value: no

tag: platelet count

tag: survival

tag: aggressiveness of disease


title: Peripheral blood CD34+ cells, UPIN 173

description: UPIN 173

tag: disease status

value: hydroxyurea;cyclophosphamide

tag: splenectomy

value: splenectomy

tag: hemoglobin

tag: leukocyte count

tag: thrombosis

tag: acute leukemia

value: aggressive


title: Peripheral blood CD34+ cells, UPIN 136

description: UPIN 136

value: hydroxyurea

value: indolent


title: Peripheral blood CD34+ cells, UPIN 121

description: UPIN 121

value: Male

value: Thalidomide;cyclophosphamide

value: arterial


title: 96_13_medulla

source_name: post-mortem brain tissue, individual ID 96_13, medulla

tag: individual id

tag: brain region

value: medulla

value: neurologically and neuropathologically normal

tag: brain bank

value: Sun Health Research Institute

tag: Cause of death

value: Cancer

value: Female

tag: post-mortem interval (in hours)

tag: ancestry

tag: brain ph

tag: rin


title: IL1_2_1

tag: cell type

value: fibroblasts

tag: tissue

value: lung

tag: treatment

tag: time


title: 97_14_medulla

source_name: post-mortem brain tissue, individual ID 97_14, medulla

tag: disease status

tag: Sex

tag: age at death (in years)

value: European


title: 98_27_hippocampus

source_name: post-mortem brain tissue, individual ID 98_27, hippocampus

value: hippocampus

value: cerebrovascular accident


title: Peripheral blood CD34+ cells, UPIN 132

description: UPIN 132

source_name: Patient peripheral blood CD34+ cells, male, indolent PV

tag: gender

value: polycythemia vera (PV)

tag: age (yrs)

tag: jak2 v617 neutrophil burden (%)

tag: disease duration (yrs)

tag: drug therapy

tag: splenectomy

value: no

tag: hemoglobin

tag: leukocyte count

tag: platelet count

tag: thrombosis

tag: survival

value: living

tag: aggressiveness of disease


title: Peripheral blood CD34+ cells, UPIN 183-2a

description: UPIN 183-2a

tag: acute leukemia

value: indolent


title: Peripheral blood CD34+ cells, UPIN 1045

description: UPIN 1045


title: 96_03_frontal cortex

source_name: post-mortem brain tissue, individual ID 96_03, frontal cortex

tag: individual id

tag: brain region

value: frontal cortex

tag: brain bank

tag: Cause of death

value: Male

tag: post-mortem interval (in hours)

tag: ancestry

tag: brain ph

tag: rin


title: Peripheral blood CD34+ cells, UPIN 1020

description: UPIN 1020

tag: gender

tag: disease status

tag: age (yrs)

tag: jak2 v617 neutrophil burden (%)

tag: disease duration (yrs)

tag: drug therapy


title: 09_56_medulla

source_name: post-mortem brain tissue, individual ID 09_56, medulla

tag: Sex

tag: age at death (in years)


title: Peripheral blood CD34+ cells, UPIN 190

description: UPIN 190

source_name: Patient peripheral blood CD34+ cells, female, indolent PV

tag: splenectomy

tag: hemoglobin

tag: leukocyte count

tag: platelet count

tag: thrombosis

tag: acute leukemia

tag: survival

tag: aggressiveness of disease


title: 98_34_hippocampus

source_name: post-mortem brain tissue, individual ID 98_34, hippocampus

tag: individual id

tag: brain region

tag: brain bank

tag: Cause of death

tag: post-mortem interval (in hours)

tag: ancestry

tag: brain ph

tag: rin


title: 08_88_medulla

source_name: post-mortem brain tissue, individual ID 08_88, medulla

tag: disease status

tag: Sex

tag: age at death (in years)


title: 02_06_frontal cortex

source_name: post-mortem brain tissue, individual ID 02_06, frontal cortex


title: 05_10_putamen

source_name: post-mortem brain tissue, individual ID 05_10, putamen

value: putamen


title: Adult LGG 15

source_name: FFPE adult low-grade gliomas (ALGG)

