title: CHC301T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

value: B

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: apob status

tag: apob mutation

tag: atm status


title: L7CN47_C2

status: Public on Apr 05 2019

type: SRA

city: Cambridge

first: Sanja

last: Vickovic

address: 415 Main Street

country: USA

institute: Broad Institute of MIT and Harvard

library_source: transcriptomic

data_processing:
ST Pipeline v0.8.5
Image alignment in ImageJ
ST aligner v0.1
ST Annotator v0.2
Genome_build: GRCm38.v79
Supplementary_files_format_and_content: counts: tab-delimited text files include raw UMI filtered counts for each ST spot; processed using ST Pipeline v0.8.5
Tissue jpg image: Aligned and processed HE stainesd image in a coordinate system; colnames in the counts files; processed using ST aligner v0.1
Annotation file: columns for the counts file are associate with an anatomical region tab used ST Annotator v0.2
Barcode file: Barcode file needed for spatial demultiplexing of each sample; used in ST Pipeline v0.8.5. Column1 corresponds to the first 18 bp in the R1.fastq.gz; Column2 corresponds to x and Columns3 to y in a (x.y) Cartesian system on an ST array. In processed files 1, 2 and 4 the x_y values can be rouned and will correspond to Columns 2 and 3 (x,y) in the respective barcode files.

molecule: polyA RNA

organism: Mus musculus

source_name: RNA-Seq of Mus musculus: p120 male spinal cord

extract_protocol:
Spatial Transcriptomics
RNA libraries were prepared for sequencing using standard Illumina protocols

tag: tissue

value: spinal cord

tag: mouse id

tag: genotype

tag: age

tag: Sex

value: male


title: L7CN44_C2


title: L7CN44_C1


title: CHC2858T

type: RNA

city: Paris

first: Sandrine

last: Imbeaud

address: 15 rue de l'Ecole de Médecine

department: INSERM UMRS1138-EQUIPE 28, Sorbonne Université-Inserm-Université de Paris

country: France

institute: Centre de Recherche des Cordeliers

description:
MUTHEC
test

data_processing: Expression level (Ct values) was assessed using the Fluidigm Real-Time PCR Analysis software (4.1.3). Gene expression data were expressed using the 2-DDCt method relative to ribosomal 18S (R18S) and the expression level of the corresponding gene in normal liver samples. Final results were reported in 2- delta delta CT representing fold change compared to normal livers

label: taqman assay

molecule: total RNA

organism: Homo sapiens

source_name: liver tumor

label_protocol: We performed reverse transcription of 500 ng of total RNA using the High-Capacity Transcription Kit (Life Technologies) and assess gene expression using TaqMan predesigned assays (Life Technologies) on Fluidigm 96 dynamic arrays with the Bio-Mark Real-Time PCR system.

extract_protocol: Total RNA from frozen surgical samples was extracted using Maxwell 16 LEV simplyRNA Tissue kit (Promega, cat#AS1280) and from frozen biopsies using AllPrep DNA/RNA/miRNA Universal Kit (QIAGEN, cat #80224) according to the manufacturer’s instructions. DNAs were quantified using a Qubit 2.0 fluorometer (Qubit dsDNA BR assay kit, LifeTechnologies – ThermoFisher Scientifics) and quality was assessed as previously described. RNA was quantified using a spectrophotometer at 260nm (Nanodrop) and quality of RNA was controlled by Qiaxcell gel electrophoresis (Qiagen).

tag: gender

value: M

tag: diagnosis

value: HCC

tag: type

value: TRANSPLANT

value: no

tag: alcohol

value: yes

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

value: NM

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: kras mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

value: Splice_Site p.QNA278del


title: L7CN44_D1

tag: tissue

tag: mouse id

tag: genotype

tag: age

tag: Sex


title: CHC2816T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: apob status

tag: apob mutation

tag: atm status

tag: atm mutation

tag: cdkn1a status


title: L7CN41_E2

tag: tissue

tag: mouse id

tag: genotype

tag: age

tag: Sex


title: CHC2790T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

value: RESECTION

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: kras mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation


title: CHC307T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

value: A

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: irf2 mutation

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: apob status

tag: apob mutation

tag: atm status


title: CHC2788T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: kras mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: atm mutation


title: CHC2789T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: irf2 mutation

