Sample types
What is a Sample type?Filters
A single cell expression matrix file contains processed gene expression counts for individual cells. It represents the normalized matrix used for downstream dimensionality reduction, clustering, or differential expression analysis. Each file integrates thousands of single-cell measurements into one dataset (many→1). Typical file types: .h5ad, .mtx, .csv
UID (Text) *, Name (Text) , File_PrimaryData (Text) , Link_PrimaryData (Text) , SampleCreationDate (Text) , Scientist (Text) , DataType (Text) , Barcodes (Text) , BarcodesDataType (Text) , Genes (Text) , GenesDataType (Text) , Metadata (Text) , MetadataDataType (Text) , Protocol (Text) , Parent (Text) , Lab (Text) , Repository (Text) , Accession (Text) , Checksum_PrimaryData (Text) , Checksum_Barcodes (Text) , Checksum_Genes (Text) , Checksum_Metadata (Text)
Not specified
An antibody panel sample represents a curated collection of antibodies used for detection or labeling in assays. It defines the set of reagents applied to measure or visualize specific proteins, cells, or molecular targets. This sample type is used to link AB's together into a single UID
UID (Text) *, Name (Text) , Parent (Text) , Scientist (Text)
Not specified
A non-human primate sample originates from an organism closely related to humans within the primate order. These samples are collected to study biological processes that share genetic and physiological similarities with human systems. Each reflects controlled collection and handling specific to the species and study design.
UID (Text) *, Name (Text) , DateOfBirth (Text) , Sex (Text) , Species (Text) , Origin (Text) , Facility (Text) , ID (Text) , Scientist (Text) , Cohort (Text) , Protocol (URI) , Study (Text) , Funder (Text) , TotalCFU (Text) , LungCFU (Text) , LymphNodeCFU (Text) , TotalPathologyScore (Text) , LungPathologyScore (Text) , LymphNodePathologyScore (Text) , CFUUnits (Text)
Not specified
An antibody sample contains purified immune proteins that specifically recognize and bind to target molecules. These samples are used in experimental procedures that detect, label, or isolate biological components. Each antibody is defined by its binding specificity, source, and production method.
UID (Text) *, Name (Text) , Catalog# (Text) , Vendor (Text) , Analyte (Text) , Clone (Text) , RRID (Text) , ExperimentType (Text) , CatalogLink (Web link)
Not specified
A bacteria sample represents a microbial strain used in an experiment, either as an infectious agent or as material isolated from another biological source. It serves as a basis for studying host interactions, gene expression, or microbial composition.
UID (Text) *, Name (Text) , Scientist (Text) , Species (Text) , Morphology (Text) , Strain (Text) , TaxonomyID (Text) , GramStaining (Text) , Barcode (Text) , Qtag (Text)
Not specified
A tissue sample represents a portion of biological material collected from an organism. It serves as the source for downstream molecular, cellular, or histological analyses.
UID (Text) *, Name (Text) , Scientist (Text) , SampleCreationDate (Text) , Protocol (Web link) , Parent (Registered Sample - PAV - CD8.2) , Type (Text) , Organ (Text) , OrganDetail (Text) , CFU (Text) , CFUUnits (Text)
Not specified
A bacteria sample represents a microbial strain used in an experiment, either as an infectious agent or as material isolated from another biological source. It serves as a basis for studying host interactions, gene expression, or microbial composition.
UID (Text) *, Name (Text) , Scientist (Text) , Protocol (Web link) , SampleCreationDate (Text) , Parent (Registered Sample - TIS - CD8) , Note (Text) , Lab (Text)
Not specified
A DNA sample contains extracted genetic material isolated from a biological source. It serves as input for sequencing, amplification, or other genomic analyses.
UID (Text) *, Name (Text) , Protocol (Web link) , SampleCreationDate (Text) , Scientist (Text) , Parent (Registered Sample - TIS - CD8) , Type (Text) , Barcode (Text) , BarcodeType (Text) , Barcode2 (Text) , Barcode2Type (Text) , NumPrepCycles (Text) , Lab (Text)
Not specified
A DNA sample contains extracted genetic material isolated from a biological source. It serves as input for sequencing, amplification, or other genomic analyses.
