Target Information
Target information defines the sequences and associated metadata for each target site, which enables cell assignment in Cells2Stats for Direct In-Sample Sequencing (DISS) cytoprofiling runs that complete cell assignment for at least one target.
Columns
The Target Information
section includes the TargetSiteName
, TargetName
, Gene
, and Sequence
columns. When the Target Information
section is populated, the TargetSiteName
, TargetSiteName
and Sequence
columns are required. Data input in the Target Information
section must match the information that is provided in the associated Teton Atlas custom workflow design.
Column | Constraints | Definition | Allowed Values |
---|---|---|---|
TargetSiteName | Required | The name of the target site that is sequenced in the cytoprofiling run and is present in the associated Teton Atlas custom design | 1-64 case-sensitive alphanumeric characters, hyphens (-), and underscores (_) |
TargetName | Required | The unique name of the target that is associated with the target site | 1-64 case-sensitive alphanumeric characters, hyphens (-), and underscores (_) |
Gene | Optional | The gene name that is associated with the target | 1-64 case-sensitive alphanumeric characters, hyphens (-), and underscores (_) |
Sequence | Required | The unique nucleotide sequence that is associated with the target | DNA sequence (A, T, C, G only) |
ControlType | Optional | Identifies a target as a control type and is used in CytoCanvas visualization | NontargetingControl , TargetingControl , or blank |
Custom Target-Level Metadata
Custom columns are an optional addition to the Samples
section and specify additional key-value metadata for samples. Custom columns must meet the following requirements:
- Each custom column name is unique and includes case-sensitive variations.
- A custom column cannot have the same name as a required column.
- When a sample name is repeated, each corresponding value in the custom column must match exactly.
- The key character limit is 1–64. Valid characters include lower- and upper-case letters, numbers, hyphens, and underscores.
- The value character limit is 0–255 ASCII characters.
Target Specification Examples
The following examples show how to construct a manifest for specific use cases:
Define Cell Assignment Targets For Multiple Target Sites
[TARGET INFORMATION]
TargetSiteName,TargetName,Gene,Sequence,ControlType
TargetName1,SFPQ-spacer,SFPQ1880,CCGTGATATCAGCAGGTAGA,NontargetingControl
TargetName2,ZNF2-spacer,ZNF2602307,GAAGCAATACCTCATTAAAC,TargetingControl
TargetName3,EGFR-full-length,EGFR,TTCGACTCACGCGCTTACC,
TargetName4,EGFR-wild-type,EGFR,GGTGCCGCATGACGAGCC
Add Control Types to Targets
[TARGET INFORMATION]
TargetSiteName,TargetName,Gene,Sequence,PerterbationName
1_FirstTarget,SFPQ-spacer,SFPQ1880,CCGTGATATCAGCAGGTAGA,Knockout1
1_FirstTarget,ZNF2-spacer,ZNF2602307,GAAGCAATACCTCATTAAAC,Knockout1
2_SecondTarget,EGFR-full-length,EGFR,TTCGACTCACGCGCTTACC,Knockout2
2_SecondTarget,EGFR-wild-type,EGFR,GGTGCCGCATGACGAGCC,Knockout3
Define Custom Metadata Per Target
[TARGET INFORMATION]
TargetSiteName,TargetName,Gene,Sequence,PerterbationName
1_FirstTarget,SFPQ-spacer,SFPQ1880,CCGTGATATCAGCAGGTAGA,Knockout1
1_FirstTarget,ZNF2-spacer,ZNF2602307,GAAGCAATACCTCATTAAAC,Knockout1
2_SecondTarget,EGFR-full-length,EGFR,TTCGACTCACGCGCTTACC,Knockout2
2_SecondTarget,EGFR-wild-type,EGFR,GGTGCCGCATGACGAGCC,Knockout3