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: apob status

tag: apob mutation

tag: atm status


title: L7CN45_E2

source_name: RNA-Seq of Mus musculus: p100 female spinal cord

tag: tissue

tag: mouse id

tag: genotype

tag: age

tag: Sex

value: female


title: L7CN41_E1


title: L7CN41_D1


title: CHC2865T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: kras mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation


title: SuRE45, library2

city: Amsterdam

first: Bas

last: van Steensel

address: Plesmanlaan 121

department: division of Molecular Biology

country: Netherlands

institute: Netherlands Cancer Institute

description:
SuRE_45_L2
Processed data files:
SuRE45_2-counts_chr1.txt.gz
SuRE45_2-counts_chr2.txt.gz
SuRE45_2-counts_chr3.txt.gz
SuRE45_2-counts_chr4.txt.gz
SuRE45_2-counts_chr5.txt.gz
SuRE45_2-counts_chr6.txt.gz
SuRE45_2-counts_chr7.txt.gz
SuRE45_2-counts_chr8.txt.gz
SuRE45_2-counts_chr9.txt.gz
SuRE45_2-counts_chr10.txt.gz
SuRE45_2-counts_chr11.txt.gz
SuRE45_2-counts_chr12.txt.gz
SuRE45_2-counts_chr13.txt.gz
SuRE45_2-counts_chr14.txt.gz
SuRE45_2-counts_chr15.txt.gz
SuRE45_2-counts_chr16.txt.gz
SuRE45_2-counts_chr17.txt.gz
SuRE45_2-counts_chr18.txt.gz
SuRE45_2-counts_chr19.txt.gz
SuRE45_2-counts_chr20.txt.gz
SuRE45_2-counts_chr21.txt.gz
SuRE45_2-counts_chr22.txt.gz
SuRE45_2-counts_chrX.txt.gz

library_source: genomic

data_processing:
Basecalling and filtering were performed using standard software of the Illumina HiSeq 2500 or Illumina HiSeq-X10.
For polyA-RNA samples, the barcode sequence was extracted from the read (using cutadapt and custom scripts) and counted.
For gDNA samples, the barcode and the gDNA was extracted from the paired-end reads (using cutadapt and custom scripts). gDNA was then aligned to the reference genome (using bowtie2). Barcodes were then associated with genomic regions.
For each region identified in the gDNA data a normalized SuRE expression value was calculated as the ratio of the total readcount in the RNA samples and the total readcount in the gdNA library samples.
Each region was annotated with SNP locations and base identities extract from the corresponding reads.
Genome_build: hg19 (GRCh37)
Supplementary_files_format_and_content: Bigwig files contain normalized SuRE expression tracks. Tabular txt files contain location, SNP annotation of all detected library element plus associated counts in gDNA library samples and RNA samples. All processed data files were generated using custom scripts and std. tools.

molecule: genomic DNA

source_name: cell line; HG03464

growth_protocol: K562 (ATCC® CCL-243™) and HepG2 (#HB 8065; ATCC) were cultured according to supplier's protocol.

extract_protocol:
To find out which barcodes were associated with which genomic fragments, we digested 4 µg SuRE library with I-CeuI (#R0699S; NEB), followed by magnetic bead purification (1:1 ratio beads:DNA solution). Of this, 2 µg was self-ligated overnight at 16 °C in a total volume of 2 ml (#10799009001 Roche), and purified using phenol-chloroform extraction and isopropanol precipitation. This material was treated with 25 units of Plasmid-Safe™ ATP-Dependent DNase for 1 hour and purified again with phenol-chloroform and isopropanol precipitation. To facilitate PCR, the resulting mini-circles were linearized by digesting with I-SceI (#R0694S; NEB) in a volume of 25 µl. Finally, 8 cycles of PCR (1¢ at 98°C, 10x (15¢ at 98°,15¢ at 60°, 20¢ at 72°)) with KAPA high-fidelity DNA Polymerase (#KE2502; KAPA biosystems) were performed on 1/10th of the I-SceI digested material using primers 151AR (containing the S1 and p5 adapter) and (index variants of) 117JvA (containing the S2, index and p7 adapter). The PCR product was bead purified and subjected to high-throughput paired-end sequencing on the Illumina HiseqX10 platform.
PolyA RNA was divided into 10 µl reactions containing 500 ng RNA and DNase treated with 10 units for 30 minutes (#04716728001; Roche) and DNAse was inactivated by addition of 1µl of 25mM EDTA and incubation at 70ºC for 10 minutes. Next, cDNA was produced by first adding 1 µl of 10 mM gene specific primer targeting the GFP ORF (247JvA) and 1 µl dNTP (10mM each) and incubating for 5 minutes at 65°C. Then 4 µl of RT buffer, 20 units RNAse inhibitor (#EO0381; ThermoFisher Scientific), 200 units of Maxima reverse transcriptase (#EP0743; ThermoFisher Scientific) and 2.5 µl water was added and the reaction was incubated for 30 minutes at 50°C followed by heat-inactivation at 85° for 5 minutes. Per biological replicate, 20-30 reactions were done in parallel. Each 20 µl reaction was then PCR amplified (1’ 96 °C, 20x (15’’ 96 °C, 15’’ 60 °C, 15’’ 72 °C)) in a 100 µl reaction with MyTaq™ Red Mix and primers 151AR (containing the S1 and p5 adapter) and (index variants of) 211JvA (containing the S2, index and p7 adapter) for 21 cycles. Reactions were then pooled and 500 µl was purified using CleanPCR beads (#CPCR-0050; GC biotech) and subjected to single read 50 bp high throughput sequencing on an Illumina HiSeq2500.

