Attribute Manifest Name Description Required Conditional If Data Type Valid Values Filename RPPA Level 2,RPPA Level 3,RPPA Level 4 Name of a file True String File Format RPPA Level 2,RPPA Level 3,RPPA Level 4 Format of a file (e.g. txt, csv, fastq, bam, etc.) True String hdf5 bedgraph idx idat bam bai excel powerpoint tif tiff OME-TIFF png doc pdf fasta fastq sam vcf bcf maf bed chp cel sif tsv csv txt plink bigwig wiggle gct bgzip zip seg html mov hyperlink svs Md flagstat gtf raw msf rmd bed narrowPeak bed broadPeak bed gappedPeak avi pzfx fig xml tar R script abf bpm dat jpg locs Sentrix descriptor file Python script sav gzip sdf RData hic ab1 7z gff3 json sqlite svg sra recal tranches mtx tagAlign dup DICOM czi mex cloupe Am cell am mpg M mzML scn dcc rcc pkc sf bedpe HTAN Participant ID RPPA Level 2,RPPA Level 3,RPPA Level 4 HTAN ID associated with a patient based on HTAN ID SOP (eg HTANx_yyy ) True String HTAN Parent Biospecimen ID RPPA Level 2,RPPA Level 3,RPPA Level 4 HTAN Biospecimen Identifier (eg HTANx_yyy_zzz) indicating the biospecimen(s) from which these files were derived; multiple parent biospecimen should be comma-separated True Is lowest level is "Yes - Is lowest level" String HTAN Parent Data File ID RPPA Level 2,RPPA Level 3,RPPA Level 4 HTAN Data File Identifier indicating the file(s) from which these files were derived True String HTAN Data File ID RPPA Level 2,RPPA Level 3,RPPA Level 4 Self-identifier for this data file - HTAN ID of this file HTAN ID SOP (eg HTANx_yyy_zzz) True String HTAN RPPA Antibody Table RPPA Level 2 A table containing antibody level metadata for RPPA True String Assay Type RPPA Level 2,RPPA Level 3,RPPA Level 4 The type and level of assay this metadata applies to (e.g. RPPA, NanoString DSP, etc.) True String Protocol Link RPPA Level 2 Protocols.io ID or DOI link to a free/open protocol resource describing in detail the assay protocol (e.g. surface markers used in Smart-seq, dissociation duration, lot/batch numbers for key reagents such as primers, sequencing reagent kits, etc.) or the protocol by which the sample was obtained or generated. True String Software and Version RPPA Level 2,RPPA Level 3 Name of software used to generate expression values. String True Pseudo Alignment Used is "Yes - Pseudo Alignment Used" String Normalization Method RPPA Level 2,RPPA Level 3 Description of Normalization Process False String Batch Correction Method RPPA Level 3,RPPA Level 4 Method that was used to batch correct Level 3 data False String HTAN RPPA Antibody Table ID RPPA Level 2 HTAN identifier associated with RPPA antibody level metadata. Identical for every row of the table. True String Ab Name Reported on Dataset RPPA Level 2 The antibody name. True String GENCODE Gene Symbol Target RPPA Level 2 The comma separated list of gene symbols targeted by the antibody. True String UNIPROT Protein ID Target RPPA Level 2 The comma separated list of UNIPROT IDs targeted by the antibody. True String Phosphoprotein Flag RPPA Level 2 A flag the denotes if an antibody targets a phosphoprotein. True String true false Vendor RPPA Level 2 Vendor False String Catalog Number RPPA Level 2 Catalog Number False String Internal Ab ID RPPA Level 2 Internal lab ID for an antibody. True String Species RPPA Level 2 Host animal. True String Mouse Rabbit Goat RPPA Dilution RPPA Level 2 The dilution ratio. False String Phospho Site RPPA Level 2 The protein site for a phosphoprotein targeting antibody. Report AA and site (i.e. S442) False String RPPA Validation Status RPPA Level 2 Valid = RPPA and WB correlation > 0.7; Use with Caution = RPPA and WB correlation < 0.7; Under Evaluation = Antibody has given mixed results and/or evaluated by another lab; We are in the process of (re)validating; Used for QC = These antibodies are used for tissue sample quality control (QC) False String Valid Use with Caution Under Evaluation Used for QC Clone RPPA Level 2 Clone False String Clonality RPPA Level 2 The text term used to describe whether a genomic variant is related by descent from a single progenitor cell. Note: This node is meant to capture molecular tests that were completed clinically for the participant and only includes data from diagnostic array that was completed prior to research sequencing was done. Do not include data related to research assay outputs here. False String Clonal Non-clonal Antibody Notes RPPA Level 2 Notes on antibodies replacements and antibody recognition observations. False String