title: hasmc_celecoxib_tp0hr_biological rep4

description: Pretreatment with celecoxib, sampled after 0 h IL-1beta exposure

source_name: human aortic smc, 2hr celecoxib exposure, 0 hr IL-1beta exposure


title: hasmc_celecoxib_tp0hr_biological rep1

status: Public on Apr 20 2015

type: RNA

city: Philadelphia

first: Emanuela

last: Ricciotti

state: PA

address: 3400 Civic Center Blvd.

department: Department of Pharmacology/Institute for Translational Medicine and Therapeutics

country: USA

institute: University of Pennsylvania

hyb_protocol: Hybridization was carried out at the Penn Microarray Facility. Affymetrix Human Genome U133A v2 was used.

scan_protocol: Data were collected at the Penn Microarray Facility.

data_processing: Expression values were generated using RMA as implemented in the Affymetrix Expression Console software.

label: biotin

molecule: total RNA

organism: Homo sapiens

label_protocol: Labeling was carried out at the Penn Microarray Facility.

growth_protocol: Primary human aortic smooth muscle cells (3F1243) from Lonza were cultured using standard cell culture. Cells were harvested from culture after 0, 2, 8, or 24 hours incubation with interleukin 1beta (10 ng/mL).

extract_protocol: Qiagen kit was used to isolate total RNA.

treatment_protocol: Cells were incubated with rofecoxib (500 nM), celecoxib (500 nM) or DMSO for 2 hours. Subsequently, cells were stimulated with interleukin 1beta (10 ng/mL). The start of incubation with interleukin 1beta is taken to be time zero.

tag: gender

value: male

tag: race

value: white

tag: cell type

value: aortic smooth muscle cell

tag: material type

value: primary cell

tag: nsaid treatment

value: celecoxib

tag: time point


title: forelimb T26 replicate 8

city: Lexington

first: Stephen

middle: Randal

last: Voss

state: KY

address: 675 Rose Street

department: Biology

institute: University of Kentucky

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 26 days post amputation.
CF13

hyb_protocol: Affymetrix Gene Chip 3'IVT Reagent Kit was used according to manufacturer's instructions.

scan_protocol: Affymetrix Command Console was used according to manufacturer's instructions

data_processing: RMA was performed in Affymetrix Expression Console.

organism: Ambystoma mexicanum

source_name: 1.0mm distal tip of regenerating axolotl limb amputated at mid zeugopod at T26

label_protocol: Biotinylation was carried out according to the instructions in Affymetrix's 3'IVT Reagent Kit user's manual

growth_protocol: Animals were maintained at 17-18C and fed California blackworms once a week.  Rearing water (40% modified Holtfretter's solution) was changed three times per week.

extract_protocol: RNA was extracted using Trizol Reagent

treatment_protocol: Axolotols were anesthetized in 0.01% benzocaine and sterile razor blades were used to perform amputations.

tag: time (dpa)

tag: amputation site

value: mid zeugopod


title: forelimb T26 replicate 10

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 26 days post amputation.
CF17


title: WT repl. 1

city: Freiburg

first: Ori

last: Staszewski

address: Breisacher Str. 64

department: Institute of Neuropathology

country: Germany

institute: University Medical Center Freiburg

description: Gene expression data from wildtype mice

hyb_protocol: Biotinylated cRNA was hybridized on MOE430A 2.0 GeneChips, that were stained, washed and scanned following standard procedures.

data_processing: Background correction and normalization was performed on Affymetrix CEL files using the Bioconductor/R package affy.

organism: Mus musculus

source_name: total brain lysate from wildtype mice

label_protocol: Total RNA was processed using the GeneChip Expression 3’ Amplification One-Cycle Target Labeling Kit according to the manufacturer’s instruction.

growth_protocol: Mice were kept under SPF conditions

extract_protocol: RNA was isolated using the RNeasy Mini Kit

treatment_protocol: Mice were untreated

tag: tissue

value: total brain lysate

tag: genotype/variation

value: WT


title: forelimb T26 replicate 5

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 26 days post amputation.
BLP62


title: forelimb T26 replicate 1

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 26 days post amputation.
BLP32


title: forelimb T26 replicate 7

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 26 days post amputation.
CF12


title: forelimb T26 replicate 2

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 26 days post amputation.
BLP52


title: forelimb T26 replicate 6

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 26 days post amputation.
CF06


title: forelimb T26 replicate 9

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 26 days post amputation.
CF15


title: hasmc_celecoxib_tp0hr_biological rep2


title: forelimb T26 replicate 3

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 26 days post amputation.
BLP58


title: hasmc_celecoxib_tp0hr_biological rep3


title: forelimb T24 replicate 9

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 24 days post amputation.
CF19

source_name: 1.0mm distal tip of regenerating axolotl limb amputated at mid zeugopod at T24


title: forelimb T24 replicate 6

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 24 days post amputation.
CF02


title: forelimb T24 replicate 8

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 24 days post amputation.
CF14


title: forelimb T26 replicate 4

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 26 days post amputation.
BLP59


title: forelimb T24 replicate 5

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 24 days post amputation.
BLP49


title: forelimb T24 replicate 10

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 24 days post amputation.
CF23


title: forelimb T24 replicate 7

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 24 days post amputation.
CF09


title: SD Pregn_ Female TP_3

city: Madison

first: Sathish

last: Kumar

state: WI

address: 2015 Linden Dr

department: Comparative Biosciences

institute: University of Wisconsin

hyb_protocol: Following fragmentation, cRNA were hybridized on Affymetrix Rat Expression Array 230 2.0

scan_protocol: GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.

data_processing: The data were analyzed using R statistical package (version 2.8.1), GeneSpring GX - Agilent Technologies and Ingenuity pathway analysis . In brief, Raw data .txt files were extracted using Affymetrix GeneChip Scanner 3000. Using R statistical package and GeneSpring GX - Agilent Technologies the data were normalized and adjusted for FDR (using (Benjamini Hochberg method). Differentially expressed gene transcripts with statistically significance (P<0.05) were identified through Volcano Plot filtering. GO analysis and Pathway analysis was performed using Ingenuity pathway analysis.

organism: Rattus norvegicus

source_name: Pregnant Sprague-Dawley rats

label_protocol: Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA

growth_protocol: The animals were housed in a room with a controlled temperature and a 12-hour light-dark cycle. During 8-10 am on days 20 of pregnancy

extract_protocol: RNA isolation was performed using the Rneasy kit (Qiagen, Valencia,)

treatment_protocol: Timed pregnant Sprague-Dawley rats (day 12 of gestation; copulation plug on day 1; Charles River, Wilmington, MA) were used in the experiment. After acclimatization, on gestational day (GD) 13, dams were randomly divided into 2 groups. Dams in the treatment group were subcutaneously injected with testosterone propionate (0.5 mg/Kg/day, n=12) for 5 days from GD 15–19. The control group received vehicle (sesame oil, n=12). This dose and duration of exposure is commonly used to mimic plasma testosterone levels observed in preeclamptic women.

value: Placenta

value: Female

tag: treatment

value: testosterone propionate (0.5 mg/Kg/day) treated


title: SD Pregn_ Female TP_1


title: SD Pregn_ Female TP_2


title: forelimb T24 replicate 3

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 24 days post amputation.
BLP36


title: forelimb T24 replicate 4

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 24 days post amputation.
BLP41


title: SD Pregn_ Male TP_2

value: Male


title: SD Pregn_ Male TP_3


title: forelimb T24 replicate 1

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 24 days post amputation.
BLP18


title: forelimb T24 replicate 2

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 24 days post amputation.
BLP33


title: SD Pregn_Female 3

value: vehicle (sesame oil)


title: forelimb T22 replicate 6

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 22 days post amputation.
CF03

source_name: 1.0mm distal tip of regenerating axolotl limb amputated at mid zeugopod at T22


title: forelimb T22 replicate 7

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 22 days post amputation.
CF08


title: forelimb T22 replicate 5

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 22 days post amputation.
BLP60


title: SD Pregn_Female 2


title: forelimb T22 replicate 8

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 22 days post amputation.
CF10


title: SD Pregn_Female 1


title: SD Pregn_ Male TP_1


title: forelimb T22 replicate 4

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 22 days post amputation.
BLP44


title: forelimb T20 replicate 10

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 20 days post amputation.
CF24

source_name: 1.0mm distal tip of regenerating axolotl limb amputated at mid zeugopod at T20


title: forelimb T22 replicate 10

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 22 days post amputation.
CF21


title: forelimb T22 replicate 3

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 22 days post amputation.
BLP42


title: SD Pregn_Male_2


title: forelimb T22 replicate 1

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 22 days post amputation.
BLP31


title: forelimb T20 replciate 9

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 20 days post amputation.
CF18


title: SD Pregn_Male_1


title: forelimb T20 replicate 7

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 20 days post amputation.
CF04


title: forelimb T20 replicate 8

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 20 days post amputation.
CF05


title: forelimb T22 replicate 9

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 22 days post amputation.
CF11


title: SD Pregn_Male_3


title: forelimb T22 replicate 2

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 22 days post amputation.
BLP40


title: SH-SY-5Y + irrelevant mimic

city: Genova

first: Sara

last: Stigliani

address: largo R Benzi 10

country: Italy

institute: IRCCS AOU San Martino-IST

hyb_protocol: were hybridized to Human GE 4x44K v2 Microarray Kit (AMADID 014850, Agilent Technologies) containing probes for 41,000 human transcripts, fro 17 hours at 65°C.

scan_protocol: Slides were scanned by Agilent G2565BA scanner and images were processed by Feature Extraction software v.9.5.3.1 (Agilent Technologies).

data_processing: Differential gene expression analysis between cell lines treated with irrelevant and miR-659-3p mimic and inhibitor was performed by using the limma package of Bioconductor (Smyth, 2004; Smyth et al., 2005). Data were preliminarily corrected for background (Silver et al., 2009) and normalized in order to have similar distributions across the set of arrays. Ranking of genes by their evidence for differential expression was made using the paired moderated t-statistics based on empirical Bayes moderation of the standard errors (Smyth, 2004).