treatment_protocol: For K562, 3 biological replicates (i.e. transfection replicates) were done for each of the 8 SuRE libraries separately, with 100 million cells and harvested after 24 hours. Cells were transiently transfected per 5 million using 10ug of plasmid and using Amaxa Nucleofector II, program T-016 and nucleofection buffer as published previously (Hendel, A. et al., Cell Rep 7, 293-305, 2014). HepG2 were transfected in the same manner as K562 cells except that 2 biological replicates were done, program T-028 was used for nucleofection, 7.5 µg plasmid was used for each 5 million cells, and cells were harvested 48 hours after transfection. One hundred million cells were transfected for each replicate.

tag: library source cell line


title: L7CN41_C2

tag: tissue

tag: mouse id

tag: genotype

tag: age

tag: Sex


title: CHC2771T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: apob status

tag: apob mutation

tag: atm status


title: CHC2786T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: kras mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation


title: CHC2772T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: apob status

tag: apob mutation

tag: atm status

tag: atm mutation

tag: cdkn1a status


title: CHC2770T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: kras mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation


title: SuRE45, library1

description:
SuRE_45_L1
Processed data files:
SuRE45_1-counts_chr1.txt.gz
SuRE45_1-counts_chr2.txt.gz
SuRE45_1-counts_chr3.txt.gz
SuRE45_1-counts_chr4.txt.gz
SuRE45_1-counts_chr5.txt.gz
SuRE45_1-counts_chr6.txt.gz
SuRE45_1-counts_chr7.txt.gz
SuRE45_1-counts_chr8.txt.gz
SuRE45_1-counts_chr9.txt.gz
SuRE45_1-counts_chr10.txt.gz
SuRE45_1-counts_chr11.txt.gz
SuRE45_1-counts_chr12.txt.gz
SuRE45_1-counts_chr13.txt.gz
SuRE45_1-counts_chr14.txt.gz
SuRE45_1-counts_chr15.txt.gz
SuRE45_1-counts_chr16.txt.gz
SuRE45_1-counts_chr17.txt.gz
SuRE45_1-counts_chr18.txt.gz
SuRE45_1-counts_chr19.txt.gz
SuRE45_1-counts_chr20.txt.gz
SuRE45_1-counts_chr21.txt.gz
SuRE45_1-counts_chr22.txt.gz
SuRE45_1-counts_chrX.txt.gz

tag: library source cell line


title: L7CN41_C1

tag: tissue

tag: mouse id

tag: genotype

tag: age

tag: Sex


title: L7CN40_E2


title: SuRE43, library2

description:
SuRE_43_L2
Processed data files:
SuRE43_2-counts_chr1.txt.gz
SuRE43_2-counts_chr2.txt.gz
SuRE43_2-counts_chr3.txt.gz
SuRE43_2-counts_chr4.txt.gz
SuRE43_2-counts_chr5.txt.gz
SuRE43_2-counts_chr6.txt.gz
SuRE43_2-counts_chr7.txt.gz
SuRE43_2-counts_chr8.txt.gz
SuRE43_2-counts_chr9.txt.gz
SuRE43_2-counts_chr10.txt.gz
SuRE43_2-counts_chr11.txt.gz
SuRE43_2-counts_chr12.txt.gz
SuRE43_2-counts_chr13.txt.gz
SuRE43_2-counts_chr14.txt.gz
SuRE43_2-counts_chr15.txt.gz
SuRE43_2-counts_chr16.txt.gz
SuRE43_2-counts_chr17.txt.gz
SuRE43_2-counts_chr18.txt.gz
SuRE43_2-counts_chr19.txt.gz
SuRE43_2-counts_chr20.txt.gz
SuRE43_2-counts_chr21.txt.gz
SuRE43_2-counts_chr22.txt.gz
SuRE43_2-counts_chrX.txt.gz