UID (Text) *, Name (Text) , Protocol (URI) , SampleCreationDate (Text) , Scientist (Text) , Parent (Registered Sample - BAC DBMM - CD8) , Type (Text) , Barcode (Text) , BarcodeType (Text) , Lab (Text)
Not specified
A sequencing file contains raw nucleotide sequence reads and their quality scores. It represents the digital output from a DNA or RNA sequencing run and serves as the starting point for downstream analyses such as alignment or variant calling. Typical file type: .fastq or .fastq.gz
UID (Text) *, Name (Text) , File_PrimaryData (Text) , Scientist (Text) , SampleCreationDate (Text) , Protocol (Web link) , Link_PrimaryData (URI) , Parent (Registered Sample - DNA -TIS-CD8) , DataType (Text) , SequencingType (Text) , Sequencer (Text) , F_bp (Text) , R_bp (Text) , NumReads (Text) , LibraryStrategy (Text) , LibrarySource (Text) , LibrarySelection (Text) , ExtractedMolecule (Text) , Checksum_PrimaryData (Text) , File_SecondaryData (Text) , LibraryDesign (Text) , Accession (Text) , Repository (Text) , Checksum_SecondaryData (Text) , Link_SecondaryData (Web link) , Checksum_Type (Text)
Not specified
A sequencing file contains raw nucleotide sequence reads and their quality scores. It represents the digital output from a DNA or RNA sequencing run and serves as the starting point for downstream analyses such as alignment or variant calling. Typical file type: .fastq or .fastq.gz
UID (Text) *, Name (Text) , File_PrimaryData (Text) , Scientist (Text) , SampleCreationDate (Text) , Protocol (URI) , Link_PrimaryData (Web link) , Parent (Registered Sample - DNA -BAC-CD8) , DataType (Text) , SequencingType (Text) , Sequencer (Text) , F_bp (Text) , R_bp (Text) , LibraryStrategy (Text) , LibrarySource (Text) , LibrarySelection (Text) , Checksum_PrimaryData (Text) , File_SecondaryData (Text) , Link_SecondaryData (URI) , LibraryDesign (Text) , Accession (Text) , Repository (Text) , Checksum_SecondaryData (Text) , Checksum_Type (Text)
Not specified
An antibody sample contains purified immune proteins that specifically recognize and bind to target molecules. These samples are used in experimental procedures that detect, label, or isolate biological components. Each antibody is defined by its binding specificity, source, and production method.
UID (Text) *, Name (Text) , Catalog# (Text) , Vendor (Text) , Analyte (Text) , Clone (Text) , Fluorophore (Text) , ExperimentType (Text) , Isotype (Text) , CatalogLink (Web link)
Not specified
A digitally barcoded MTB matrix analysis file contains processed results from barcoded Mycobacterium tuberculosis tracking experiments. It represents summarized abundance or distribution data across bacterial lineages or host conditions. Each file aggregates results from multiple barcoded samples into one matrix (many→1). Typical file types: .csv, .xlsx
UID (Text) *, File_PrimaryData (Text) , Link_PrimaryData (URI) , DataType (Text) , Parent (Text) , Lab (Text) , Scientist (Text) , Checksum_PrimaryData (Text) , BacterialParent (Text) , Checksum_Type (Text)
Not specified
A flow cytometry file stores fluorescence and light-scattering measurements collected from individual cells or particles during cytometric analysis. It represents the digital output of a cytometer used to characterize cell populations and properties. Typical file type: .fcs
UID (Text) *, File_PrimaryData (Text) , Link_PrimaryData (URI) , Scientist (Text) , SampleCreationDate (Text) , Parent (Registered Sample - TIS - CD8) , Protocol (URI) , Instrument (Text) , Checksum_PrimaryData (Text) , Software (Text) , Fixation (Text) , Stimulation (Text) , AntibodyParent (Text) , Type (Text) , Repository (Text) , RepositoryID (Text) , Checksum_PrimaryType (Text)
Not specified
A flow cytometry analysis file contains processed results derived from raw cytometry data. It represents quantified cell populations, marker expression levels, or gating outcomes used for downstream statistical interpretation. Each file typically aggregates data from multiple raw samples into one analyzed dataset (many→1). Typical file types: .csv, .xlsx, .fcs
UID (Text) *, Name (Text) , File_PrimaryData (Text) , Link_PrimaryData (URI) , Checksum_PrimaryData (Text) , Parent (Text)
Not specified
An antibody sample contains purified immune proteins that specifically recognize and bind to target molecules. These samples are used in experimental procedures that detect, label, or isolate biological components. Each antibody is defined by its binding specificity, source, and production method.