source_name: NB cell line

label_protocol: Two-hundred ng of total RNA extracted from miRNA-transfected HTLA-230 and SH-SY5Y following the One-color microarray-based gene expression analysis Low Input Quick Amp Labeling v 6.5 protocol (www.agilent.com).

growth_protocol: NB cell lines were cultured in RPMI 1640 medium supplemented with 10% heat inactivated FCS, 50 mg/ml streptomycin, 50 mg/ml penicillin and 2 mM glutamine (Sigma-Aldrich, Milan, Italy). The HTLA-230 cells present MYCN amplification and SH-SY5Y cells have normal MYCN status. Both cell lines were checked for MYCN amplification, morphology, proliferation rate and mycoplasma contamination, after thawing and within four passages in culture.

extract_protocol: Total RNA and miRNA fractions were extracted from BM-infiltrating cells, primary tumors and NB cell lines using the miRNeasy Mini kit (Qiagen, Hilden, Germany), according to manufacturer’s protocols.

treatment_protocol: 1000000 HTLA-230 and SH-SY5Y cells were transfected with specific miR-659-3p mirVana™ mimic and inhibitor, respectively (Ambion, Life Technologies, Carlsbad, CA, USA, catalog# MC and MH 11582). Samples transfected with mirVana™ miRNA Mimic Negative Control #1 and mirVana™ miRNA Inhibitor Negative Control #1 were used as reference conditions. Transfection was performed at 20 nM miRNA concentration in OptiMEM© medium (Sigma-Aldrich), using Lipofectamin RNAiMAX© (Life Technologies), according to manufacturer’s protocol.

tag: cell line

tag: mycn status

value: normal


title: forelimb T20 replicate 6

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 20 days post amputation.
CF01


title: forelimb T20 replicate 5

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 20 days post amputation.
BLP61


title: forelimb T20 replicate 3

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 20 days post amputation.
BLP16


title: forelimb T20 replicate 4

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 20 days post amputation.
BLP39


title: SH-SY-5Y + miR-659 mimic


title: forelimb T18 replicate 9

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 18 days post amputation.
EF24

source_name: 1.0mm distal tip of regenerating axolotl limb amputated at mid zeugopod at T18


title: forelimb T20 replicate 2

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 20 days post amputation.
BLP15


title: forelimb T18 replicate 7

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 18 days post amputation.
EF18


title: forelimb T18 replicate 6

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 18 days post amputation.
EF11


title: forelimb T18 replicate 8

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 18 days post amputation.
EF19


title: forelimb T20 replicate 1

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 20 days post amputation.
BLP6


title: forelimb T18 replicate 10

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 18 days post amputation.
EF28


title: SH-SY-5Y + miR-659 inhibitor


title: HTLA + miR-659 mimic

value: amplified


title: HTLA + irrelevant miR


title: SH-SY-5Y + irrelevant miR inhibitor


title: forelimb T18 replicate 5

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 18 days post amputation.
A85


title: Twin14_2_2_E

type: genomic

city: Helsinki

first: Khadeeja

last: Ismail

state: Helsinki

address: Mannerheimintie 172

department: Department of Public Health

country: Finland

institute: University of Helsinki

description:
bisulphite converted DNA from whole blood
Pair14_Twin2

hyb_protocol: Bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human Methylation450 Beadchip using standard Illumina protocol

scan_protocol: Arrays were imaged using BeadArray Reader using standard recommended Illumina scanner setting

data_processing:
Idat files  processed using minfi package in R.
Unmethylated and methylated signal intensities

label: Cy5 and Cy3

molecule: genomic DNA

source_name: whole blood 94

label_protocol: Standard Illumina Protocol

extract_protocol: High molecular weight DNA was extracted from whole blood using QIAamp DNA Mini kit (QIAGEN) following the QIAamp Spin Procedure.

tag: sample type

value: whole blood

tag: disease state

tag: twin pair


title: forelimb T18 replicate 4

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 18 days post amputation.
A7


title: Twin36_2_H

description:
bisulphite converted DNA from whole blood
Pair36_Twin2

source_name: whole blood 90


title: forelimb T16 replicate 7

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 16 days post amputation.
EF13

source_name: 1.0mm distal tip of regenerating axolotl limb amputated at mid zeugopod at T16


title: Twin36_1_H

description:
bisulphite converted DNA from whole blood
Pair36_Twin1

source_name: whole blood 88


title: forelimb T16 replicate 9

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 16 days post amputation.
EF30


title: forelimb T18 replicate 1

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 18 days post amputation.
A119


title: HTLA + irrelevant miR inhibitor


title: Mbd2 -/- KO-replicate2

city: Edinburgh

first: Alasdair

last: Ivens

address: Kings Buildings

country: United Kingdom

institute: Centre for Immunity, Infection and Evolution

hyb_protocol: Performed according to the manufacturer’s instructions

scan_protocol: Processed using Genome Studio software

data_processing:
Arrays were QC analyzed using the arrayQualityMetrics package in Bioconductor.
Raw data were transformed using a variance stabilizing transformation (VST) method prior to normalization across all arrays using the robust spline normalization (RSN) method, using the lumi package in Bioconductor.
Array features that were not detected (using the detectionCall function in the lumi Bioconductor package) on all arrays were removed, leaving a total of 19206.
Pairwise group comparisons were undertaken using linear modelling. Subsequently, empirical Bayesian analysis was applied, including vertical (within a given comparison) p value adjustment for multiple testing, which controls for false discovery rate, using the limma Bioconductor package
Non-normalised data are raw data produced using GenomeStudio software.  The normalised data are log2 values for the 19206 probes reliably detected on all arrays, normalised using VST and RSN.

molecule: polyA RNA

source_name: Bone marrow-derived dendritic cells_Mbd2_KO

label_protocol: RNA was labeled using the TotalPrep RNA Amplification kit (Life Technologies)

extract_protocol: RNA was extracted from cells using TRIzol or Pure Link RNA Mini Kit and DNase-treated according to the manufacturer’s instructions (Life technologies)

treatment_protocol: Bone marrow-derived dendritic cells (BMDCs) were generated by culturing bone marrow cells for 10 days of culture in complete medium (RPMI-1640, 10% FCS, 2mM L-Glutamine, 50U/ml penicillin and 50μg/ml strepomycin) containing 20ng/ml rGM-CSF

tag: strain

tag: genotype

value: bone marrow

value: dendritic


title: forelimb T18 replicate 3

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 18 days post amputation.
A49


title: forelimb T16 replicate 8

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 16 days post amputation.
EF23


title: Twin36_2_2_A

source_name: whole blood 92

tag: gender


title: HTLA + miR-659 inhibitor


title: forelimb T16 replicate 6

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 16 days post amputation.
EF05


title: Twin36_1_2_A

source_name: whole blood 89


title: Twin14_2_E

source_name: whole blood 93


title: forelimb T18 replicate 2

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 18 days post amputation.
A17


title: forelimb T16 replicate 5

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 16 days post amputation.
A80


title: Twin39_1_H

description:
bisulphite converted DNA from whole blood
Pair39_Twin1

source_name: whole blood 87


title: Twin14_1_E

description:
bisulphite converted DNA from whole blood
Pair14_Twin1

source_name: whole blood 95


title: forelimb T16 replicate 3

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 16 days post amputation.
A5


title: forelimb T16 replicate 2

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 16 days post amputation.
A41


title: forelimb T16 replicate 1

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 16 days post amputation.
A117


title: Control_replicate3

source_name: Bone marrow-derived dendritic cells_wildtype

tag: cell type


title: Mbd2 -/- KO-replicate1


title: Twin14_1_2_E

source_name: whole blood 96


title: Control_replicate1


title: forelimb T14 replicate 10

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 14 days post amputation.
EF15

source_name: 1.0mm distal tip of regenerating axolotl limb amputated at mid zeugopod at T14


title: forelimb T16 replicate 4

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 16 days post amputation.
A57


title: Control_replicate2


title: Twin33_2_F

description:
bisulphite converted DNA from whole blood
Pair33_Twin2

source_name: whole blood 86


title: Twin36_1_2_H

source_name: whole blood 85


title: Twin18_1_A

description:
bisulphite converted DNA from whole blood
Pair18_Twin1

source_name: whole blood 83


title: forelimb T14 replicate 8

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 14 days post amputation.
EF06


title: forelimb T14 replicate 7

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 14 days post amputation.
EF04


title: Mbd2 -/- KO-replicate3


title: Twin15_2_F

description:
bisulphite converted DNA from whole blood
Pair15_Twin2

source_name: whole blood 82


title: forelimb T14 replicate 5

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 14 days post amputation.
A98


title: forelimb T12 replicate 10

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 12 days post amputation.
EF17

source_name: 1.0mm distal tip of regenerating axolotl limb amputated at mid zeugopod at T12


title: forelimb T14 replicate 3

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 14 days post amputation.
A69


title: Twin20_1_C

description:
bisulphite converted DNA from whole blood
Pair20_Twin1

source_name: whole blood 81


title: forelimb T12 replicate 9

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 12 days post amputation.
EF14


title: forelimb T14 replicate 4

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 14 days post amputation.
A74


title: forelimb T12 replicate 7

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 12 days post amputation.
EF10


title: forelimb T12 replicate 6

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 12 days post amputation.
EF07


title: Twin2_1_F

description:
bisulphite converted DNA from whole blood
Pair2_Twin1

source_name: whole blood 84


title: forelimb T14 replicate 2

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 14 days post amputation.
A28


title: forelimb T14 replicate 9

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 14 days post amputation.
EF08


title: forelimb T14 replicate 1

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 14 days post amputation.
A20


title: Twin36_2_A

description:
bisulphite converted DNA from whole blood
Pair36_Twin2

source_name: whole blood 79


title: forelimb T12 replicate 5

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 12 days post amputation.
A95