tag: tissue

value: low-grade glioma

tag: age

value: ADULT

tag: location

value: SUP

tag: histology

value: DA

tag: braf status

value: WT

tag: primary (p) or recurrent tumor

tag: primary tumor that further progressed


title: Adult LGG 14

value: OD

value: ND


title: Peripheral blood CD34+ cells, UPIN 906

description: UPIN 906

source_name: Control peripheral blood CD34+ cells, male

tag: gender

value: normal


title: 95_26_hippocampus

source_name: post-mortem brain tissue, individual ID 95_26, hippocampus

tag: individual id

tag: brain region

value: hippocampus

value: neurologically and neuropathologically normal

tag: brain bank

value: Sun Health Research Institute

value: Cancer

value: European


title: Wehi-231 shTFII-I rep3

city: Montreal

first: Michael

last: Witcher

state: QC

address: 3755 Chemin de la Cote Ste-Catherine

country: Canada

institute: Lady Davis Institut

hyb_protocol: Standard Illumina hybridization protocol

scan_protocol: Standard Illumina scanning protocol

data_processing: Data were processed by  experiment-by-control background correction, quantile normalization and log2 transformation to the raw data using limma and R.

organism: Mus musculus

source_name: cell lines

label_protocol: Biotinylated cRNA were prepared with the Ambion MessageAmp kit for Illumina arrays

growth_protocol: DMEM+10% FBS

extract_protocol: Rneasy Kit Qiagen

tag: cell line

value: B cell lymphoma

tag: strain

value: (BALB/c x NZB)F1


title: Adult LGG 13


title: Adult LGG 12


title: Wehi-231 shTFII-I rep2


title: Adult LGG 10


title: Adult LGG 11


title: Wehi-231 shTFII-I rep1


title: 94_35_hippocampus

source_name: post-mortem brain tissue, individual ID 94_35, hippocampus

tag: Cause of death

value: Female

tag: post-mortem interval (in hours)

tag: ancestry

tag: brain ph

tag: rin


title: Adult LGG 9

tag: tissue

tag: age


title: Adult LGG 5

tag: location

tag: histology

value: PA


title: Wehi-231 shCT rep2


title: Adult LGG 4

value: low-grade glioma

tag: braf status

tag: primary (p) or recurrent tumor


title: Adult LGG 8

value: ADULT

tag: primary tumor that further progressed


title: Adult LGG 7

value: SUP


title: Wehi-231 shCT rep1


title: Adult LGG 6


title: Adult LGG 3


title: Adult LGG 1

value: NOS


title: Pediatric LGG 151

source_name: FFPE pediatric low-grade gliomas (PLGG)

value: ADO

value: GG

value: MUT

value: P


title: Adult LGG 2

value: DA

value: WT


title: Wehi-231 shCT rep3


title: 96_13_hippocampus

source_name: post-mortem brain tissue, individual ID 96_13, hippocampus

tag: individual id

value: hippocampus

tag: disease status

value: neurologically and neuropathologically normal

value: Sun Health Research Institute

tag: Sex

tag: age at death (in years)


title: Pediatric LGG 149

value: CHILD

value: INF

value: DUP


title: 05_10_hippocampus

source_name: post-mortem brain tissue, individual ID 05_10, hippocampus

tag: brain region

tag: brain bank

value: Cancer

value: Male

value: European


title: Pediatric LGG 150

value: low-grade glioma

value: SUP


title: Pediatric LGG 147


title: Pediatric LGG 148

value: ADO

value: NOS


title: 97_14_hippocampus

source_name: post-mortem brain tissue, individual ID 97_14, hippocampus

tag: Cause of death

tag: post-mortem interval (in hours)


title: 03_28_hippocampus

source_name: post-mortem brain tissue, individual ID 03_28, hippocampus

tag: ancestry

tag: brain ph


title: 09_56_hippocampus

source_name: post-mortem brain tissue, individual ID 09_56, hippocampus

tag: rin


title: Lujo_pre_3

city: Seattle

last: Katze

state: WA

address: Rosen Building 960 Republican St.

department: Microbiology

institute: University of Washington

hyb_protocol: The Agilent One-Color Microarray-Based Gene Expression Analysis Protocol was followed for hybridization and array washing. Two hundred fifty ng of each RNA sample was hybridized to one Agilent 4X44K rhesus macaque array.

scan_protocol: Dry slides were scanned on an Agilent DNA microarray scanner (Model G2505B) using the XDR setting.

