Lymphoblastoid cell line networks

Data sets 1 Networks Aggregate 3

To get the full list of phenotypic variables, please check the menu below.

Tool description

PANDA reconstructs a gene regulatory network using TF PPI, TF DNA binding motif as regulation prior, and gene expression samples. PUMA reconstructs a gene regulatory network with miRNA as regulators using gene expression samples and miRNA predicted targets by miRanda or TargetScan as regulation priors. The Regulator-regulator interaction matrix is set to the identity matrix in the algorithm. Check the phenotypic information for the clinical variables of the samples that were used to reconstruct the network.

Variable description

This is a description of the primary clinical variables of the gene expression samples that were used to generate the gene regulatory network.

SampleSubjectGender
AgeDTH-HRDY
SMAT-SSCR
SMRIN
SMTS
SMUBRID
SMTSISCH
SMTSTPTREF
GTEX-1122O-0003-SM-5Q5DL GTEX-1122O 2 60-69 0 - 10 Blood EFO_0000572 1363 Actual Death
GTEX-11EM3-0001-SM-5Q5BD GTEX-11EM3 2 20-29 0 - 10 Blood EFO_0000572 1143 Actual Death
GTEX-11EMC-0002-SM-5Q5DO GTEX-11EMC 2 60-69 2 - 10 Blood EFO_0000572 635 Actual Death
GTEX-11EQ9-0002-SM-5QGQ1 GTEX-11EQ9 1 30-39 2 - 10 Blood EFO_0000572 -165 Actual Death
GTEX-11I78-0001-SM-5Q5BE GTEX-11I78 2 50-59 0 - 9.9 Blood EFO_0000572 -86 Actual Death
GTEX-11OC5-0004-SM-5S2O6 GTEX-11OC5 1 60-69 2 - 9.9 Blood EFO_0000572 1171 Actual Death
GTEX-11P7K-0003-SM-5S2OU GTEX-11P7K 1 30-39 0 - 10 Blood EFO_0000572 -101 Actual Death
GTEX-11TT1-0004-SM-5S2NT GTEX-11TT1 1 20-29 0 - 10 Blood EFO_0000572 -59 Actual Death
GTEX-11VI4-0001-SM-5S2OI GTEX-11VI4 2 40-49 0 - 10 Blood EFO_0000572 -106 Actual Death
GTEX-11ZTT-0002-SM-5S2PA GTEX-11ZTT 2 60-69 0 - 10 Blood EFO_0000572 -15 Actual Death
Showing 1 to 10 of 132 entries

Variable description

You can specify the sample network to download by phenotypic variable and you will get a TF-by-gene matrix named after the sample in Banovich et al.

Sample nameBiosamaple IDSexPop. codePop. nameSuperpop. codeSuperpop. namePop. IDData collectionsNetwork
NA18486 SAME124099 male YRI Yoruba AFR African Ancestry YRI 1000 Genomes on GRCh38,1000 Genomes 30x on GRCh38,1000 Genomes phase 3 release,1000 Genomes phase 1 release,Geuvadis
Adj118 MBVis
NA18487 SAME124098 male YRI Yoruba AFR African Ancestry YRI 1000 Genomes on GRCh38,1000 Genomes 30x on GRCh38,1000 Genomes phase 3 release,1000 Genomes phase 1 release,Geuvadis
Adj118 MBVis
NA18488 SAME124103 female YRI Yoruba AFR African Ancestry YRI 1000 Genomes on GRCh38,1000 Genomes 30x on GRCh38,1000 Genomes phase 3 release,1000 Genomes phase 1 release,Geuvadis
Adj118 MBVis
NA18489 SAME124102 female YRI Yoruba AFR African Ancestry YRI 1000 Genomes on GRCh38,1000 Genomes 30x on GRCh38,1000 Genomes phase 3 release,1000 Genomes phase 1 release,Geuvadis
Adj118 MBVis
NA18498 SAME124058 male YRI Yoruba AFR African Ancestry YRI 1000 Genomes on GRCh38,1000 Genomes 30x on GRCh38,1000 Genomes phase 3 release,1000 Genomes phase 1 release,Geuvadis
Adj118 MBVis
NA18499 SAME124059 female YRI Yoruba AFR African Ancestry YRI 1000 Genomes on GRCh38,1000 Genomes 30x on GRCh38,1000 Genomes phase 3 release,1000 Genomes phase 1 release,Geuvadis
Adj118 MBVis
NA18501 SAME124991 male YRI Yoruba AFR African Ancestry YRI 1000 Genomes on GRCh38,1000 Genomes 30x on GRCh38,1000 Genomes phase 3 release,1000 Genomes phase 1 release
Adj118 MBVis
NA18502 SAME125055 female YRI Yoruba AFR African Ancestry YRI 1000 Genomes on GRCh38,1000 Genomes 30x on GRCh38,1000 Genomes phase 3 release,1000 Genomes phase 1 release,Geuvadis
Adj118 MBVis
NA18504 SAME125061 male YRI Yoruba AFR African Ancestry YRI 1000 Genomes on GRCh38,1000 Genomes 30x on GRCh38,1000 Genomes phase 3 release,1000 Genomes phase 1 release
Adj118 MBVis
NA18505 SAME125062 female YRI Yoruba AFR African Ancestry YRI 1000 Genomes on GRCh38,1000 Genomes 30x on GRCh38,1000 Genomes phase 3 release,1000 Genomes phase 1 release,Geuvadis
Adj118 MBVis
Showing 1 to 10 of 119 entries