title: Twin31_1_H

description:
bisulphite converted DNA from whole blood
Pair31_Twin1

source_name: whole blood 77


title: forelimb T12 replicate 1

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 12 days post amputation.
A121


title: Twin36_1_A

description:
bisulphite converted DNA from whole blood
Pair36_Twin1

source_name: whole blood 80


title: forelimb T12 replicate 4

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 12 days post amputation.
A33


title: forelimb T12 replicate 3

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 12 days post amputation.
A30


title: forelimb T14 replicate 6

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 14 days post amputation.
EF01


title: forelimb T10 replicate 10

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 10 days post amputation.
EF25

source_name: 1.0mm distal tip of regenerating axolotl limb amputated at mid zeugopod at T10


title: forelimb T10 replicate 7

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 10 days post amputation.
EF16


title: forelimb T10 replicate 6

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 10 days post amputation.
EF02


title: forelimb T10 replicate 5

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 10 days post amputation.
A6


title: forelimb T10 replicate 9

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 10 days post amputation.
EF21


title: forelimb T10 replicate 8

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 10 days post amputation.
EF20


title: forelimb T10 replicate 4

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 10 days post amputation.
A26


title: Twin32_1_A

description:
bisulphite converted DNA from whole blood
Pair32_Twin1

source_name: whole blood 75


title: forelimb T12 replicate 8

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 12 days post amputation.
EF12


title: Twin37_2_F

description:
bisulphite converted DNA from whole blood
Pair37_Twin2

source_name: whole blood 70


title: forelimb T12 replicate 2

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 12 days post amputation.
A27


title: Twin31_2_H

description:
bisulphite converted DNA from whole blood
Pair31_Twin2

source_name: whole blood 78


title: Twin32_2_A

description:
bisulphite converted DNA from whole blood
Pair32_Twin2

source_name: whole blood 76


title: Twin44_1_H

description:
bisulphite converted DNA from whole blood
Pair44_Twin1

source_name: whole blood 73


title: Twin44_2_H

description:
bisulphite converted DNA from whole blood
Pair44_Twin2

source_name: whole blood 74


title: forelimb T10 replicate 2

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 10 days post amputation.
A128


title: Twin40_2_H

description:
bisulphite converted DNA from whole blood
Pair40_Twin2

source_name: whole blood 72


title: Twin36_2_2_H

description:
bisulphite converted DNA from whole blood
Pair36_Twin2

source_name: whole blood 91


title: forelimb T10 replicate 1

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 10 days post amputation.
A1


title: forelimb T9 replicate 7

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 9 days post amputation.
DF04

source_name: 1.0mm distal tip of regenerating axolotl limb amputated at mid zeugopod at T9


title: Twin40_1_H

description:
bisulphite converted DNA from whole blood
Pair40_Twin1

source_name: whole blood 71


title: forelimb T9 replicate 4

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 9 days post amputation.
A76


title: forelimb T9 replicate 8

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 9 days post amputation.
DF11


title: forelimb T9 replicate 5

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 9 days post amputation.
A99


title: forelimb T9 replicate 6

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 9 days post amputation.
DF01


title: forelimb T9 replicate 9

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 9 days post amputation.
DF14


title: Twin34_1_G

description:
bisulphite converted DNA from whole blood
Pair34_Twin1

source_name: whole blood 68


title: forelimb T9 replicate 10

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 9 days post amputation.
DF27


title: forelimb T10 replicate 3

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 10 days post amputation.
A2


title: forelimb T9 replicate 2

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 9 days post amputation.
A56


title: Twin42_1_D

description:
bisulphite converted DNA from whole blood
Pair42_Twin1

source_name: whole blood 63


title: forelimb T9 replicate 3

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 9 days post amputation.
A71


title: Twin41_1_G

description:
bisulphite converted DNA from whole blood
Pair41_Twin1

source_name: whole blood 65


title: forelimb T7 replicate 9

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 7 days post amputation.
DF22

source_name: 1.0mm distal tip of regenerating axolotl limb amputated at mid zeugopod at T7


title: forelimb T9 replicate 1

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 9 days post amputation.
A12


title: forelimb T7 replicate 8

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 7 days post amputation.
DF20


title: forelimb T7 replicate 7

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 7 days post amputation.
DF18


title: forelimb T7 replicate 10

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 7 days post amputation.
DF30


title: Twin42_2_D

description:
bisulphite converted DNA from whole blood
Pair42_Twin2

source_name: whole blood 64


title: forelimb T7 replicate 6

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 7 days post amputation.
DF13


title: forelimb T7 replicate 4

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 7 days post amputation.
A92


title: Twin41_2_G

description:
bisulphite converted DNA from whole blood
Pair41_Twin2

source_name: whole blood 66


title: forelimb T7 replicate 1

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 7 days post amputation.
A115


title: forelimb T7 replicate 2

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 7 days post amputation.
A29


title: forelimb T7 replicate 5

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 7 days post amputation.
A94


title: forelimb T7 replicate 3

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 7 days post amputation.
A86


title: forelimb T5 replicate 9

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 5 days post amputation.
DF17

source_name: 1.0mm distal tip of regenerating axolotl limb amputated at mid zeugopod at T5


title: forelimb T5 replicate 7

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 5 days post amputation.
DF06


title: forelimb T5 replicate 10

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 5 days post amputation.
DF26


title: forelimb T5 replicate 6

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 5 days post amputation.
DF03


title: Twin33_2_A

description:
bisulphite converted DNA from whole blood
Pair33_Twin2

source_name: whole blood 62


title: forelimb T5 replicate 8

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 5 days post amputation.
DF07


title: Twin37_1_F

description:
bisulphite converted DNA from whole blood
Pair37_Twin1

source_name: whole blood 69


title: forelimb T5 replicate 3

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 5 days post amputation.
A73


title: Twin33_1_A

description:
bisulphite converted DNA from whole blood
Pair33_Twin1

source_name: whole blood 61


title: forelimb T5 replicate 1

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 5 days post amputation.
A61


title: Twin34_2_G

description:
bisulphite converted DNA from whole blood
Pair34_Twin2

source_name: whole blood 67


title: forelimb T5 replicate 4

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 5 days post amputation.
A9


title: forelimb T5 replicate 2

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 5 days post amputation.
A65


title: Twin46_2_F

description:
bisulphite converted DNA from whole blood
Pair46_Twin2

source_name: whole blood 60


title: froelimb T4 replicate 8

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 4 days post amputation.
DF16

source_name: 1.0mm distal tip of regenerating axolotl limb amputated at mid zeugopod at T4


title: Twin46_1_F

description:
bisulphite converted DNA from whole blood
Pair46_Twin1

source_name: whole blood 59


title: forelimb T5 replicate 5

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 5 days post amputation.
A90


title: Twin29_2_D

description:
bisulphite converted DNA from whole blood
Pair29_Twin2

source_name: whole blood 58


title: Twin19_1_D

description:
bisulphite converted DNA from whole blood
Pair19_Twin1

source_name: whole blood 55


title: forelimb T4 replicate 9

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 4 days post amputation.
DF21


title: forelimb T4 replicate 10

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 4 days post amputation.
DF23


title: forelimb T4 replicate 7

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 4 days post amputation.
DF09


title: forelimb T4 replicate 6

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 4 days post amputation.
DF08


title: forelimb T4 replicate 5

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 4 days post amputation.
A53


title: forelimb T4 replicate 4

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 4 days post amputation.
A31


title: Twin19_2_D

description:
bisulphite converted DNA from whole blood
Pair19_Twin2

source_name: whole blood 56


title: Twin7_2_D

description:
bisulphite converted DNA from whole blood
Pair7_Twin2

source_name: whole blood 52


title: Twin9_2_D

description:
bisulphite converted DNA from whole blood
Pair9_Twin2

source_name: whole blood 54


title: forelimb T3 replicate 10

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 3 days post amputation.
DF29

source_name: 1.0mm distal tip of regenerating axolotl limb amputated at mid zeugopod at T3


title: forelimb T4 replicate 2

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 4 days post amputation.
A101


title: forelimb T4 replicate 3

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 4 days post amputation.
A11


title: Twin7_1_D

description:
bisulphite converted DNA from whole blood
Pair7_Twin1

source_name: whole blood 51


title: Twin28_2_A

description:
bisulphite converted DNA from whole blood
Pair28_Twin2

source_name: whole blood 50


title: forelimb T3 replicate 8

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 3 days post amputation.
DF25


title: Twin28_1_A

description:
bisulphite converted DNA from whole blood
Pair28_Twin1

source_name: whole blood 49


title: Twin12_1_A

description:
bisulphite converted DNA from whole blood
Pair12_Twin1

source_name: whole blood 47


title: forelimb T3 replicate 6

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 3 days post amputation.
DF15


title: forelimb T4 replicate 1

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 4 days post amputation.
A10


title: forelimb T3 replicate 4

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 3 days post amputation.
A63


title: forelimb T3 replicate 7

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 3 days post amputation.
DF19


title: forelimb T3 replicate 5

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 3 days post amputation.
A97


title: Twin9_1_D

description:
bisulphite converted DNA from whole blood
Pair9_Twin1

source_name: whole blood 53


title: forelimb T3 replicate 3

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 3 days post amputation.
A40


title: forelimb T3 replicate 9

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 3 days post amputation.
DF28


title: forelimb T3 replicate 2

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 3 days post amputation.
A13


title: forelimb T2 replicate 8

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 48 hours post amputation.
FF05

source_name: 1.0mm distal tip of regenerating axolotl limb amputated at mid zeugopod at T2


title: Twin29_1_D

description:
bisulphite converted DNA from whole blood
Pair29_Twin1

source_name: whole blood 57


title: Twin12_2_A

description:
bisulphite converted DNA from whole blood
Pair12_Twin2

source_name: whole blood 48


title: forelimb T2 replicate 9

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 48 hours post amputation.
FF06


title: forelimb T2 replicate 5

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 48 hours post amputation.
BLP46


