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Benchling Oligo Duplex API

An oligo duplex is a therapeutic modality consisting of two complementaryoligonucleotide strands (forward and reverse) with optional conjugate moleculesattached to either strand. The classic example is siRNA (small interfering RNA),which uses double-stranded RNA for gene silencing. The forwardStrand and reverseStrandreference the underlying oligo entities, with hydrogen bonds automatically computedfor base pairing. Structure is defined using HELM notation and can be edited viathe visual structure editor. Supports versioning (see OligoDuplexVersion) to trackchanges over time.

Benchling Oligo Duplex API is one of 203 APIs that Benchling publishes on the APIs.io network, described by a machine-readable OpenAPI specification.

Tagged areas include OligoDuplex. The published artifact set on APIs.io includes an OpenAPI specification, API documentation, an API reference, authentication docs, rate-limit docs, and a changelog.

This API exposes 9 operations across 8 paths, and defines 77 schemas. It is described by OpenAPI 3.2.0, at version 2.0.0.

Requests are made against a single base URL, /api/v3.

9 operations 8 paths 77 schemas 3 GET3 PATCH3 POST

Metadata

The identity and technical contract details declared by the specification.

Specification
OpenAPI 3.2.0
API Version
2.0.0
Base URL
https://{tenant}.benchling.com/api/v2
Authentication
HTTP Basic, HTTP Basic, OAuth 2.0
License
Resource Areas
1

Authentication & Security 3

Benchling Oligo Duplex API declares 3 security schemes for authenticating requests. It accepts HTTP basic authentication (basicApiKeyAuth). It accepts HTTP basic authentication (basicClientIdSecretAuth). It supports OAuth 2.0 (oAuth) using the clientCredentials flow. By default, every request must be authenticated.

  • basicApiKeyAuth — Use issued API key for standard access to the API
  • basicClientIdSecretAuth — Auth used as part of client credentials OAuth flow prior to receiving a bearer token.
  • oAuth — OAuth2 Client Credentials flow intended for service access

Paths & Operations 9

Across 8 paths, the API surfaces 9 operations — 3 GET, 3 PATCH, 3 POST. Each is listed below with its method, path, parameters, and response codes.

OligoDuplex 9

An oligo duplex is a therapeutic modality consisting of two complementary oligonucleotide strands (forward and reverse) with optional conjugate molecules attached to either strand…

POST
/oligo-duplex
Create OligoDuplex
OligoDuplex.Create 1 param body → 201400403404429500
GET
/oligo-duplex/items
List OligoDuplex items
OligoDuplex.List 21 params → 200400403404429500
GET
/oligo-duplex/{oligo_duplex_id}
Get OligoDuplex by ID
OligoDuplex.Get 4 params → 200400403404429500
PATCH
/oligo-duplex/{oligo_duplex_id}
Update OligoDuplex
OligoDuplex.Update 2 params body → 200400403404429500
GET
/oligo-duplex/{oligo_duplex_id}/authors/items
List Principal items
OligoDuplex.authors.List 2 params → 200400403404429500
POST
/oligo-duplex:batch-create
Batch create OligoDuplex
OligoDuplex.BatchCreate 1 param body → 201400403404429500
PATCH
/oligo-duplex:batch-update
Batch update OligoDuplex
OligoDuplex.BatchUpdate 1 param body → 200400403404429500
POST
/oligo-duplex:bulk-create
Bulk create OligoDuplex
OligoDuplex.BulkCreate 1 param body → 202400403404429500
PATCH
/oligo-duplex:bulk-update
Bulk update OligoDuplex
OligoDuplex.BulkUpdate 1 param body → 202400403404429500

Schemas 77

The contract defines 77 schemas that model the data the API accepts and returns. The most detailed are IOligoDuplex (25 properties), LegacyAppInstallation (17 properties), OligoDuplexUpdateWithPathParams (14 properties), OligoDuplexCreate (13 properties). Each schema is shown below with its type and property counts.