data_processing: Raw images were analyzed using the Agilent Feature Extraction software (version 9.5.3.1) and the GE1-v5_95_Feb07 extraction protocol. All arrays were required to pass Agilent QC flags. Extracted raw data were background corrected using the using the ‘normalizeBetweenArrays’ normalization method available in the ‘limma’ package of the R suite.

organism: Macaca fascicularis

source_name: virus, day post-infection, replicate

label_protocol: The Agilent One-Color Microarray-Based Gene Expression Analysis Protocol was followed for the Cy3-cDNA probe preparation.

growth_protocol: 3 adult cynomolgus macaques (Macaca fascicularis) aged 3-7 years were infected under anesthesia with 10e4 PFU LASV or LUJV by intramuscular inoculation.  PBMC were collected on days 1, 4, 7, 10, 13 and 29 (for surviving LUJV-infected animals) post-infection.  Additionally, PBMC were collected from 3 uninfected animals for use as a control.

extract_protocol: Samples were thawed and diluted with 2 volumes RLT buffer, and then adjusted to a 1:1 ratio with 70% ethanol.  All extractions were performed using Qiagen RNeasy Micro columns with the manufacturer's recommended protocol.  RNA quality was assessed on an Agilent 2100 Bioanalyzer using the picochip format, and only intact RNA was used for microarray analyses.

treatment_protocol: PBMC were isolated by Ficoll density gradient centrifugation, washed in PBS, preserved in 0.5 mL AVL buffer diluted 1:1 with 70% ethanol, and stored at -80ºC prior to further processing.

tag: cell type

value: PBMC

tag: infection

value: Lujo

tag: time

value: pre

tag: age


title: Lujo_pre_2


title: 04_05_hippocampus

source_name: post-mortem brain tissue, individual ID 04_05, hippocampus

value: Female


title: Pediatric LGG 146

tag: tissue

tag: location

tag: histology

value: DA

tag: braf status

value: WT

tag: primary (p) or recurrent tumor

value: P


title: 08_88_hippocampus

source_name: post-mortem brain tissue, individual ID 08_88, hippocampus

tag: individual id

value: hippocampus

tag: disease status

value: neurologically and neuropathologically normal

value: Sun Health Research Institute

tag: Sex

tag: age at death (in years)


title: 04_05_frontal cortex

source_name: post-mortem brain tissue, individual ID 04_05, frontal cortex

tag: brain region

value: frontal cortex

tag: brain bank

tag: Cause of death

value: Cancer

tag: post-mortem interval (in hours)


title: Pediatric LGG 145

value: CHILD

value: INF

value: DUP

tag: primary tumor that further progressed


title: 08_88_frontal cortex

source_name: post-mortem brain tissue, individual ID 08_88, frontal cortex

value: Male

tag: ancestry

value: European

tag: brain ph

tag: rin


title: Pediatric LGG 142

tag: tissue

value: low-grade glioma

tag: age

value: ADO

value: PA


title: Pediatric LGG 144

tag: location

tag: histology


title: Pediatric LGG 143

tag: braf status

tag: primary (p) or recurrent tumor


title: 96_13_frontal cortex

source_name: post-mortem brain tissue, individual ID 96_13, frontal cortex

tag: individual id

tag: disease status

value: Female


title: 09_56_frontal cortex

source_name: post-mortem brain tissue, individual ID 09_56, frontal cortex

tag: Sex

tag: age at death (in years)


title: Pediatric LGG 140

value: NOS

value: R


title: Lujo_pre_1

tag: cell type

value: PBMC

tag: infection

value: Lujo

tag: time

value: pre


title: Pediatric LGG 139

value: P

tag: primary tumor that further progressed


title: 97_14_frontal cortex

source_name: post-mortem brain tissue, individual ID 97_14, frontal cortex

tag: brain region

value: frontal cortex

value: neurologically and neuropathologically normal

tag: brain bank

value: Sun Health Research Institute

tag: Cause of death

tag: post-mortem interval (in hours)

tag: ancestry


title: 95_26_frontal cortex

source_name: post-mortem brain tissue, individual ID 95_26, frontal cortex

value: Cancer

tag: brain ph

tag: rin


title: Lujo_D7_3

tag: age


title: Lujo_D4_3


title: Lujo_D7_1


title: 98_34_frontal cortex

source_name: post-mortem brain tissue, individual ID 98_34, frontal cortex


title: 03_28_frontal cortex

source_name: post-mortem brain tissue, individual ID 03_28, frontal cortex


title: Lujo_D29_2


title: Lujo_D7_2


title: Pediatric LGG 138

source_name: FFPE pediatric low-grade gliomas (PLGG)