title: Twin11_2_A

description:
bisulphite converted DNA from whole blood
Pair11_Twin2

source_name: whole blood 46


title: forelimb T2 replicate 7

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 48 hours post amputation.
FF04


title: Twin24_2_A

description:
bisulphite converted DNA from whole blood
Pair24_Twin2

source_name: whole blood 42


title: forelimb T2 replicate 1

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 48 hours post amputation.
BLP13


title: Twin16_2_D

description:
bisulphite converted DNA from whole blood
Pair16_Twin2

source_name: whole blood 44


title: forelimb T2 replicate 2

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 48 hours post amputation.
BLP17


title: Twin11_1_A

description:
bisulphite converted DNA from whole blood
Pair11_Twin1

source_name: whole blood 45


title: forelimb T2 replicate 3

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 48 hours post amputation.
BLP20


title: forelimb T2 replicate 6

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 48 hours post amputation.
FF02


title: forelimb T1.5 replicate 8

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 36 hours post amputation.
FF20

source_name: 1.0mm distal tip of regenerating axolotl limb amputated at mid zeugopod at T1.5


title: forelimb T1.5 replicate 10

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 36 hours post amputation.
FF27


title: Twin10_2_A

description:
bisulphite converted DNA from whole blood
Pair10_Twin2

source_name: whole blood 38


title: Twin16_1_D

description:
bisulphite converted DNA from whole blood
Pair16_Twin1

source_name: whole blood 43


title: forelimb T2 replicate 4

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 48 hours post amputation.
BLP37


title: forelimb T3 replicate 1

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 3 days post amputation.
A116


title: forelimb T1.5 replicate 7

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 36 hours post amputation.
FF19


title: Twin4_2_B

description:
bisulphite converted DNA from whole blood
Pair4_Twin2

source_name: whole blood 36


title: forelimb T1.5 replicate 5

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 36 hours post amputation.
BLP67


title: forelimb T1.5 replicate 6

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 36 hours post amputation.
FF18


title: forelimb T1.5 replicate 2

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 36 hours post amputation.
BLP34


title: Twin13_1_A

description:
bisulphite converted DNA from whole blood
Pair13_Twin1

source_name: whole blood 39


title: forelimb T1.5 replicate 1

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 36 hours post amputation.
BLP26


title: Twin13_2_A

description:
bisulphite converted DNA from whole blood
Pair13_Twin2

source_name: whole blood 40


title: forelimb T1.5 replicate 4

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 36 hours post amputation.
BLP64


title: Twin10_1_A

description:
bisulphite converted DNA from whole blood
Pair10_Twin1

source_name: whole blood 37


title: forelimb T1 replicate 10

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 24 hours post amputation.
FF12

source_name: 1.0mm distal tip of regenerating axolotl limb amputated at mid zeugopod at T1


title: Twin24_1_A

description:
bisulphite converted DNA from whole blood
Pair24_Twin1

source_name: whole blood 41


title: forelimb T1 replicate 9

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 24 hours post amputation.
FF10


title: forelimb T1 replicate 7

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 24 hours post amputation.
FF08


title: forelimb T1 replicate 6

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 24 hours post amputation.
FF01


title: forelimb T1 replicate 5

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 24 hours post amputation.
BLP47


title: forelimb T1 replicate 3

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 24 hours post amputation.
BLP22


title: forelimb T2 replicate 10

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 48 hours post amputation.
FF11


title: forelimb T1 replicate 4

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 24 hours post amputation.
BLP45


title: forelimb T1.5 replicate 9

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 36 hours post amputation.
FF21


title: Twin4_1_B

description:
bisulphite converted DNA from whole blood
Pair4_Twin1

source_name: whole blood 35


title: forelimb T0.5 replicate 10

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 12 hours post amputation.
FF28


title: forelimb T0.5 replicate 9

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 12 hours post amputation.
FF25

source_name: 1.0mm distal tip of regenerating axolotl limb amputated at mid zeugopod at T0.5


title: forelimb T1 replicate 8

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 24 hours post amputation.
FF09


title: forelimb T1 replicate 1

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 24 hours post amputation.
BLP5


title: Twin3_2_C

description:
bisulphite converted DNA from whole blood
Pair3_Twin2

source_name: whole blood 34


title: forelimb T1.5 replicate 3

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 36 hours post amputation.
BLP63


title: forelimb T0.5 replicate 8

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 12 hours post amputation.
FF24


title: Twin3_1_C

description:
bisulphite converted DNA from whole blood
Pair3_Twin1

source_name: whole blood 33


title: forelimb T1 replicate 2

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 24 hours post amputation.
BLP12


title: Twin27_1_D

description:
bisulphite converted DNA from whole blood
Pair27_Twin1

source_name: whole blood 31


title: Twin26_1_D

description:
bisulphite converted DNA from whole blood
Pair26_Twin1

source_name: whole blood 29


title: Twin23_1_A

description:
bisulphite converted DNA from whole blood
Pair23_Twin1

source_name: whole blood 27


title: forelimb T0.5 replicate 6

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 12 hours post amputation.
FF22


title: forelimb T0.5 replicate 5

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 12 hours post amputation.
BLP66


title: Twin26_2_D

description:
bisulphite converted DNA from whole blood
Pair26_Twin2

source_name: whole blood 30


title: forelimb T0.5 replicate 4

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 12 hours post amputation.
BLP65


title: forelimb T0.5 replicate 7

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 12 hours post amputation.
FF23


title: Twin27_2_D

description:
bisulphite converted DNA from whole blood
Pair27_Twin2

source_name: whole blood 32


title: Twin30_2_G

description:
bisulphite converted DNA from whole blood
Pair30_Twin2

source_name: whole blood 26


title: 4uM tamoxifen rep4

city: La Jolla

first: Pamela

last: Itkin-Ansari

state: CA

address: 9500 Gilman Drive, MC0816

department: Pediatrics

institute: University of California, San Diego

description: replicate 4

hyb_protocol: The labeled cRNA (1500 ng) was hybridized overnight at 58°C to the Sentrix ® HumanHT-12 Expression BeadChip (>46,000 gene transcripts; Illumina, San Diego, CA, USA) according to the manufacturer's instructions. BeadChips were subsequently washed and developed with fluorolink streptavidin- Cy3 (GE Healthcare).

scan_protocol: BeadChips were scanned with an Illumina BeadArray Reader with SN S285.

data_processing: The data were normalized using quantile normalization approach with Illumina GenomeStudio.

source_name: PANC-1 cells

label_protocol: Labeled cRNA was prepared from 500 ng RNA using the Illumina® RNA Amplification Kit from Ambion (Life Technology, USA).

growth_protocol: Cells grown in RPMI with 10% FBS, 5% CO2

extract_protocol: Qiagen RNA extraction

treatment_protocol: Cells were untreated or treated with 1uL tamoxifen for 48 hours or 4uM tamoxifen for 48 hours

tag: diagnosis

value: Pancreatic Ductal Adenocarcinoma

value: 4uM tamoxifen


title: forelimb T0.5 replicate 3

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 12 hours post amputation.
BLP51


title: forelimb T0.5 replicate 1

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 12 hours post amputation.
BLP10

source_name: 1.0mm distal tip of regenerating axolotl limb amputated at mid zeugopod at T0


title: Twin30_1_G

description:
bisulphite converted DNA from whole blood
Pair30_Twin1

source_name: whole blood 25


title: untreated rep4

description: replicate 4

value: untreated


title: forelimb T0 replicate 10

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod immediately post amputation.
FF17


title: forelimb T0 replicate 9

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod immediately post amputation.
FF16


title: Twin22_1_G

description:
bisulphite converted DNA from whole blood
Pair22_Twin1

source_name: whole blood 23


title: Twin23_2_A

description:
bisulphite converted DNA from whole blood
Pair23_Twin2

source_name: whole blood 28


title: 1uM tamoxifen rep4

description: replicate 4

value: 1uM tamoxifen


title: 1uM tamoxifen rep3

description: replicate 3


title: forelimb T0 replicate 8

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod immediately post amputation.
FF15

value: mid zeugopod


title: 4uM tamoxifen rep3

description: replicate 3


title: untreated rep3

description: replicate 3


title: Twin22_2_G

description:
bisulphite converted DNA from whole blood
Pair22_Twin2

source_name: whole blood 24


title: forelimb T0 replicate 7

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod immediately post amputation.
FF14


title: forelimb T0 replicate 6

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod immediately post amputation.
FF13


title: 4uM tamoxifen rep2

description: replicate 2


title: Twin18_2_F

description:
bisulphite converted DNA from whole blood
Pair18_Twin2

source_name: whole blood 20


title: Twin2_1_C

description:
bisulphite converted DNA from whole blood
Pair2_Twin1

source_name: whole blood 21


title: untreated rep2

description: replicate 2


title: forelimb T0 replicate 5

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod immediately post amputation.
BLP9


title: forelimb T0.5 replicate 2

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod 12 hours post amputation.
BLP29

source_name: 1.0mm distal tip of regenerating axolotl limb amputated at mid zeugopod at T0.5


title: forelimb T0 replicate 3

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod immediately post amputation.
BLP4


title: forelimb T0 replicate 4

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod immediately post amputation.
BLP7


title: Twin8_1_G

description:
bisulphite converted DNA from whole blood
Pair8_Twin1

source_name: whole blood 17


title: 1uM tamoxifen rep2

description: replicate 2


title: 4uM tamoxifen rep1

description: replicate 1


title: forelimb T0 replicate 2

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod immediately post amputation.
BLP3