source_name: cell line; GM18983


title: CHC2766T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: apob status

tag: apob mutation

tag: atm status

tag: atm mutation

tag: cdkn1a status


title: L7CN40_E1

tag: tissue

tag: mouse id

tag: genotype

tag: age

tag: Sex


title: SuRE44, library1

description:
SuRE_44_L1
Processed data files:
SuRE44_1-counts_chr1.txt.gz
SuRE44_1-counts_chr2.txt.gz
SuRE44_1-counts_chr3.txt.gz
SuRE44_1-counts_chr4.txt.gz
SuRE44_1-counts_chr5.txt.gz
SuRE44_1-counts_chr6.txt.gz
SuRE44_1-counts_chr7.txt.gz
SuRE44_1-counts_chr8.txt.gz
SuRE44_1-counts_chr9.txt.gz
SuRE44_1-counts_chr10.txt.gz
SuRE44_1-counts_chr11.txt.gz
SuRE44_1-counts_chr12.txt.gz
SuRE44_1-counts_chr13.txt.gz
SuRE44_1-counts_chr14.txt.gz
SuRE44_1-counts_chr15.txt.gz
SuRE44_1-counts_chr16.txt.gz
SuRE44_1-counts_chr17.txt.gz
SuRE44_1-counts_chr18.txt.gz
SuRE44_1-counts_chr19.txt.gz
SuRE44_1-counts_chr20.txt.gz
SuRE44_1-counts_chr21.txt.gz
SuRE44_1-counts_chr22.txt.gz
SuRE44_1-counts_chrX.txt.gz

source_name: cell line; HG01241

tag: library source cell line


title: L7CN40_D2


title: SuRE43, library1

description:
SuRE_43_L1
Processed data files:
SuRE43_1-counts_chr1.txt.gz
SuRE43_1-counts_chr2.txt.gz
SuRE43_1-counts_chr3.txt.gz
SuRE43_1-counts_chr4.txt.gz
SuRE43_1-counts_chr5.txt.gz
SuRE43_1-counts_chr6.txt.gz
SuRE43_1-counts_chr7.txt.gz
SuRE43_1-counts_chr8.txt.gz
SuRE43_1-counts_chr9.txt.gz
SuRE43_1-counts_chr10.txt.gz
SuRE43_1-counts_chr11.txt.gz
SuRE43_1-counts_chr12.txt.gz
SuRE43_1-counts_chr13.txt.gz
SuRE43_1-counts_chr14.txt.gz
SuRE43_1-counts_chr15.txt.gz
SuRE43_1-counts_chr16.txt.gz
SuRE43_1-counts_chr17.txt.gz
SuRE43_1-counts_chr18.txt.gz
SuRE43_1-counts_chr19.txt.gz
SuRE43_1-counts_chr20.txt.gz
SuRE43_1-counts_chr21.txt.gz
SuRE43_1-counts_chr22.txt.gz
SuRE43_1-counts_chrX.txt.gz


title: SuRE44, library2

description:
SuRE_44_L2
Processed data files:
SuRE44_2-counts_chr1.txt.gz
SuRE44_2-counts_chr2.txt.gz
SuRE44_2-counts_chr3.txt.gz
SuRE44_2-counts_chr4.txt.gz
SuRE44_2-counts_chr5.txt.gz
SuRE44_2-counts_chr6.txt.gz
SuRE44_2-counts_chr7.txt.gz
SuRE44_2-counts_chr8.txt.gz
SuRE44_2-counts_chr9.txt.gz
SuRE44_2-counts_chr10.txt.gz
SuRE44_2-counts_chr11.txt.gz
SuRE44_2-counts_chr12.txt.gz
SuRE44_2-counts_chr13.txt.gz
SuRE44_2-counts_chr14.txt.gz
SuRE44_2-counts_chr15.txt.gz
SuRE44_2-counts_chr16.txt.gz
SuRE44_2-counts_chr17.txt.gz
SuRE44_2-counts_chr18.txt.gz
SuRE44_2-counts_chr19.txt.gz
SuRE44_2-counts_chr20.txt.gz
SuRE44_2-counts_chr21.txt.gz
SuRE44_2-counts_chr22.txt.gz
SuRE44_2-counts_chrX.txt.gz


title: CHC2756T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: jak1 status