ProjectRef
object
2 properties
AppInstallation
object
Represents an installed Benchling App on a tenant, created from an AppDefinitionVersion. App installations store tenant-specific configuration values and featu…
10 properties
CustomField
object
A name-value pair for storing additional metadata on objects that support custom fields. CustomFields provide a flexible way to attach arbitrary string data to…
3 properties
User
object
Represents a human user in Benchling who can log in, perform actions, and own data. Users belong to one or more Organizations and may be members of Teams withi…
9 properties
SchemaFieldValue
object
Represents a field value on a schematized object, pairing a fieldDefinition (describing the field's type and constraints) with its actual value (a BenchlingVal…
5 properties
AppConfigWorkflowTaskSchemaOutput
object
Defines the output field structure for a workflow task schema configuration.
2 properties
ResourceAppConfigSpec
object
Specifies that an app configuration field should reference a Benchling object instance. The type field identifies the kind of object required, matching the Ben…
3 properties
OligoDuplexUpdate
object
13 properties
AaSequenceRef
object
2 properties
DateTimeValue
object
A type that represents datetime values.
2 properties
RegistrationOrigin
object
Captures the provenance of an entity's registration into the registry. The originEntry links to the DocumentLike (typically an entry or notebook) from which th…
3 properties
FolderRef
object
2 properties
FloatAppConfigSpec
object
Specifies that an app configuration field should accept a floating-point number.
3 properties
OligoDuplexCreate
object
13 properties 6 required
WorkflowTaskSchemaAppConfigSpec
object
Specifies that an app configuration field should reference a workflow task schema. Kept separate from SchemaAppConfigSpec because it supports output field defi…
4 properties
EntitySchemaAppConfigSpec
object
Specifies that an app configuration field should reference an entity schema. Kept separate from SchemaAppConfigSpec because it carries a subtype constraint.
4 properties
AppConfigFieldDefinition
object
Defines a field within an app configuration that references schema fields. Specifies the field name, type, whether it accepts multiple values, and whether it i…
7 properties
JsonValue
object
A type that represents JSON values.
2 properties
TextAndUrlValue
object
A type that represents text (string) values with an associated URL.
3 properties
SchemaAppConfigSpec
object
Specifies that an app configuration field should reference one of the schema types that share a common structure: containerschema, plateschema, locationschema,…
4 properties
ChemSimplePolymer
object
Represents a small molecule within a complex polymer structure. Contains SMILES and molfile representations of the chemical structure, along with connections t…
7 properties
JsonAppConfigSpec
object
Specifies that an app configuration field should accept a JSON value.
2 properties
AnyType
ComplexPolymerStructure
object
Contains the complete structural definition of a complex polymer, including all component polymers and their interconnections. This is the core data structure…
4 properties
CanvasFeatureSpec
object
Defines a canvas feature for a Benchling App, which provides an embedded UI surface within entries or templates. Canvases allow apps to render custom interacti…
4 properties
ObjectLinkValue
object
A type that represents links to other objects.
2 properties
ComplexPolymerResolvedAttachment
object
Detailed information about a group of contiguous connections in a complex polymer. The entire chemical structure of the connection group, and any components in…
3 properties
InternalServerError
object
6 properties 5 required
DecimalValue
object
A type that represents decimal value as strings.
3 properties
EntitySchemaRef
object
2 properties
OligoDuplexPaginatedList
object
2 properties
BooleanAppConfigSpec
object
Specifies that an app configuration field should accept a boolean value.
2 properties
PrincipalRef
object
2 properties
TextAppConfigSpec
object
Specifies that an app configuration field should accept a text string.
3 properties
ComplexPolymerConnection
object
Represents a chemical bond between two polymers within a complex polymer structure. Connections can be covalent bonds (including disulfide bonds) or hydrogen b…
6 properties
RegistryRef
object
2 properties
SchemaFieldDefinitionRef
object
2 properties
ObjectLinkListValue
object
A type that represents a list of links to other objects.
2 properties
LegacyAppInstallation
object
Represents a legacy (pre-App Store) Benchling App installation on a tenant. Legacy apps are configured directly with webhook URLs and configuration specs rathe…
17 properties
NucleotideSequenceRef
object
2 properties
EntityAssociation
object
Every entity association maps a Benchling entity to one or more HELM references in the complex polymer. These HELM polymers each have the same chemical structu…
3 properties
DateAppConfigSpec
object
Specifies that an app configuration field should accept a date value.
2 properties