title: Twin2_2_C

description:
bisulphite converted DNA from whole blood
Pair2_Twin2

source_name: whole blood 22


title: 1uM tamoxifen rep1

description: replicate 1


title: Twin14_1_G

description:
bisulphite converted DNA from whole blood
Pair14_Twin1

source_name: whole blood 13


title: Twin8_2_G

description:
bisulphite converted DNA from whole blood
Pair8_Twin2

source_name: whole blood 18


title: Twin5_2_G

description:
bisulphite converted DNA from whole blood
Pair5_Twin2

source_name: whole blood 10


title: untreated rep1

description: replicate 1


title: Twin18_1_F

description:
bisulphite converted DNA from whole blood
Pair18_Twin1

source_name: whole blood 19


title: forelimb T0 replicate 1

description:
Gene expression data from 1.0mm distal tip of heterogeneous tissue from axolotl limb amputated at mid zeugopod immediately post amputation.
BLP2


title: Twin25_2_E

description:
bisulphite converted DNA from whole blood
Pair25_Twin2

source_name: whole blood 16


title: Twin5_1_G

description:
bisulphite converted DNA from whole blood
Pair5_Twin1

source_name: whole blood 9


title: Twin1_2_G

description:
bisulphite converted DNA from whole blood
Pair1_Twin2

source_name: whole blood 8


title: Twin6_1_G

description:
bisulphite converted DNA from whole blood
Pair6_Twin1

source_name: whole blood 11


title: Twin14_2_G

description:
bisulphite converted DNA from whole blood
Pair14_Twin2

source_name: whole blood 14


title: Cell line drug naive_NCI-H929

status: Public on Apr 19 2015

city: Aalborg

first: Steffen

middle: Falgreen

last: Larsen

address: Sdr Skovvej 15

department: Department of Haematology

country: Denmark

institute: Aalborg University Hospital

description: Gene expression data from cell lines before they are treated with chemotherapy

hyb_protocol: Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45°C on Affymetrix GeneChip HG-U133 Plus 2.0 array using GeneChip Hybridization Oven 640 according to the manufacturer’s protocol. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.

scan_protocol: Gene Chips were scanned using the Affymetrix GeneChip scanner 3000 7G

data_processing: Data were analyzed using R version 3.0.1  and several R and Bioconductor packages. The .CEL-files were pre-processed using the Robust Multichip Average procedure (RMA) as implemented in the just.rma function from the Bioconductor package affy. All RMA-normalised arrays passed the statistical quality control provided by the function arrayQualityMetrics in the R-package arrayQualityMetrics.

label: Biotin

source_name: malignant human B-cell cell line

label_protocol: Biotinylated cRNA were prepared using the GeneChip Expression 3’ amplification One-cycle Target Labeling (Affymetrix) from 5 ug total RNA

growth_protocol: Cell lines were cultured under standard conditions at 37°C in a humidified atmosphere of 95% air and 5% CO2.

extract_protocol: Total RNA was isolated using a modified protocol of Trizol Reagent and Qiagen RNeasy. Shortly Trizol was added to cell pellets and incubated for 5 minutes at RT, 200µl chloroform was added and 2 minutes incubation at RT, the mixture was centrifuges at 12,000 g for 10 minutes at 4°C. The aqurous phase transfered to a new tube and 100 % ethanol added in 1.25X the volume. Mix well and transfer to mirVana columns and follow the manufacturers instruction from this point.

treatment_protocol: 5*10^6 cells in the exponential phase were harvested for total RNA isolation.

tag: disease

value: Multiple myeloma

tag: growth medium

value: RPMI+20% FBS

tag: cyclophosphamide auc

tag: cyclophosphamide

value: Intermediate

tag: doxorubicin auc

value: Sensitive

tag: vincristine auc

tag: vincristine

value: Resistant


title: Twin25_1_E

description:
bisulphite converted DNA from whole blood
Pair25_Twin1

source_name: whole blood 15

value: Female


title: Cell line drug naive_OCI-Ly3

tag: cell line

value: Diffuse large B-cell lymphoma

value: IMDM+20 % inactivated Human serum+55µM 2-mercaptoethanol


title: Cell line drug naive_KMS-12-PE


title: Cell line drug naive_RIVA

value: RIVA

value: RPMI+10 % FBS


title: Cell line drug naive_NU-DHL-1


title: Cell line drug naive_U-266

value: RPMI+10% FBS


title: Mock infected 1

city: Dunedin

first: Christopher

middle: Michael

last: Brown

address: 710 Cumberland St

department: Biochemistry

country: New Zealand

institute: University of Otago

hyb_protocol: Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Mouse 430_2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.

scan_protocol: GeneChips were scanned using an Affymtrix scanner

data_processing: The data were analyzed with GenePattern, using RMA and quantile normalization using the ExpressionFileCreator in Genepattern (Reich et al., 2006), preprocessed using PreprocessDataset,  comparison was done using ComparativeMarkerSelection.

source_name: Mouse RAW cells mock transfected after 18 h

label_protocol: Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).

growth_protocol: RAW264.7 cells were grown  at 37˚C + 5% CO2 in GIBCO DMEM with 4.5 g/L glucose + 2.5 mM HEPES + 5% fetal calf serum, in 6-well plates. Once cells were 70% confluent, infection was performed

extract_protocol: Qiagen RNeasy mini kit

treatment_protocol: RAW264.7 cells were infected with MNV-1 at a multiplicity of infection of 1, or mock infected, for 12 hours

tag: infection

value: control


title: Cell line drug naive_U2932


title: Cell line drug naive_NU-DUL-1

value: RPMI+15 % FBS


title: Cell line drug naive_OCI-Ly19


title: Cell line drug naive_SU-DHL-4

value: RPMI +10 % FBS


title: Twin6_2_G

description:
bisulphite converted DNA from whole blood
Pair6_Twin2

source_name: whole blood 12

tag: sample type

value: whole blood


title: Cell line drug naive_MC-116

value: Undifferentiated lymphoma

value: RPMI, 15% FBS


title: Twin1_1_G

description:
bisulphite converted DNA from whole blood
Pair1_Twin1

source_name: whole blood 7

tag: disease state


title: Cell line drug naive_FARAGE

value: FARAGE


title: Cell line drug naive_HBL-1


title: Infected MNV 1

source_name: Mouse RAW cells transfected after 18 h


title: Twin15_1_B

description:
bisulphite converted DNA from whole blood
Pair15_Twin1

source_name: whole blood 5

tag: twin pair


title: Twin21_1_A

description:
bisulphite converted DNA from whole blood
Pair21_Twin1

source_name: whole blood 3

value: Male


title: Twin21_2_A

description:
bisulphite converted DNA from whole blood
Pair21_Twin2

source_name: whole blood 4


title: Infected MNV 2


title: Mock infected 2


title: Twin20_2_F

description:
bisulphite converted DNA from whole blood
Pair20_Twin2

source_name: whole blood 2


title: Twin20_1_F

description:
bisulphite converted DNA from whole blood
Pair20_Twin1

source_name: whole blood 1


title: Cell line drug naive_SU-DHL-5

value: RPMI+20 % FBS


title: Twin15_2_B

description:
bisulphite converted DNA from whole blood
Pair15_Twin2

source_name: whole blood 6


title: Cell line drug naive_SU-DHL-8

value: RPMI+10 % FBS+2mM L-glutamine

value: Intermediate

value: Sensitive


title: 9007225164_R02C01

status: Public on Apr 18 2015

city: Bron

first: Hector

last: Hernandez-Vargas

state: Rhone

address: 36 bis Rue de la Batterie

country: France

institute: Genomics Consulting

description: sample

hyb_protocol: bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium HumanMethylation 450k Beadchip using standard Illumina protocol

scan_protocol: Arrays were imaged using iScan  with standard recommended Illumina scanner settings

data_processing: GenomeStudio v2011.1 and R/Bioconductor packages

source_name: blood

extract_protocol: genomic DNA was extracted and purified from blood samples by desalting, proteinase K digestion, and ammonium acetate precipitation

value: F

tag: afb1 exposure

tag: season

value: dry


title: 9007225117_R04C01

description: sample

tag: gender

value: rainy


title: 9007225089_R04C01

description: sample

value: M


title: 9007225164_R04C01

description: sample


title: 6164621142_R02C01

description:
sample
genomic DNA from peripheral blood

data_processing: GenomeStudio v2011.1 and R/Bioconductor packages. BMIQ (beta-mixture quantile normalization) normalized Average Beta. Probes with detection P Values > 0.05 were filtered out. The raw data are available on the series level in the file GEO_betas_raw.csv and includes unmethylated and methylated signal intensities

tag: tissue

value: blood


title: 7471147005_R04C02


title: 7471147005_R01C01


title: 6164621132_R04C02


title: 9007225089_R03C02

description: sample


title: 6164621142_R02C02


title: 7471147005_R03C02


title: 6164621132_R06C01


title: 6164621132_R01C02


title: 6164621132_R04C01


title: 7471147005_R04C01


title: 6164621142_R03C02


title: 9007225117_R02C01

description: sample


title: 7507875165_R03C02


title: 6164621132_R05C02


title: 7471147005_R06C01


title: 7507875165_R04C02


title: 6164621142_R06C01


title: 6164621142_R05C01


title: 6164621142_R06C02


title: 7973219166_R02C01


title: 6164621132_R02C02


title: 7990895016_R01C02


title: 7973219167_R02C02


title: 7990895010_R06C01


title: 7471147005_R05C02


title: 7990895016_R04C02


title: 7973219166_R03C02


title: 7973219166_R04C01


title: 7973219167_R04C02


title: 7990895010_R01C01


title: 7973219167_R01C01


title: 7973219166_R05C02


title: 7990895030_R03C02


title: 7990895016_R02C02


title: 7973219167_R05C01


title: PBMC-HIV_infection

city: Hong Kong

first: Yinfeng

last: Zhang

address: 1 shatin road

country: Hong Kong

institute: The Chinese University of Hong Kong

hyb_protocol: The NimbleGen Hybridization Kit was used accordint to the standard operating protocol.

scan_protocol: MS 200 Microarray Scanner and MS 200 Data Collection Software were used according to the standard operating protocol.