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: kras mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation


title: CHC2757T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: apob status

tag: apob mutation

tag: atm status

tag: atm mutation


title: CHC2754T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: jak1 status

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: kras mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation


title: CHC2755T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

value: Splice_Site g.chr17:7578177C>T

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: apob status

tag: apob mutation

tag: atm status


title: SuRE42, library2

description:
SuRE_42_L2
Processed data files:
SuRE42_2-counts_chr1.txt.gz
SuRE42_2-counts_chr2.txt.gz
SuRE42_2-counts_chr3.txt.gz
SuRE42_2-counts_chr4.txt.gz
SuRE42_2-counts_chr5.txt.gz
SuRE42_2-counts_chr6.txt.gz
SuRE42_2-counts_chr7.txt.gz
SuRE42_2-counts_chr8.txt.gz
SuRE42_2-counts_chr9.txt.gz
SuRE42_2-counts_chr10.txt.gz
SuRE42_2-counts_chr11.txt.gz
SuRE42_2-counts_chr12.txt.gz
SuRE42_2-counts_chr13.txt.gz
SuRE42_2-counts_chr14.txt.gz
SuRE42_2-counts_chr15.txt.gz
SuRE42_2-counts_chr16.txt.gz
SuRE42_2-counts_chr17.txt.gz
SuRE42_2-counts_chr18.txt.gz
SuRE42_2-counts_chr19.txt.gz
SuRE42_2-counts_chr20.txt.gz
SuRE42_2-counts_chr21.txt.gz
SuRE42_2-counts_chr22.txt.gz
SuRE42_2-counts_chrX.txt.gz

source_name: cell line; HG02601

tag: library source cell line


title: L7CN41_D2

tag: tissue

tag: mouse id

tag: genotype

tag: age

tag: Sex


title: CHC2761T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: jak1 status

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: kras mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: atm mutation

tag: cdkn1a status

tag: cdkn1a mutation

tag: map1b status

tag: map1b mutation

tag: mll2 status

tag: mll2 mutation

tag: setd2 status

tag: setd2 mutation

tag: tsc1 status

tag: tsc1 mutation

tag: tsc2 status

tag: tsc2 mutation


title: L7CN40_D1

tag: tissue

tag: mouse id

tag: genotype

tag: age

tag: Sex


title: CHC2752T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: kras mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status


title: CHC2750T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: atm mutation

tag: cdkn1a status


title: SuRE42, library1

description:
SuRE_42_L1
Processed data files:
SuRE42_1-counts_chr1.txt.gz
SuRE42_1-counts_chr2.txt.gz
SuRE42_1-counts_chr3.txt.gz
SuRE42_1-counts_chr4.txt.gz
SuRE42_1-counts_chr5.txt.gz
SuRE42_1-counts_chr6.txt.gz
SuRE42_1-counts_chr7.txt.gz
SuRE42_1-counts_chr8.txt.gz
SuRE42_1-counts_chr9.txt.gz
SuRE42_1-counts_chr10.txt.gz
SuRE42_1-counts_chr11.txt.gz
SuRE42_1-counts_chr12.txt.gz
SuRE42_1-counts_chr13.txt.gz
SuRE42_1-counts_chr14.txt.gz
SuRE42_1-counts_chr15.txt.gz
SuRE42_1-counts_chr16.txt.gz
SuRE42_1-counts_chr17.txt.gz
SuRE42_1-counts_chr18.txt.gz
SuRE42_1-counts_chr19.txt.gz
SuRE42_1-counts_chr20.txt.gz
SuRE42_1-counts_chr21.txt.gz
SuRE42_1-counts_chr22.txt.gz
SuRE42_1-counts_chrX.txt.gz

tag: library source cell line


title: CHC2787T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

value: C

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: kras mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status


title: CHC2747T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

value: c.-124C>T + Missense_Q183R

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: atm mutation

tag: cdkn1a status

tag: cdkn1a mutation


title: CHC2748T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: kras mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status


title: CHC2742T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: jak1 status

tag: jak1 mutation

tag: gnas status


title: CHC2743T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

value: Splice_Site g.chr17:7579312C>A

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: kras mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status


title: CHC2741T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: atm mutation


title: L7CN40_C1

tag: tissue

tag: mouse id

tag: genotype

tag: age

tag: Sex


title: CHC2753T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: kras mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status