tag: tissue

tag: location

value: INF

tag: histology

tag: braf status

value: DUP

tag: primary (p) or recurrent tumor


title: Lujo_D4_2

tag: cell type


title: Lujo_D29_3

tag: infection


title: Pediatric LGG 136

value: SUP

value: DNT

value: WT


title: Pediatric LGG 135

value: low-grade glioma

value: MUT


title: 05_10_frontal cortex

source_name: post-mortem brain tissue, individual ID 05_10, frontal cortex

tag: individual id

tag: disease status

tag: Sex

value: Male

tag: age at death (in years)

value: European


title: 94_35_frontal cortex

source_name: post-mortem brain tissue, individual ID 94_35, frontal cortex

tag: brain region

tag: brain bank

tag: Cause of death

value: Female


title: Lujo_D13_3

value: PBMC

value: Lujo

tag: time


title: 08_88_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 08_88, cerebellar cortex

value: cerebellar cortex

tag: post-mortem interval (in hours)

tag: ancestry

tag: brain ph

tag: rin


title: 96_32_frontal cortex

source_name: post-mortem brain tissue, individual ID 96_32, frontal cortex

value: frontal cortex


title: Pediatric LGG 137

tag: tissue

tag: age

value: CHILD

tag: location

tag: histology

value: NOS

value: P

tag: primary tumor that further progressed


title: Lujo_D29_1

tag: cell type

tag: infection


title: Lujo_D13_2


title: 04_05_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 04_05, cerebellar cortex

tag: individual id

tag: disease status

value: neurologically and neuropathologically normal

value: Sun Health Research Institute

value: Cancer

tag: Sex


title: 96_32_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 96_32, cerebellar cortex

tag: brain region

tag: brain bank

tag: age at death (in years)


title: Pediatric LGG 134

value: ADO

value: INF

tag: braf status

tag: primary (p) or recurrent tumor


title: Lujo_D13_1

source_name: virus, day post-infection, replicate

tag: time


title: Pediatric LGG 131

value: low-grade glioma

value: PA

value: DUP


title: Pediatric LGG 132


title: 96_13_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 96_13, cerebellar cortex

tag: Cause of death

tag: post-mortem interval (in hours)

tag: ancestry

value: European

tag: brain ph

tag: rin


title: 97_14_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 97_14, cerebellar cortex

value: Male


title: 95_26_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 95_26, cerebellar cortex


title: Pediatric LGG 133

tag: tissue

tag: age

tag: location

value: SUP

tag: histology

value: GG

value: MUT

tag: primary tumor that further progressed


title: Pediatric LGG 130


title: Pediatric LGG 129


title: 09_56_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 09_56, cerebellar cortex

tag: individual id

value: cerebellar cortex

tag: disease status

tag: Sex


title: Lujo_D10_2

tag: cell type

value: PBMC

tag: infection

value: Lujo


title: Pediatric LGG 128

value: CHILD

tag: braf status

tag: primary (p) or recurrent tumor

value: P


title: Lujo_D10_1

tag: time


title: Lujo_D1_3


title: 94_35_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 94_35, cerebellar cortex

tag: brain region

value: neurologically and neuropathologically normal

tag: brain bank

value: Sun Health Research Institute

tag: Cause of death

value: Female

tag: age at death (in years)

tag: post-mortem interval (in hours)


title: 98_34_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 98_34, cerebellar cortex

value: Cancer

tag: ancestry

tag: brain ph

tag: rin


title: Pediatric LGG 126

tag: tissue

value: low-grade glioma

tag: age

tag: location

value: INF

tag: histology

value: NOS

tag: primary tumor that further progressed


title: Lujo_D1_2

tag: cell type

tag: infection


title: LASV_D7_9_Soromba

source_name: virus, day post-infection, replicate, virus strain

value: LASV Soromba


title: Lujo_D10_3


title: Lujo_D1_1


title: LASV_D7_8_Soromba


title: Pediatric LGG 127

tag: braf status

value: DUP

tag: primary (p) or recurrent tumor


title: 05_10_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 05_10, cerebellar cortex