UID (Text) *, Name (Text) , Catalog# (Text) , Vendor (Text) , Analyte (Text) , Fluorophore (Text) , ExperimentType (Text) , Isotype (Text) , SecondaryAntibody (Text) , SecondaryAntibodyLink (URI) , CatalogLink (URI)
Not specified
An imaging data file stores visual or spatial information captured from microscopy, radiography, or other imaging systems. It represents the raw or processed image output used for structural or morphological analysis. Typical file types: .tiff, .jpg, .png, .ome.tiff
UID (Text) *, File_PrimaryData (Text) , Checksum_PrimaryData (Text) , Link_PrimaryData (URI) , Scientist (Text) , Protocol (URI) , Parent (Registered Sample - TIS - CD8) , Type (Text) , Instrument (Text) , DataType (Text) , SlideStain (Text) , SlideAntibodyParent (Text)
Not specified
An imaging data file stores visual or spatial information captured from microscopy, radiography, or other imaging systems. It represents the raw or processed image output used for structural or morphological analysis. Typical file types: .tiff, .jpg, .png, .ome.tiff
UID (Text) *, File_PrimaryData (Text) , Link_PrimaryData (Web link) , Scientist (Text) , Protocol (URI) , SampleCreationDate (Text) , Parent (Registered Sample - PAV - CD8.2) , Type (Text) , Notes (Text) , Instrument (Text) , DataType (Text) , PETHot (Text) , PETHotUnits (Text) , Checksum_PrimaryType (Text)
Not specified
A patient visit record represents a specific encounter or collection event for a study participant. It provides temporal and contextual information linking biological samples or data files to a particular time point, condition, or intervention.
UID (Text) *, Name (Text) , Scientist (Text) , Protocol (Web link) , Type (Text) , Parent (Registered Sample - NHP - CD8) , VisitFacility (Text) , Notes (Text) , SampleCreationDate (Text) , Treatment1 (Text) , Treatment1Type (Text) , Treatment1Route (Text) , Treatment1Dose (Text) , Treatment1DoseUnits (Text) , AntibodyParent (Registered Sample - AB Depletion - CD8) , BacterialParent (Registered Sample - BAC Infection - CD8)
Not specified
A single cell expression matrix file contains processed gene expression counts for individual cells. It represents the normalized matrix used for downstream dimensionality reduction, clustering, or differential expression analysis. Each file integrates thousands of single-cell measurements into one dataset (many→1). Typical file types: .h5ad, .mtx, .csv
UID (Text) *, File_PrimaryData (Text) , Link_PrimaryData (URI) , SampleCreationDate (Text) , Scientist (Text) , DataType (Text) , BarcodesDataType (Text) , Protocol (URI) , Parent (Registered Sample - D.SEQ-TIS - CD8) , Lab (Text) , Checksum_PrimaryData (Text) , Checksum_Type (Text)
Not specified
A patient sample represents a human participant enrolled in a study. It serves as the source for clinical information and biological material collected to investigate health, disease, or treatment effects.
UID (Text) *, Name (Text) , Scientist (Text) , Contact (Text) , Notes (Text) , Sex (Text) , Classification (Text) , Study (Text) , Age (Text) , Ethnicity (Text) , DiseaseHistory (Text) , TimeToTB (Text) , TimeToTBUnits (Text) , QFT_Result (Text) , TST_Result (Text) , Smear_Result (Text) , MGITCulture_Result (Text) , Symptoms (Text) , SubjectLocation (Text)
Not specified
A patient visit record represents a specific encounter or collection event for a study participant. It provides temporal and contextual information linking biological samples or data files to a particular time point, condition, or intervention.
UID (Text) *, Name (Text) , Type (Text) , Parent (Registered Sample - PAT - LD) , Protocol (URI) , Scientist (Text) , Procedure (Text)
Not specified
A tissue sample represents a portion of biological material collected from an organism. It serves as the source for downstream molecular, cellular, or histological analyses.