data_processing:
DEVA software v.1.2.1 from Nimblegen was used to process the data.
From Log2 ratio data, a 750bp fixed-length window was placed around each consecutive probe followed with Kolmogorov-Smirnov (KS) test, and the resulting score called P-score was the -log10 P-value for each probe. Finally, the methylation peak data was generated from the P score data through merging consecutive probes with the following default conditions: minimum cut-off p-value 2.0, maximum 500 bp spacing and minimum of two probes per peak.

source_name: Methylated Genomic DNA from HIV infected twin

label_protocol: The NimbleGen Dual-Color DNA labeling Kit was used accordint to the standard operating protocol.

extract_protocol: Genomic DNA was isolated from peripheral blood mononuclear cells (PBMCs)using the Qiagen DNeasy kit.

treatment_protocol: Immunoprecipitation of methylated DNA was performed using the Methylated-DNA IP Kit (Zymo Research)

tag: cell type

value: Peripheral blood mononuclear cell

value: HIV+

source_name: Methylated Genomic DNA from HIV uninfected twin

value: peripheral blood mononuclear cell

value: HIV-


title: 7973219166_R01C02


title: 6164621132_R03C02


title: 7990895042_R06C01


title: 7990895042_R02C02


title: 7990895042_R01C01


title: 7990895030_R05C01


title: 7990895030_R05C02


title: 7990895030_R04C01


title: 7990895042_R03C01


title: 7990895030_R01C02


title: 7990895016_R06C02


title: 7973219167_R01C02


title: 9007225117_R01C02


title: 9007225117_R03C01


title: 9007225089_R06C01


title: 7973219166_R06C02


title: 9007225089_R02C02


title: Th17_invitro_rep6

city: Ann Arbor

first: Gary

last: Glick

state: MI

address: 2800 Plymouth Road

institute: Lycera

description: Gene expression data from in vitro Th17 cells

hyb_protocol: Following fragmentation, 3.7 ug of cDNA were hybridized for 20 hr at 48C on House Gene ST 2.1 strip arrays using the Affymetrix Gene Atlas system (software version 1.0.4.267).

scan_protocol: Arrays were scanned using the Affymetrix Gene Atlas system.

data_processing: Data was analyzed using the oligo Bioconductor package implemented in the R-statistical environment. RMA was used to fit log2 transformed expression values based on a larger set of samples, which have not been deposited.

source_name: in vitro Th17 cells GFP sorted

label_protocol: cDNA were prepared according to the NuGen WT-Pico V2 kit protocol from 50 ng total RNA (Ovation PicoSL WTA System V2 P/N 3312). Biotinylated single-stranded cDNA were prepared from 3ug of cDNA (Encore Biotin Module P/N 4200-12, 4200-60, 4200-A01)

growth_protocol: cells derived from OT-II IL17GFP knock-in were differentiated into Th17 in vitro by culturing splenocytes with IL-1b (10 ng/mL), IL-6 (10 ng/mL), IL-23 (10 ng/mL), human TGF-b (2.5 ng/mL) for 4 days and OVA 323-339 peptide or by in vivo exposure to Freund’s Adjuvant and OVA 323-339 peptide for 7 days

extract_protocol: RNA was extracted with RNease Plus Mini Kit (Qiagen) and samples were processed and analyzed at the University of Michigan microarray facility with Affimetrix mouse Gene 1.0 ST array.

value: in vitro differentiated Th17

tag: genotype

value: OT-II IL17GFP knock-in


title: Th17_invivo_GFPsorted_rep45

description: Gene expression data from in vivo Th17 cells

source_name: in vivo Th17 cells GFP sorted

value: in vivo differentiated Th17


title: Th17_invivo_GFPsorted_rep44


title: 7990895042_R04C01


title: Th17_invitro_rep5


title: 7990895030_R01C01


title: 9007225089_R04C02


title: EPN_ID00881_1_AMBION

city: Aurora

first: Andrew

middle: M

last: Donson

state: CO

institute: CU Anschutz Medical Campus

description: Reanalysis of GSM1214876,

hyb_protocol: Following fragmentation, 11.5 ug of cRNA were hybridized for 16 hr at 45C on GeneChips. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.

scan_protocol: GeneChips were scanned using the Affymetrix GeneChip Scanner 7G.

data_processing: Microarray .CEL file data was background corrected and normalized using the gcRMA algorithm, resulting in log 2 expression values. The Affymetrix HG-U133 Plus 2.0 microarray contains 54,675 probe sets including multiple probe sets for the same gene. In order to reduce error associated with multiple testing, we used only a single probe set for each gene that possessed the highest gcRMA expression level across all our samples. This filtered list of the best expressed probe sets contained 21,050 genes. This list was further filtered to remove probe sets that were expressed below a threshold level that denoted absence of expression in any sample.

source_name: brain tumor, ependymoma

label_protocol: Biotinylated cRNA were prepared according to the standard Affymetrix protocol (Expression Analysis Technical Manual, 2001, Affymetrix).

extract_protocol:
Collection: Tumor samples were snap frozen in liquid nitrogen or transferred to RNAlater immediately after surgical removal as part of patient care. All samples were collected with appropriate IRB approval (COM-IRB#95-500 and 09-0906).
RNeasy (Qiagen) extraction of total RNA was performed according to the manufacturer's instructions.

value: brain tumor

value: supratentorial ependymoma


title: 7973219167_R02C01


title: 9007225117_R06C02


title: EPN_ID00306_1_PF

description: Reanalysis of GSM1214841.

value: posterior fossa group B ependymoma


title: 9007225089_R01C02


title: EPN_ID00242_1_PF

description: Reanalysis of GSM1214838.


title: EPN_ID00218_1_PF_AMBION

description: Reanalysis of GSM1214837.


title: RMS_xP00525_1

description: Analysis of rhabdomyosarcoma surgical specimen.

source_name: tumor, rhabdomyosarcoma

value: tumor

value: rhabdomyosarcoma


title: 9007225117_R06C01


title: 9007225164_R03C01


title: 9007225089_R06C02


title: 9007225117_R02C02


title: 9007225117_R05C02

description:
sample
no processed data for this sample. This is a technical replicate of GSM1439981.
genomic DNA from peripheral blood


title: 7990895030_R06C01

value: F


title: RMS_xP00511_1


title: 9007225089_R03C01


title: 7990895030_R02C01


title: 9007225117_R03C02


title: RMS_xP00501_1


title: RMS_xP00533_1


title: 7990895042_R01C02


title: 7990895042_R05C01


title: 9007225089_R05C01


title: 7990895030_R04C02


title: RMS_xP00316_1


title: RMS_RM00001_1


title: 7990895042_R02C01


title: PNET_ID00837_1_AMBION

description: Analysis of primitive neuroectodermal tumor surgical specimen.

source_name: brain tumor, primitive neuroectodermal tumor

value: primitive neuroectodermal tumor


title: PNET_ID00640_1


title: 9007225089_R02C01


title: 7990895030_R06C02


title: 7990895030_R03C01


title: PNET_ID00592_1_AMBION


title: RMS_xP00388_1


title: PNET_ID00535_1


title: 9007225117_R05C01


title: PA_ID00882_1_AMBION

description: Reanalysis of GSM1214963

source_name: brain tumor, pilocytic astrocytoma

value: pilocytic astrocytoma


title: RMS_xP00372_1


title: PA_ID00784_1

description: Reanalysis of GSM1214960


title: PA_ID00855_1_AMBION

description: Reanalysis of GSM1214961


title: 7973219167_R06C01


title: PA_ID00879_1_AMBION

description: Reanalysis of GSM1214962


title: PA_ID00631_1

description: Reanalysis of GSM1214957


title: PA_ID00748_1

description: Reanalysis of GSM1214959


title: 7973219167_R03C01

description:
replicate
genomic DNA from peripheral blood

value: M


title: PA_ID00563_1

description: Reanalysis of GSM1214956


title: 7973219166_R05C01

value: blood


title: PA_ID00653_1

description: Reanalysis of GSM1214958


title: 9007225164_R01C01


title: PA_ID00519_1

description: Reanalysis of GSM1214955


title: PA_ID00476_1

description: Reanalysis of GSM1214954


title: PA_ID00363_1

description: Reanalysis of GSM1214952


title: 7973219167_R06C02


title: 7973219167_R05C02


title: PA_ID00257_1

description: Reanalysis of GSM1214951


title: PA_ID00378_1

description: Reanalysis of GSM1214953


title: 7990895010_R05C01


title: PA_ID00160_1

description: Reanalysis of GSM1214949


title: PA_ID00249_1

description: Reanalysis of GSM1214950


title: 7973219167_R04C01


title: 7990895010_R03C01


title: 7990895010_R01C02


title: 7973219166_R03C01


title: 7973219167_R03C02


title: 7973219166_R06C01


title: 7973219166_R02C02


title: 7990895016_R06C01


title: NORMAL_ID00605_Parietal_AMBION

description: Reanalysis of GSM1214947

source_name: normal brain, parietal lobe of cerebral cortex

value: normal brain (parietal lobe of cerebral cortex)

value: normal


title: NORMAL_ID00605_Occipital_AMBION

description: Reanalysis of GSM1214946

source_name: normal brain, occipital lobe of cerebral cortex

value: normal brain (occipital lobe of cerebral cortex)


title: 7471147005_R03C01


title: NORMAL_ID00605_Frontal_1

description: Reanalysis of GSM1214945

source_name: normal brain, frontal lobe of cerebral cortex

value: normal brain (frontal lobe of cerebral cortex)


title: 9007225117_R04C02

description:
sample
no processed data for this sample. This sample is a technical replicate of GSM1439957.
genomic DNA from peripheral blood


title: NORMAL_ID99999_ChoroidPlexus

description: Analysis of choroid plexus surgical specimen.