AppMessageSubscription
object
Represents an app's subscription to a specific event type, specifying the event type and how notifications should be delivered (see DeliveryMethod).
3 properties
DateValue
object
A type that represents date values.
2 properties
DropdownAppConfigSpec
object
Specifies that an app configuration field should be a dropdown with predefined options.
3 properties
ArrayAppConfigSpec
object
Specifies that an app configuration field should accept an array of values.
5 properties
BooleanValue
object
A type that represents boolean values.
2 properties
PeptideSimplePolymer
object
Represents a peptide or protein chain within a complex polymer structure. Contains the amino acid residue sequence and connections to other polymers. The entit…
6 properties
PrincipalUnpaginatedList
object
1 property
AssayRunFeatureSpec
object
Defines an assay run feature for a Benchling App, allowing the app to process or generate lab automation run data.
3 properties
AppHomepageFeatureSpec
object
Defines a homepage feature for a Benchling App, providing a dedicated landing page within the Benchling application for the app's functionality.
3 properties
Principal
object
BulkImport
object
1 property 1 required
DocumentLikeRef
object
2 properties
NucleotideMonomerRef
object
2 properties
AssayRunFeatureValue
object
Links an app's assay run feature to a specific resource (typically a run schema) on a tenant. The featureId identifies the feature from the app definition, and…
3 properties
ArrayAppConfigOption
object
A config option nested within an array-type app configuration field. Structurally identical to AppConfigOption — it has a name and a configSpec — but its confi…
4 properties
IntegerValue
object
A type that represents integer values.
2 properties
GeneralError
object
5 properties 5 required
ServicePrincipal
object
Represents a non-human identity used for system integrations and automated processes within Benchling. Service principals act as the identity for service accou…
4 properties
FieldValueInput
object
1 property 1 required
OligoDuplex
NucleotideSimplePolymer
object
Represents a nucleic acid strand (DNA or RNA) within a complex polymer structure. Contains the sequence residues, any chemical modifications (see ModifiedNucle…
8 properties
AsyncTaskLink
object
2 properties
ArrayValue
object
A type that represents a list of BenchlingValues, used for multi-value cells (e.g. alias columns).
2 properties
IntegerAppConfigSpec
object
Specifies that an app configuration field should accept an integer value.
3 properties
OligoDuplexUpdateWithPathParams
object
14 properties 1 required
MoleculeRef
object
2 properties
AppConfigOption
object
Defines a configuration option in an app's configuration schema. Each option has a name, optional description, and a configSpec defining the expected value typ…
4 properties
ConnectionSide
object
Represents one endpoint of a connection between polymers in a complex polymer structure. Identifies the specific attachment point including the polymer referen…
5 properties
ModifiedNucleotide
object
Represents a chemically modified nucleotide at a specific position in an oligonucleotide sequence. Each modification specifies the sugar, base, and phosphate m…
8 properties
AppConfigDropdownOption
object
Defines an option within a dropdown-type app configuration field.
4 properties
ObjectRef
object
2 properties
TextValue
object
A type that represents text (string) values.
2 properties
IOligoDuplex
object
An oligo duplex is a specific type of complex polymer that consists of two complementary DNA/RNA strands, with multiple attached molecules on either strand (ak…
25 properties
DateTimeAppConfigSpec
object
Specifies that an app configuration field should accept a datetime value.
2 properties
SecureTextAppConfigSpec
object
Specifies that an app configuration field should accept secure (encrypted) text. Used for sensitive data like API keys or credentials.
2 properties

Specification

The full machine-readable OpenAPI contract behind this narrative.

Source

benchling-oligoduplex-api-openapi.yml Raw ↑

Other APIs Benchling publishes across the network.

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Benchling Apps API
Benchling Assay Results API
Benchling Assay Runs API
Benchling Audit API
Benchling Authentication API
Benchling Blobs API
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Benchling Codon Usage Tables API
Benchling Connect API
Benchling Containers API
Benchling Custom Entities API
Where this information came from

This is an independent, third-party profile of Benchling Oligo Duplex API, published by API Evangelist. We do not operate, host, resell, or support these APIs, and we are not affiliated with or endorsed by the company unless stated above. Everything here is built from publicly available information — the company's own site, developer portal, documentation, public repositories, and the specifications it publishes for public use. Nothing is obtained by breaching a system, defeating an access control, or using credentials.

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