UID (Text) *, Name (Text) , Parent (Registered Sample - PAV - LD) , Protocol (URI) , Type (Text) , Scientist (Text)
Not specified
A titer assay data file contains quantitative measurements of antibody or viral concentrations from serial dilution experiments. It represents the processed output used to assess immune response or viral load. Typical file types: .csv, .xlsx
UID (Text) *, File_PrimaryData (Text) , Link_PrimaryData (Text) , Checksum_PrimaryData (Text) , Parent (Text) , Type (Text) , Dilution (Text) , Scientist (Text) , Protocol (URI) , Bead_Vendor (Text) , Bead_coating (Text) , Bead_coating_vendor (Text) , anti_IgX_Ab (Text) , anti_IgX_Ab_vendor (Text) , Detection_Ab (Text) , Analyzer (Text) , Analyzer_Vendor (Text) , Lab (Text)
Not specified
An Fc-gamma receptor binding assay data file records binding measurements between antibodies and Fc-gamma receptors. It represents the output used to evaluate antibody effector function and receptor affinity. Typical file types: .csv, .xlsx
UID (Text) *, File_PrimaryData (Text) , Link_PrimaryData (Text) , Checksum_PrimaryData (Text) , Protocol (URI) , Parent (Text) , Dilution (Text) , Scientist (Text) , Bead_Vendor (Text) , Bead_coating_Vendor (Text) , Bead_coating (Text) , Fc_gamma_Receptor (Text) , Fc_gamma_Receptor_Vendor (Text) , Biotin (Text) , Biotin_Vendor (Text) , Biotin_Catalog# (Text) , Fluoro-Streptavidine (Text) , Fluoro-Streptavidine_Vendor (Text) , Analyzer (Text) , Analyzer_Vendor (Text) , Lab (Text)
Not specified
An antibody dependent neutrophil phagocytosis data file records quantitative measurements of antibody-mediated uptake by neutrophils. It represents the processed output used to evaluate innate immune activation. Typical file types: .csv, .xlsx
UID (Text) *, File_PrimaryData (Text) , Link_PrimaryData (Text) , Checksum_PrimaryData (Text) , Protocol (URI) , Scientist (Text) , Parent (Text) , Dilution (Text) , Bead_coating (Text) , Leukocytes (Text) , Staining_Antibody (Text) , Staining_Antibody_Vendor (Text) , Staining_Antibody_Fluorophore (Text) , Analyzer (Text) , Analyzer_Vendor (Text) , Fixed (Text) , Fixative (Text) , Lab (Text)
Not specified
An antibody dependent cellular phagocytosis data file contains measurements of target cell uptake mediated by antibody opsonization. It represents the digital output used to assess immune cell function and antibody efficacy. Typical file types: .csv, .xlsx
UID (Text) *, File_PrimaryData (Text) , Link_PrimaryData (Text) , Checksum_PrimaryData (Text) , Protocol (URI) , Scientist (Text) , Parent (Text) , Dilution (Text) , Bead_Vendor (Text) , Bead_Coating (Text) , PhagocyticCells (Text) , PhagocyticCells_Vendor (Text) , PhagocyticCells_Catalog# (Text) , Analyzer (Text) , Analyzer_Vendor (Text) , Fixed (Text) , Fixative (Text) , Lab (Text)
Not specified
A linear mixed model file contains statistical outputs from models that include both fixed and random effects. It represents results used to analyze complex datasets with repeated measures or hierarchical structure. Each file typically summarizes modeled results from multiple input datasets (many→1). Typical file types: .rds, .csv, .txt
UID (Text) *, File_PrimaryData (Text) , Link_PrimaryData (URI) , Scientist (Text) , Parent (Text) , Type (Text)
Not specified
A non-human primate sample originates from an organism closely related to humans within the primate order. These samples are collected to study biological processes that share genetic and physiological similarities with human systems. Each reflects controlled collection and handling specific to the species and study design.
UID (Text) *, Name (Text) , DateOfBirth (Text) , Sex (Text) , Species (Text) , Origin (Text) , Scientist (Text) , Supplier (Text) , Protocol (URI)
Not specified
A patient visit record represents a specific encounter or collection event for a study participant. It provides temporal and contextual information linking biological samples or data files to a particular time point, condition, or intervention.
UID (Text) *, Name (Text) , Scientist (Text) , Type (Text) , Protocol (URI) , Procedure (Text) , Parent (Registered Sample - NHP - EI-Dose) , Notes (Text) , SampleCreationDate (Text) , Treatment1 (Text) , Treatment1Type (Text) , Treatment1Route (Text) , Treatment1Dose (Text) , Treatment1DoseUnits (Text) , ExperimentalTimepoint (Text)
Not specified