source_name: normal brain, choroid plexus

value: normal brain (choroid plexus)


title: 7471147005_R05C01


title: NORMAL_ID00605_ChoroidPlexus_1


title: 9007225089_R05C02


title: 6164621142_R04C01


title: NORMAL_ID00514_Thal

description: Reanalysis of GSM1214943

source_name: normal brain, thalamus

value: normal brain (thalamus)


title: NORMAL_ID00514_Temporal_AMBION

description: Reanalysis of GSM1214942

source_name: normal brain, temporal lobe of cerebral cortex

value: normal brain (temporal lobe of cerebral cortex)


title: 7973219166_R01C01


title: 7471147005_R06C02


title: NORMAL_ID00514_Midbrain_AMBION

description: Reanalysis of GSM1214939

source_name: normal brain, midbrain

value: normal brain (midbrain)


title: NORMAL_ID00514_Occipital_AMBION

description: Reanalysis of GSM1214940


title: 6164621142_R03C01


title: NORMAL_ID00514_Parietal_AMBION

description: Reanalysis of GSM1214941


title: 7507875165_R05C02


title: NORMAL_ID00514_Medulla_AMBION

description: Reanalysis of GSM1214938

source_name: normal brain, medulla

value: normal brain (medulla)


title: 7471147005_R02C01

source_name: blood


title: NORMAL_ID00514_Cerebellum

description: Reanalysis of GSM1214936

source_name: normal brain, cerebellum

value: normal brain (cerebellum)


title: NORMAL_ID00514_ChoroidPlexus


title: NORMAL_E00003_Frontal_1b

description:
NORMAL_E00003_Frontal_1
Reanalysis of GSM1214948

value: frontal lobe of cerebral cortex


title: 6164621142_R01C01


title: 6164621142_R05C02

description:
sample
no processed data for this sample. This sample is a technical replicate of GSM1439947.
genomic DNA from peripheral blood


title: MPNST_xB00048_1

description: Analysis of malignant peripheral nerve sheath tumor surgical specimen.

source_name: tumor, malignant peripheral nerve sheath

value: tumor

value: malignant peripheral nerve sheath


title: MPNST_xB00053_1


title: MPNST_xB00047_1


title: NORMAL_ID00605_Cerebellum_AMBION

description: Reanalysis of GSM1214944


title: MEN_xB00024_1

description: Analysis of meningioma surgical specimen.

source_name: tumor, meningioma

value: meningioma


title: 7973219166_R04C02


title: MPNST_ID00426_1


title: MEN_xB00025_1


title: 7990895010_R04C01

value: F


title: MPNST_ID00596_1


title: MEN_xB00009_1


title: 6164621132_R01C01

value: M


title: MEN_xB00008_1


title: MPNST_ID00083_1


title: 6164621132_R02C01

value: blood


title: MEN_xB00007_1


title: 6164621142_R01C02


title: 7990895010_R02C01


title: MEN_ID00762_1


title: MEN_xB00022_1


title: 6164621142_R04C02


title: MEN_ID00634_1


title: 7471147005_R01C02


title: MED_ID00898_1_SHH_AMBION

description: Reanalysis of GSM1214933

source_name: brain tumor, medulloblastoma

value: brain tumor

value: sonic hedgehog group medulloblastoma


title: 7990895030_R02C02


title: MED_xB00040_1_SHH

description: Analysis of medulloblastoma surgical specimen.


title: MED_ID00851_1_GP3_AMBION

value: group 3 medulloblastoma


title: 6164621132_R06C02


title: MED_ID00791_1_GP4_AMBION

description: Reanalysis of GSM1214928

value: group 4 medulloblastoma


title: MED_ID00797_1_GP4

description: Reanalysis of GSM1214929


title: 7990895016_R03C02


title: MED_ID00801_1_SHH_AMBION

description: Reanalysis of GSM1214930


title: 6164621132_R05C01


title: 9007225117_R01C01


title: MED_ID00719_1_SHH_AMBION

description: Reanalysis of GSM1214927


title: 6164621132_R03C01


title: MED_ID00288_1_SHH

description: Reanalysis of GSM1214920


title: NORMAL_ID00514_Frontal

description: Reanalysis of GSM1214937

value: normal brain (frontal lobe of cerebral cortex)

value: normal


title: MED_ID00529_1_SHH_AMBION

description: Reanalysis of GSM1214923


title: MED_ID00437_1_GP4

description: Reanalysis of GSM1214922


title: MED_ID00330_1_GP4

description: Reanalysis of GSM1214921


title: MED_ID00186_1_GP4

description: Reanalysis of GSM1214915


title: MED_ID00565_1_SHH

description: Reanalysis of GSM1214924


title: MED_ID00258_1_SHH

description: Reanalysis of GSM1214917


title: Energy starved quiescence 1

first: Andres

last: Kriete

address: 3141 Chestnut St

department: School of Biomedical Engineering

institute: Drexel University

description: treated sample

hyb_protocol: Standard Illumina hybridization protocol

scan_protocol: Standard Illumina scanning protocol

data_processing: The average intensity of each experimental array was independently normalized by a scaling factor to a baseline consisting of an average obtained from all arrays used in this study. This normalization was carried out in Excel.

source_name: Dermal fibroblast

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

growth_protocol: Cells were starved for 24 h

extract_protocol: RNA was extracted with Trizol reagent, followed by clean-up and DNase I treatment with QIAGEN RNeasy mini kit in accordance with the prescribed protocol provided with the kit. Quality control was performed with Agilent Bioanalyser.

treatment_protocol: Cells in quiescence were energy restricted by double inhibition with DNP and 2DG for 24 hours

tag: treatment

value: 24h energy starvation sample using DNP/2DG inhibitor combination

tag: vendor/catalog#

value: Coriell AG 10803


title: MED_ID00262_1_GP4

description: Reanalysis of GSM1214918


title: MED_ID00613_1_WNT

description: Reanalysis of GSM1214934


title: GBM_ID00391_1

description: Reanalysis of GSM1214889

source_name: brain tumor, pediatric high grade glioma

value: pediatric high grade glioma


title: Control quiescence 1

description: control sample

value: quiescent control


title: Energy starved quiescence 3

description: biological replicate of treated sample


title: 7471147005_R02C02


title: Control quiescence 2

description: technical replicate of control sample


title: GBM_ID00637_1

description: Reanalysis of GSM1214894


title: GBM_ID00281_1

description: Reanalysis of GSM1214887


title: MED_ID00254_1_GP4

description: Reanalysis of GSM1214916


title: MED_ID00277_1_GP3

description: Reanalysis of GSM1214919


title: GBM_ID00434_1

description: Reanalysis of GSM1214890


title: GBM_ID00309_1

description: Reanalysis of GSM1214888


title: GBM_ID00089_1_AMBION

description: Reanalysis of GSM1214883


title: GBM_ID00668_1

description: Reanalysis of GSM1214895


title: GBM_ID00098_1

description: Reanalysis of GSM1214884


title: GBM_ID00271_1

description: Reanalysis of GSM1214885


title: Energy starved quiescence 2

description: technical replicate of treated sample


title: CPP_ID00814_1_AMBION

description: Analysis of choroid plexus papilloma surgical specimen.

source_name: brain tumor, choroid plexus papilloma

value: choroid plexus papilloma


title: GBM_ID00000_1

description: Reanalysis of GSM1214880


title: CPP_ID00037_1


title: CPP_ID00451_1


title: CPP_ID00420_1


title: CPP_ID00284_1


title: U87 tumor sphere ITE

city: Hangzhou

first: Yingjie

last: Wang

state: Zhejiang

address: Research Center C701,School of Medicine,Zhejiang University,866 Yuhangtang Road

department: Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, the First Affiliated Hospital, School of Medicine

country: China

institute: Zhejiang University

description: total RNA

hyb_protocol: Fragmentation of the labeled aRNA prepares the target for hybridization to GeneChip® 3’ expression arrays.

scan_protocol: The arrays were scanned at 570 nm with a confocal scanner from Affymetrix.

data_processing: Analysis of the arrays was performed using the Partek GS 6.5. Normalization of the array was performed using a robust multiarray analysis (RMA).

label: tumor sphere

source_name: Human U87 cells

label_protocol: In Vitro transcription to synthesize biotin-modified aRNA with IVT Labeling Master Mix generates multiple copies of biotin-modified aRNA from the double-stranded cDNA templates.

growth_protocol: U87 cells were cultured and treated in DMEM supplemented with 10% fetal bovine serum， 5% CO2， 37℃. For tumor sphere assay, U87 cells were plated at a density of 30,000 cells/ml  with neural stem cell (NSC) medium to allow tumor sphere formation.

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

treatment_protocol: U87 tumor sphere cells were cultured in NSC medium and treated with either vehicle (DMSO) or 10 μM ITE for 5 days with the ITE being replenished every 12 h.

value: tumor cells


title: ACP_PC00002_AMBION

description: Analysis of craniopharyngioma surgical specimen.

source_name: brain tumor, adamantinomatous craniopharyngioma

value: adamantinomatous craniopharyngioma


title: microdissected_bXMC_1

city: PARIS

first: Severine

middle: Aude

last: Degrelle

address: 4 avenue de l'Observatoire

institute: INSERM UMRS-1139

description: Syntax of the sample titles: Origin_CellType_ReplicateNumber - Where the Origin is either cultured, microdissected (cells) or dissected (tissues); Where the Cell type is either bTC, bXEC, bXMC or bD18ED (bovine day-18 embryonic disc).

hyb_protocol: Prehybridisation in ExpressHybTM Hybridization Solution (Clontech) at 68°C during 1h (14ml). Hybridisation using new ExpressHybTM Hybridization Solution (Clontech) at 68°C overnight (10ml). Arrays were washed four times in 2X SSC, 1% SDS and once in 0.1X SSC, 0.5% SDS at 68°C for 30 min each. They were then exposed to phosphor-screens (Amersham) for 5 days.

scan_protocol: Scanner: STORM 760 from Molecular Dynamics - Raw data set : Feature extraction with Imagene 5.5 software from BioDiscovery (Proteigene)

data_processing: Intensity = Signal Mean - Normalization = Signal mean were log2 transformed and normalized by the mean of all the intensities on the array.

