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metadata

title: Binding Scores
description: Schema reference for computed binding score tables

These are the computed outputs of the data labeling pipeline.

Binding Scores

File: binding-scores-YYYYMMDD.parquet

Aggregated binding scores per candidate and antigen pair. Replicate binding scores are averaged across replicates and pivoted so that each antigen concentration becomes its own column.

Grain: one row per unique (candidate_id, sino_catalog_id).

Fixed Columns

Column	Type	Description
`candidate_library_id`	`string`	Identifier of the candidate library consumed by this sample.
`candidate_name`	`string`	Customer-provided sequence name.
`candidate_id`	`string`	Blake-3 content digest of the reference sequence.
`candidate_sequence`	`string`	The candidate amino acid sequence.
`variant_id`	`string`	Blake-3 content digest of the variant sequence.
`variant_sequence`	`string`	The variant sequence.
`sino_catalog_id`	`string`	Sino catalog identifier for the antigen used in the binding assay.
`antigen_gene_name`	`string`	Gene name of the antigen.
`antigen_sequence`	`string`	Amino acid sequence of the antigen.
`targeting`	`boolean`	Whether the candidate was designed to target this antigen.
`is_expressed`	`boolean`	Whether the candidate is expressed in at least one sample.

Dynamic Concentration Columns

In addition to the fixed columns above, this table contains **dynamic columns** for each antigen concentration used in the experiment. The column names follow the pattern `binding_score_{conc}nM` and `binding_score_{conc}nM_std`.

For our standard workflow, you will see these additional columns:

Column	Type	Description
`binding_score_5nM`	`float`	Mean log binding score at 5 nM.
`binding_score_5nM_std`	`float`	Standard error of the log binding score at 5 nM.
`binding_score_50nM`	`float`	Mean log binding score at 50 nM.
`binding_score_50nM_std`	`float`	Standard error of the log binding score at 50 nM.
`binding_score_500nM`	`float`	Mean log binding score at 500 nM.
`binding_score_500nM_std`	`float`	Standard error of the log binding score at 500 nM.

Replicate Binding Scores

File: replicate-binding-scores-YYYYMMDD.parquet

Per-replicate binding scores unrolled across antigen concentrations. Each row represents a single candidate measured in a specific expression/binding sample pair at a specific antigen concentration. Use this table to inspect replicate-level variation and per-sample UMI counts.

Grain: one row per (candidate_id, binding_sample_id, antigen_concentration_nM).

Column	Type	Nullable	Description
`candidate_library_id`	`string`	no	Identifier of the candidate library consumed by this sample.
`expression_sample_id`	`string`	no	Sample identifier for the expression (base) sample.
`binding_sample_id`	`string`	no	Sample identifier for the binding (dose) sample.
`candidate_name`	`string`	no	Customer-provided sequence name.
`candidate_id`	`string`	no	Blake-3 content digest of the reference sequence.
`candidate_sequence`	`string`	no	The candidate amino acid sequence.
`variant_id`	`string`	no	Blake-3 content digest of the variant sequence.
`variant_sequence`	`string`	no	The variant sequence.
`sino_catalog_id`	`string`	no	Sino catalog identifier for the antigen.
`antigen_gene_name`	`string`	no	Gene name of the antigen.
`antigen_sequence`	`string`	no	Amino acid sequence of the antigen.
`antigen_concentration_nM`	`float`	no	Antigen concentration in nanomolar.
`targeting`	`boolean`	no	Whether the candidate was designed to target this antigen.
`is_expressed`	`boolean`	no	Whether the candidate is expressed.
`binding_score`	`float`	yes	Log binding score. Null when UMI count thresholds are not met.
`expression_umi_count`	`integer`	yes	UMI count from the expression (base) sample.
`binding_umi_count`	`integer`	yes	UMI count from the binding (dose) sample.

Key relationships:

expression_sample_id and binding_sample_id both correspond to dim_samples.sample_id.
candidate_id is the shared candidate key across all tables.
variant_id is the shared variant key across all tables.

Specificity Scores

File: specificity-scores-YYYYMMDD.parquet

Aggregated specificity scores per candidate and antigen pair. Replicate specificity scores are averaged across replicates and pivoted so that each antigen concentration becomes its own column.

Grain: one row per unique (candidate_id, sino_catalog_id).

Fixed Columns

Column	Type	Description
`candidate_library_id`	`string`	Identifier of the candidate library consumed by this sample.
`candidate_name`	`string`	Customer-provided sequence name.
`candidate_id`	`string`	Blake-3 content digest of the reference sequence.
`candidate_sequence`	`string`	The candidate amino acid sequence.
`variant_id`	`string`	Blake-3 content digest of the variant sequence.
`variant_sequence`	`string`	The variant sequence.
`sino_catalog_id`	`string`	Sino catalog identifier for the antigen used in the binding assay.
`antigen_gene_name`	`string`	Gene name of the antigen.
`antigen_sequence`	`string`	Amino acid sequence of the antigen.
`is_expressed`	`boolean`	Whether the candidate is expressed in at least one sample.

