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File view driving this table: https://www.synapse.org/#!Synapse:syn9630847/tables/

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facet: true if column_name should be faceted in data portal.

card location: primary (i.e., top) or secondary (i.e., bottom) key/annotation

The following annotations do not exist on file:

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tissue_or_organ_of_origin anatomic site of origin, of the patient's described diagnosissample

column name	current synapse file view column	eventual synapse file view column	facetshow	on card–no, primary, secondarycard location	concept	example	GDC equivalent	faceted on GDC	facet on CSBC	GDC reference	size	restricted values	comments	in AMP-AD portal	in NF portal
Grant Type			yes	NA		U54 or U01
Grant			yes	NA
Program			yes	NA		CSBC or PSON
Species	species	species	yes	primarysecondary			none		yes
Scientific Theme	NA	theme	yesprimary	secondary(or possibly pill directly beneath file name)		tumor-heterogeneity	none		yes
Data Category	assay	data_category	yes	primarysecondary	Broad categorization of the contents of the data file.	Transcriptome Profiling	data_category	yes	yes	CSBC will need to add values to those in GDC (which only cover sequencing)	Data Type	NA	data_type	no?	no	Specific content type of the data file.	Exon Expression Quantification Gene Expression Quantification Isoform Expression Quantification Splice Junction Quantification	data_type	yes	yes				CSBC will need to add values to those in GDC (which only cover sequencing)	Data Format	fileFormat	data_format	no?	no	Format of the data files.	CSV HDF5 TSV TXT SRA XML MAGE-TAB SDRF IDF ADF	data_format	yes	yes
Experiment Strategy	assay	experimental_strategy	yes	primarysecondary	The sequencing strategy used to generate the data file. REMOVE "sequencing" for CSBC.	RNA-Seq Total RNA-Seq	experimental_strategy	yes	yes				CSBC will need to add values to those in GDC (which only cover sequencing)	file_name	no	primary	The name (or part of a name) of a file (of any type).	file_name	no	no	file_size	no	no	The size of the data file (object) in bytes.	file_size	no	no	md5sum	no	no	The 128-bit hash value expressed as a 32 digit hexadecimal number (in lower case) used as a file's digital fingerprint.	md5sum	no	no
platform	yes	no	platform	yes	yes	workflow_type	NA	no	no	Generic name for the workflow used to analyze a data set.	BWA BWA with BQSR BWA-aln BWA-mem BWA with Mark Duplicates and BQSR	yes	??	Disease Type	disease_type	yes	primaryPlatform			yes	NA			platform	yes	yes
Disease Type			yes	secondary	The text term used to describe the type of malignant disease, as categorized by the World Health Organization's (WHO) International Classification of Diseases for Oncology (ICD-O).	Acinar Cell Neoplasms Adenomas and Adenocarcinomas Adnexal and Skin Appendage Neoplasms Basal Cell Neoplasms Blood Vessel Tumors	case/disease_type	yes	yes	https://docs.gdc.cancer.gov/Data_Dictionary/viewer/#?view=table-definition-view&id=case	Tissue
Site			yes	primarysecondary	The text term used to describe the	general location of the malignant disease, as	categorized by the World Health Organization's (WHO) International Classification of Diseases for Oncology (ICD-O).	Abdomen, NOS Abdominal esophagus Accessory sinus, NOS Acoustic nerve Adrenal gland, NOS	diagnosis/tissue_or_organ_of_origin Accessory sinuses Adrenal gland Anus and anal canal Base of tongue Bladder	case/primary_site	yes	yes	https://docs.gdc.cancer.gov/Data_Dictionary/viewer/#?view=table-definition-view&id=	casetissue_type
Tissue			noyesno	secondary	Text term that represents a description of the kind of tissue collected with respect to disease status or proximity to tumor tissue.	Tumor Normal Abnormal Peritumoral Unknown	sample/tissue_type	noThe text term used to describe the anatomic site of origin, of the patient's malignant disease, as described by the World Health Organization's (WHO) International Classification of Diseases for Oncology (ICD-O).	Abdomen, NOS Abdominal esophagus Accessory sinus, NOS Acoustic nerve Adrenal gland, NOS	diagnosis/tissue_or_organ_of_origin	yes	yes	https://docs.gdc.cancer.gov/Data_Dictionary/viewer/#?view=table-definition-view&id=	diagnosis

GDC Data Dictionary viewer: https://docs.gdc.cancer.gov/Data_Dictionary/viewer/

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