organism: Bos taurus

source_name: D18 IA embryos, bXMC, microdissected

label_protocol: aRNA was retro-transcribed and directly labelled with [alpha-33P]dATP as described (Degrelle et al., 2008). 500ng of aRNA was mixed with 500ng of random hexamers in a volume of 25µl. The mixture was incubated at 70°C for 10 min and chilled on ice. cDNA was synthesised by the addition of 5µl 10X PCR buffer, 5µl 25mM MgCl2, 5 µl 0,1 mM DTT, 2,5µl 10mM mix dGTP, dCTP and dTTP, 2,5µl water, 50 µCi [alpha-33P]dATP and 200U Superscript II (Invitrogen) at 42°C for 50min. The RNA template was removed by the addition of 1µl RNAse H- and incubation at 37°C for 20 min. Labelled targets were then purified on Sephadex columns (G-50).

extract_protocol: Total RNA was extracted using the RNeasy Mini Kit (Qiagen) according to the manufacturer's protocol. IVT amplified RNA from each sample was synthesized with the MessageAmpTM aRNA Kit (Ambion) according to Degrelle et al., 2008 (RT on 1µg total RNA, IVT during 10h). aRNA was purified on Mini Quick Spin RNA columns (Roche Diagnostic).

value: D18 IA embryos

tag: origin

value: microdissected

value: bXMC


title: BALB/cA FAE_rep.2

city: New York

first: Gaku

last: Nakato

state: NY

address: 701W 168th street HHMC

department: Microbiology & Immunology

institute: Columbia University Medical Center

description:
Mouse miRNA Microarray Release 12.0, 8x15K Catalog # G4471A-021828
microRNA expression

hyb_protocol: Use 100 ng of total RNA to labeling by Agilent miRNA Complete Labeling Reagent and Hyb Kit (Agilent) according to the manufacturer’s instructions. The labeled miRNAs were hybridized with a probe array for 20 hours at 55ºC.

scan_protocol: Slides were scanned after washing on the Agilent Scanner (G2505B)

data_processing:
Agilent Feature Extraction Software.  Data analysis was further performed with Genespring software version 11.0  (Agilent Technologies).
Expression data were considered significant when they differed by at least two-fold between FAE and VE.

source_name: Murine Follicle-associated epithelium

label_protocol: Agilent miRNA Microarray System Protocol

extract_protocol: Total RNA Extraction from intestinal epithelium using mirVana.

treatment_protocol: Peyer’s patch was dissected from the small intestine and soaked in Hank's Balanced Salt Solution (HBSS) (GIBCO). The tissue was treated with 30 mM EDTA in HBSS for 20min at room temperature to collect murin FAE and VE. Murine FAE and IFE were collected with a fine 29G needle under stereomicroscope.

value: Female

tag: age

value: 10 weeks

tag: organism part

value: Peyer's patch

value: Follicle associated epithelium

tag: strain

value: BALB/cA

tag: microbial condition

value: SPF


title: microdissected_bXEC_1

source_name: D18 IA embryos, bXEC, microdissected

value: bXEC


title: U87 tumor sphere DMSO

description: total RNA

tag: cell line


title: MED_ID00877_1_SHH_AMBION

description: Reanalysis of GSM1214932

value: brain tumor

value: sonic hedgehog group medulloblastoma


title: BALB/cA VE_rep.2

source_name: Murine Villous epithelium

value: Villous epithelium


title: 7990895016_R05C02

description:
sample
genomic DNA from peripheral blood

value: blood

value: F


title: Pericarps of Black and Red mixed rice stages at 14 days after heading

city: Tsukuba

first: Takeshi

last: Izawa

state: Ibaraki

address: 2-1-2 Kannondai

country: Japan

institute: National Institute of Agrobiological Sciences

description: Black and Red Mix 14d

hyb_protocol: 825 ng of cRNAs were hybridized using Agilent's Gene Expression Hybridization Kit following the manufacturer's instructions at NIAS RGRC Laboratory.

scan_protocol: This slides were scanned in Agilent Microarray Scanner G2505C

data_processing:
The scanned images were quantified using Agilent's Feature Extraction Software (version 10.5.1.1)
The signal values were defined after background correction, mutiplicative detrending and dye normalization. Each expression data was subjected to 75 percentile normalization.

organism: Oryza sativa

source_name: Koshihikari_14 days after heading_pericarps

label_protocol: 400 ng of total RNAs were reverse-transcribed and labelled using Agilent's Quick Amp Labeling Kit following the manufacturer's instructions. Labelled cRNAs were purified with the Qiagen RNeasy Mini Kit.

growth_protocol: The rice plants were grown at growth chamber.

extract_protocol: Total RNAs were extracted using Qiagen RNeasy Mini Kit following manufacturer's instructions.

treatment_protocol: No paticular treatment.

tag: background

value: Koshihikari

tag: developmental stage

value: 14 days after heading

value: pericarps

source_name: Black rice NIL/Red rice NIL F1_14 days after heading_pericarps

tag: variety

value: Black rice NIL/Red rice NIL F1


title: MEN_ID00711_1

value: tumor

tag: disease state

value: meningioma


title: ACP_ID01000_1_AMBION

value: adamantinomatous craniopharyngioma


title: Pericarps of Red and Black mixed rice stages at 7 days after heading

description: Red and Black Mix 7d

source_name: Koshihikari_7 days after heading_pericarps

value: 7 days after heading

source_name: Red rice NIL/Black rice NIL F1_7 days after heading_pericarps

value: Red rice NIL/Black rice NIL F1


title: U87 parental

description: total RNA

label: normal culture

value: tumor cells


title: ACP_ID00883_2_AMBION


title: cultured_bXMC_3

source_name: D18 IA embryos, bXMC, cultured

value: D18 IA embryos

value: cultured

value: bXMC


title: ACP_ID00956_1_AMBION

value: brain tumor


title: Energy starved quiescence 4

city: Philadelphia

description: technical replicate of biological replicate of treated sample

value: 24h energy starvation sample using DNP/2DG inhibitor combination

value: Coriell AG 10803


title: GBM_ID00057_1

description: Reanalysis of GSM1214882

value: pediatric high grade glioma


title: Pericarps of Rc/Rd rice stages at 14 days after heading

description: Red rice NIL 14d

value: Koshihikari

source_name: Red rice NIL_14 days after heading_pericarps

value: Red rice NIL


title: BALB/cA VE_rep.1

value: Female

value: 10 weeks

value: Peyer's patch

value: Villous epithelium

value: BALB/cA

value: SPF


title: microdissected_bTC_1

source_name: D18 IA embryos, bTC, microdissected

value: microdissected

value: bTC


title: ACP_ID00463_2_AMBION

value: adamantinomatous craniopharyngioma


title: cultured_bXEC_1

source_name: D18 IA embryos, bXEC, cultured

value: D18 IA embryos

value: cultured

value: bXEC


title: ACP_ID00646_1_AMBION

value: brain tumor


title: Pericarps of Black and Red mixed rice stages at 7 days after heading

description: Black and Red Mix 7d

value: 7 days after heading

value: pericarps

source_name: Black rice NIL/Red rice NIL F1_7 days after heading_pericarps

value: Black rice NIL/Red rice NIL F1


title: ACP_ID00598_1_AMBION


title: cultured_bTC_3

source_name: D18 IA embryos, bTC, cultured


title: ACP_ID00802_1_AMBION


title: cultured_bXMC_2

value: bXMC


title: Pericarps of Black rice NIL stages at 14 days after heading

description: Black rice NIL 14d

value: Koshihikari

value: 14 days after heading

source_name: Black rice NIL_14 days after heading_pericarps

value: Black rice NIL


title: cultured_bXMC_1


title: ACP_ID00740_1_AMBION


title: cultured_bXEC_2


title: ACP_ID00673_2_AMBION


title: cultured_bXEC_3


title: Pericarps of Rc/Rd rice stages at 7 days after heading

description: Red rice NIL 7d

source_name: Red rice NIL_7 days after heading_pericarps

value: Red rice NIL


title: Pericarps of ABB type NIL stages at 7 days after heading

description: ABB type NIL 7d

source_name: ABB type NIL_7 days after heading_pericarps

value: ABB type NIL


title: Pericarps of Rc/rd rice  stages at 7 days after heading

description: R1284 7d

source_name: Tokei 1284_7 days after heading_pericarps

value: Tokei 1284


title: Pericarps of Rc/rd rice stages at 14 days after heading

description: R1284 14d

source_name: Tokei 1284_14 days after heading_pericarps


title: Pericarps of ABB type NIL stages at 14 days after heading

description: ABB type NIL 14d

source_name: ABB type NIL_14 days after heading_pericarps


title: cultured_bTC_1


title: ACP_ID00411_2_AMBION

source_name: brain tumor, adamantinomatous craniopharyngioma


title: dissected_bD18ED_2

source_name: D18 IA embryos, bD18ED, dissected

value: dissected


title: Pericarps of Black rice NIL stages at 7 days after heading

description: Black rice NIL 7d

source_name: Black rice NIL_7 days after heading_pericarps


title: dissected_bD18ED_1


title: ACP_CB00002_AMBION


title: Pericarps of BAB type NIL stages at 14 days after heading

description: BAB type NIL 14d

source_name: Koshihikari_14 days after heading_pericarps

source_name: BAB type NIL_14 days after heading_pericarps

value: BAB type NIL


title: cultured_bTC_2

value: bTC


title: ACP_CB00001_AMBION

value: adamantinomatous craniopharyngioma


title: Pericarps of Red and Black mixed rice stages at 14 days after heading

description: Red and Black Mix 14d

source_name: Red rice NIL/Black rice NIL F1_14 days after heading_pericarps

value: Red rice NIL/Black rice NIL F1


title: ACP_AB00009_1_AMBION


title: Pericarps of BBA type NIL stages at 14 days after heading

description: BBA type NIL 14d

source_name: BBA type NIL_14 days after heading_pericarps

value: BBA type NIL


title: ACP_ID00980_1_AMBION

value: brain tumor