Dynamic Concentration Columns

In addition to the fixed columns above, this table contains **dynamic columns** for each antigen concentration used in the experiment. The column names follow the pattern `log_specificity_score_{conc}nM` and `log_specificity_score_{conc}nM_std`.

For our standard workflow, you will see these additional columns:

Column	Type	Description
`log_specificity_score_5nM`	`float`	Mean log specificity score at 5 nM.
`log_specificity_score_5nM_std`	`float`	Standard error of the log specificity score at 5 nM.
`log_specificity_score_50nM`	`float`	Mean log specificity score at 50 nM.
`log_specificity_score_50nM_std`	`float`	Standard error of the log specificity score at 50 nM.
`log_specificity_score_500nM`	`float`	Mean log specificity score at 500 nM.
`log_specificity_score_500nM_std`	`float`	Standard error of the log specificity score at 500 nM.

Replicate Specificity Scores

File: replicate-specificity-scores-YYYYMMDD.parquet

Per-replicate specificity scores unrolled across antigen concentrations. Each row represents a single candidate measured in a specific expression/binding sample pair at a specific antigen concentration. Use this table to inspect replicate-level variation.

Grain: one row per (candidate_id, binding_sample_id, antigen_concentration_nM).

Column	Type	Nullable	Description
`candidate_library_id`	`string`	no	Identifier of the candidate library consumed by this sample.
`expression_sample_id`	`string`	no	Sample identifier for the expression (base) sample.
`binding_sample_id`	`string`	no	Sample identifier for the binding (dose) sample.
`candidate_name`	`string`	no	Customer-provided sequence name.
`candidate_id`	`string`	no	Blake-3 content digest of the reference sequence.
`candidate_sequence`	`string`	no	The candidate amino acid sequence.
`variant_id`	`string`	no	Blake-3 content digest of the variant sequence.
`variant_sequence`	`string`	no	The variant sequence.
`sino_catalog_id`	`string`	no	Sino catalog identifier for the antigen.
`antigen_gene_name`	`string`	no	Gene name of the antigen.
`antigen_sequence`	`string`	no	Amino acid sequence of the antigen.
`antigen_concentration_nM`	`float`	no	Antigen concentration in nanomolar.
`is_expressed`	`boolean`	no	Whether the candidate is expressed.
`log_specificity_score`	`float`	yes	Log specificity score. Null when UMI count thresholds are not met.

Key relationships:

expression_sample_id and binding_sample_id both correspond to dim_samples.sample_id.
candidate_id is the shared candidate key across all tables.
variant_id is the shared variant key across all tables.

Expression Scores

File: expression-scores-YYYYMMDD.parquet

Aggregated expression scores per candidate. Expression scores are averaged across replicates.

Grain: one row per unique (candidate_id, variant_id).

Fixed Columns

Column	Type	Description
`candidate_library_id`	`string`	Identifier of the candidate library consumed by this sample.
`candidate_name`	`string`	Customer-provided sequence name.
`candidate_id`	`string`	Blake-3 content digest of the reference sequence.
`candidate_sequence`	`string`	The candidate amino acid sequence.
`variant_id`	`string`	Blake-3 content digest of the variant sequence.
`variant_sequence`	`string`	The variant sequence.
`is_expressed`	`boolean`	Whether the candidate is expressed in at least one sample.
`expression_score`	`float`	Mean expression score across all samples.
`expression_score_std`	`float`	Standard error of the expression score across all samples.

Replicate Expression Scores

File: replicate-expression-scores-YYYYMMDD.parquet

Per-replicate expression scores unrolled across different biological replicates. Use this table to inspect replicate-level variation.

Grain: one row per (expression_sample_id, candidate_id, variant_id).

Column	Type	Nullable	Description
`candidate_library_id`	`string`	no	Identifier of the candidate library consumed by this sample.
`expression_sample_id`	`string`	no	Sample identifier for the expression (base) sample.
`candidate_name`	`string`	no	Customer-provided sequence name.
`candidate_id`	`string`	no	Blake-3 content digest of the reference sequence.
`candidate_sequence`	`string`	no	The candidate amino acid sequence.
`variant_id`	`string`	no	Blake-3 content digest of the variant sequence.
`variant_sequence`	`string`	no	The variant sequence.
`is_expressed`	`boolean`	no	Whether the candidate is expressed.
`expression_score`	`float`	yes	Expression score derived from the log enrichment from synthesis to expression. Null when UMI count thresholds are not met.

Key relationships:

expression_sample_id corresponds to dim_samples.sample_id.
candidate_id is the shared candidate key across all tables.
variant_id is the shared variant key across all tables.