title: 12.3_ruminococcus+duloxetine

city: Sefad

first: Evan

last: Elliott

state: - Select a State -

address: Henrieta Sold 8

country: Israel

institute: Bar Ilan University

data_processing:
Mapping to genome performed by Tophat2 version 2.1.0 (used Bowtie2 version 2.2.6)
Gene counting by HTsq-count version 0.6.1
Normalization and differential expression analysis by DEseq2 R package version 1.18.1
Genome_build: mm9
Supplementary_files_format_and_content: spreadsheet with normalized read count for each gene in each biological sample

extract_protocol:
frontal cortex was removed from mice brains using 13 gauge needle of 2mm slices in area of frontal cortex.
RNA libraries were prepared for sequencing using standard Illumina protocols

treatment_protocol: Mice were treated with duloxetine by daily i.p. treatment. Mice were treated with Ruminococcus Flavefaciens by gavage twice a week

tag: strain

value: BALB/C

tag: age

value: postnatal week 11

tag: tissue

value: prefrontal cortex


title: L7CN37_E1

source_name: RNA-Seq of Mus musculus: p120 female spinal cord

value: spinal cord

tag: mouse id

tag: genotype

tag: Sex


title: L7CN37_E2


title: CHC2739T

description:
MUTHEC
test

tag: gender

value: M

tag: diagnosis

value: HCC

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status


title: L7CN37_D2

tag: tissue

tag: mouse id

tag: genotype

tag: age

tag: Sex


title: CHC2736T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

value: no

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: kras mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status


title: 12.2_ruminococcus+duloxetine

tag: strain

tag: age

tag: tissue


title: CHC2727T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

tag: alcohol

value: yes

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: irf2 status

tag: irf2 mutation

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status


title: CHC2733T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

value: NM

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: kras mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status


title: L7CN37_D1

tag: tissue

tag: mouse id

tag: genotype

tag: age

tag: Sex


title: 11.4_ruminococcus+duloxetine

tag: strain


title: L7CN40_C2

value: male


title: CHC2722T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

value: RESECTION

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: atm mutation

tag: cdkn1a status


title: CHC2726T

description:
MUTHEC
test

tag: gender

value: F

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: kras mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status


title: L7CN37_C2

tag: tissue

tag: mouse id

tag: genotype

tag: age

tag: Sex

value: female


title: CHC2720T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: atm mutation

tag: cdkn1a status

tag: cdkn1a mutation

tag: map1b status


title: CHC2724T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

value: A

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: kras mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status


title: 10.2_ruminococcus+duloxetine

tag: strain

tag: age

tag: tissue


title: 9.3_ruminococcus

source_name: prefrontal cortex_ruminococcus


title: L7CN36_E2

tag: mouse id

tag: genotype

tag: Sex


title: CHC2721T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: atm mutation


title: CHC2716T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: kras mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status


title: 12.4_ruminococcus+duloxetine

tag: strain

tag: age

tag: tissue


title: CHC2715T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: atm mutation


title: L7CN36_E1

tag: tissue

tag: mouse id

tag: genotype

tag: age

tag: Sex


title: CHC2714T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: kras mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status


title: CHC2719T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

value: Splice_Site g.chr17:7590693A>C

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: irf2 mutation

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status


title: CHC2728T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: kras mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status

tag: atm mutation

tag: cdkn1a status


title: CHC2712T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

value: Splice_Site g.chr19:10602939C>T

tag: irf2 mutation

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: cdkn1a mutation

tag: map1b status


title: 11.3_ruminococcus+duloxetine

tag: strain

tag: age

tag: tissue


title: L7CN36_D2

tag: mouse id

tag: genotype

tag: Sex


title: 9.2_ruminococcus


title: CHC2708T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

value: TRANSPLANT

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: jak1 status

tag: kras mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status

tag: atm mutation

tag: cdkn1a status


title: CHC2532T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

value: B

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status


title: L7CN36_D1

tag: tissue

tag: mouse id

tag: genotype

tag: age

tag: Sex


title: CHC253T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

value: C

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: jak1 status

tag: kras mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status


title: CHC254T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: atm mutation

tag: cdkn1a status

tag: cdkn1a mutation

tag: map1b status

tag: map1b mutation

tag: mll2 status


title: L7CN36_C1

tag: tissue

tag: mouse id

tag: genotype

tag: age

tag: Sex


title: 8.4_ruminococcus

tag: strain

value: BALB/C

value: postnatal week 11

value: prefrontal cortex


title: CHC258T

description:
MUTHEC
test

tag: gender

value: M

tag: diagnosis

value: HCC

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: kras mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status


title: CHC2530T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

value: no

tag: alcohol

tag: hemochromatosis

value: yes

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status


title: L7CN36_C2

tag: tissue

value: spinal cord

tag: mouse id

tag: genotype

tag: age

tag: Sex


title: 8.3_ruminococcus

tag: strain


title: L7CN34_E2


title: 6.3_duloxetine

source_name: prefrontal cortex_duloxetine


title: CHC2529T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

value: NM

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: irf2 mutation

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: kras mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status


title: CHC2523T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: atm mutation


title: CHC2528T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: irf2 mutation