tag: individual id

tag: brain region

tag: disease status

tag: Sex

value: Male

value: European


title: Pediatric LGG 125

value: PA


title: 03_28_cerebellar cortex

source_name: post-mortem brain tissue, individual ID 03_28, cerebellar cortex

value: cerebellar cortex

tag: brain bank

tag: Cause of death

tag: age at death (in years)

tag: post-mortem interval (in hours)


title: 98_27_white matter

source_name: post-mortem brain tissue, individual ID 98_27, white matter

value: white matter

value: cerebrovascular accident

tag: ancestry

tag: brain ph

tag: rin


title: Pediatric LGG 124

source_name: FFPE pediatric low-grade gliomas (PLGG)

tag: tissue

tag: age

value: ADO

tag: location

tag: histology


title: LASV_D7_7_Soromba

tag: cell type

value: PBMC

tag: infection

tag: time


title: Pediatric LGG 123

value: CHILD

tag: braf status

tag: primary (p) or recurrent tumor

value: P

tag: primary tumor that further progressed


title: LASV_D7_6_Z-132

value: LASV Z-132


title: 02_06_white matter

source_name: post-mortem brain tissue, individual ID 02_06, white matter

tag: individual id

tag: brain region

tag: disease status

value: neurologically and neuropathologically normal

tag: brain bank

value: Sun Health Research Institute

tag: Sex

value: Female


title: 95_21_thalamus

source_name: post-mortem brain tissue, individual ID 95_21, thalamus

value: thalamus

tag: Cause of death

tag: age at death (in years)

tag: post-mortem interval (in hours)

tag: ancestry

tag: brain ph


title: Pediatric LGG 121

tag: tissue

value: low-grade glioma

tag: age

tag: location

value: SUP

tag: histology

value: DNT

value: WT


title: LASV_D7_4_Z-132

tag: cell type

tag: infection

tag: time


title: LASV_D7_5_Z-132


title: 96_03_white matter

source_name: post-mortem brain tissue, individual ID 96_03, white matter

tag: individual id

value: Male

value: European

tag: rin


title: Pediatric LGG 120

value: INF

value: NOS

tag: braf status

value: DUP

tag: primary (p) or recurrent tumor

tag: primary tumor that further progressed


title: 98_27_thalamus

source_name: post-mortem brain tissue, individual ID 98_27, thalamus

tag: brain region

tag: disease status

tag: brain bank

tag: Cause of death

value: cerebrovascular accident

tag: Sex


title: Pediatric LGG 141

tag: tissue


title: 02_06_thalamus

source_name: post-mortem brain tissue, individual ID 02_06, thalamus

tag: age at death (in years)

tag: post-mortem interval (in hours)

tag: ancestry

tag: brain ph


title: LASV_D7_2_Josiah

tag: cell type

value: PBMC

tag: infection

value: LASV Josiah

tag: age


title: Pediatric LGG 118

value: ADO

tag: location

tag: histology

value: PA

value: P


title: Pediatric LGG 119

value: CHILD

tag: braf status

tag: primary (p) or recurrent tumor


title: Pediatric LGG 122

tag: primary tumor that further progressed


title: Lujo_D4_1

source_name: virus, day post-infection, replicate

value: Lujo

tag: time


title: Pediatric LGG 117

value: low-grade glioma


title: 95_21_white matter

source_name: post-mortem brain tissue, individual ID 95_21, white matter

tag: individual id

tag: brain region

value: white matter

tag: disease status

value: neurologically and neuropathologically normal

tag: brain bank

value: Sun Health Research Institute

tag: rin


title: Pediatric LGG 116

tag: tissue

value: SUP

value: WT


title: LASV_D7_3_Josiah


title: LASV_D4_8_Soromba

value: LASV Soromba


title: 02_06_temporal cortex

source_name: post-mortem brain tissue, individual ID 02_06, temporal cortex

value: temporal cortex

tag: Cause of death

tag: Sex

value: Female

tag: age at death (in years)

tag: post-mortem interval (in hours)

tag: ancestry

value: European


title: 95_21_temporal cortex

source_name: post-mortem brain tissue, individual ID 95_21, temporal cortex

value: cerebrovascular accident

value: Male

tag: brain ph