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: kras mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status


title: CHC2526T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status


title: 6.2_duloxetine

tag: strain

tag: age

tag: tissue


title: L7CN34_D2

tag: mouse id

tag: genotype

tag: Sex


title: L7CN34_E1


title: CHC2519T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: irf2 mutation

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: kras mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status


title: CHC2522T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status


title: CHC2518T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: irf2 mutation

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: kras mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status

tag: atm mutation


title: 9.1_ruminococcus

tag: strain

tag: age

tag: tissue


title: L7CN34_D1

tag: mouse id

tag: genotype

tag: Sex


title: 6.1_duloxetine


title: CHC2517T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: kras mutation


title: CHC2515T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status


title: 5.4_duloxetine

tag: strain

tag: age

tag: tissue


title: CHC2514T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: kras mutation


title: 7.2_ruminococcus

tag: strain

tag: age

tag: tissue


title: L7CN34_C2

tag: mouse id

tag: genotype

tag: Sex


title: L7CN34_C1


title: 5.1_duloxetine


title: 5.3_duloxetine


title: CHC2513T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status


title: CHC2511T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: kras mutation


title: CHC2508T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status


title: 3.1_no treatment

source_name: prefrontal cortex_no treatment

tag: strain

tag: age

tag: tissue


title: 3.3_no treatment


title: L7CN32_E1

source_name: RNA-Seq of Mus musculus: p70 male spinal cord

tag: mouse id

tag: genotype

tag: Sex

value: male


title: CHC2509T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: kras mutation


title: L7CN32_E2

tag: tissue

tag: mouse id

tag: genotype

tag: age

tag: Sex


title: CHC2505T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status


title: 2.3_no treatment

tag: strain

tag: age

tag: tissue


title: CHC2507T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: irf2 status

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: kras mutation

tag: atm mutation

tag: cdkn1a status

tag: cdkn1a mutation

tag: map1b status


title: CHC2499T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status


title: CHC2498T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: keap1 status

tag: irf2 status

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: kras mutation


title: L7CN32_D1

tag: tissue

tag: mouse id

tag: genotype

tag: age

tag: Sex


title: L7CN32_C2


title: CHC2504T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

value: Splice_Site g.chr19:10613915A>G

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status


title: CHC2497T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: irf2 status

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: kras mutation


title: CHC2496T

description:
MUTHEC
test

tag: gender

value: F

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status


title: 2.1_no treatment

tag: strain

tag: age

tag: tissue


title: CHC2495T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: irf2 status

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: kras mutation


title: L7CN32_C1

tag: tissue

tag: mouse id

tag: genotype

tag: age

tag: Sex


title: CHC2512T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status


title: CHC2494T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: irf2 status

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: kras mutation


title: 1.1_no treatment

tag: strain

tag: age

tag: tissue


title: L7CN32_D2

tag: mouse id

tag: genotype

tag: Sex


title: CHC2506T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status


title: CHC2488T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: kras mutation


title: CHC2491T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: nras status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status


title: L7CN30_E2

tag: tissue

tag: mouse id

tag: genotype

tag: age

tag: Sex


title: L7CN30_E1


title: Bcell_KO_smallLN_rep3

city: Neuherberg

first: Elke

last: Glasmacher

address: Ingolstädter Landstraße 1

country: Germany

institute: Helmholtz Zentrum München

data_processing:
For B cell samples, reads were mapped against the mouse genome mm9 (UCSC version mm9, NCBI37) using STAR. To quantify the number of reads mapping to annotated genes we used the featureCounts program from the subread package (v1.6.0)
For alveolar macrophage samples, reads were mapped against the mouse genome mm10 (GRCm38) using HISAT2. To quantify the number of reads mapping to annotated genes we used the featureCounts program from the subread package
Genome_build: alveolar cells: mm10,B cells: mm9
Supplementary_files_format_and_content: For B cell samples, reads were mapped against the mouse genome mm9 (UCSC version mm9, NCBI37) using STAR; For alveolar macrophage samples, reads were mapped against the mouse genome mm10 (GRCm38) using HISAT2

source_name: lymph node

extract_protocol:
alveolar cells were isolated using anti-CD11c positive selection with MicroBeads, directly lysed in buffer RLT Plus and RNA was isolated; For B cell isolation, CD19+ B cells were isolated from lymph nodes using anti-CD19 positive selection with MicroBeads. Cells were lysed directly in Trizol reagent and total RNA was isolated according to the manufacturers protocol
Library preparation and rRNA depletion was performed using the ‘TruSeq Stranded Total RNA Library Prep Kit’ (Illumina)

tag: cell type

value: CD19+ B cell

tag: lymph node status

value: small


title: 2.2_no treatment

tag: strain


title: Bcell_KO_smallLN_rep2


title: L7CN30_D2


title: Bcell_KO_smallLN_rep1


title: CHC2486T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

value: TRANSPLANT

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

value: A

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: kras mutation

tag: nras status


title: CHC2485T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status


title: CHC2487T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

value: B

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: kras mutation

tag: nras status


title: L7CN30_D1

tag: tissue

tag: mouse id

tag: genotype

tag: age

tag: Sex


title: CHC2484T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status

tag: atm mutation


title: Bcell_KO_enlargedLN_rep3

tag: genotype

tag: cell type

tag: lymph node status

value: enlarged


title: CHC2482T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: jak1 status

tag: jak1 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: kras mutation

tag: nras status


title: Bcell_KO_enlargedLN_rep2

tag: genotype

tag: cell type

tag: lymph node status


title: L7CN30_C2

tag: tissue

tag: mouse id

tag: age

tag: Sex


title: L7CN68_C2


title: L7CN30_C1


title: CHC2481T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: jak1 status

tag: jak1 mutation

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status


title: CHC2480T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: kras mutation

tag: nras status


title: CHC2479T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

value: C

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: jak1 status

tag: jak1 mutation

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status


title: CHC2478T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: kras mutation

tag: nras status


title: Bcell_WT_smallLN_rep2

tag: genotype

tag: cell type

tag: lymph node status


title: CHC2483T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: jak1 status

tag: jak1 mutation

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status


title: Bcell_KO_enlargedLN_rep1

tag: genotype

tag: cell type

tag: lymph node status


title: CHC2476T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: kras mutation

tag: nras status


title: Bcell_WT_smallLN_rep3

tag: genotype

tag: cell type

tag: lymph node status


title: CHC2477T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: jak1 status

tag: jak1 mutation

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status


title: L7CN69_E2

tag: tissue

tag: mouse id

tag: genotype

tag: age

tag: Sex


title: CHC2473T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: kras mutation

tag: nras status


title: CHC2475T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: irf2 mutation

tag: jak1 status

tag: jak1 mutation

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status


title: CHC2472T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: kras mutation

tag: nras status


title: CHC2471T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: irf2 mutation

tag: jak1 status

tag: jak1 mutation

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status


title: L7CN69_D2

tag: tissue

tag: mouse id

tag: genotype

tag: age

tag: Sex


title: Bcell_WT_smallLN_rep1

tag: cell type

tag: lymph node status


title: CHC2467T

description:
MUTHEC
test

tag: gender

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: jak1 status

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: kras mutation

tag: nras status


title: CHC2470T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: arid2 mutation

tag: il6st status

tag: il6st mutation

tag: rps6ka3 status

tag: rps6ka3 mutation

tag: nfe2l2 status

tag: nfe2l2 mutation

tag: jak1 mutation

tag: hras

tag: hnf1a status

tag: hnf1a mutation

tag: alb status

tag: alb mutation

tag: apob status

tag: apob mutation

tag: atm status


title: CHC2468T

description:
MUTHEC
test

tag: gender

tag: age

tag: diagnosis

tag: type

tag: alcohol

tag: hemochromatosis

tag: metavir fibrosis

tag: bclc

tag: serumalphafoeto (ui)

tag: tert status

tag: tert mutation

tag: ctnnb1 status

tag: ctnnb1 mutation

tag: tp53 status

tag: tp53 mutation

tag: arid1a status

tag: arid1a mutation

tag: axin1 status

tag: axin1 mutation

tag: cdkn2a status

tag: cdkn2a mutation

tag: arid2 status

tag: keap1 status

tag: keap1 mutation

tag: pik3ca status

tag: pik3ca mutation

tag: irf2 status

tag: irf2 mutation

tag: jak1 status

tag: gnas status

tag: gnas mutation

tag: braf status

tag: braf mutation

tag: stat3 status

tag: stat3 mutation

tag: kras status

tag: kras mutation

tag: nras status