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Slot: Complete sequences (complete_sequences)

To be considered complete, the procedure used for library construction MUST generate sequences that 1) include the first V gene codon that encodes the mature polypeptide chain (i.e. after the leader sequence) and 2) include the last complete codon of the J gene (i.e. 1 bp 5' of the J->C splice site) and 3) provide sequence information for all positions between 1) and 2). To be considered complete & untemplated, the sections of the sequences defined in points 1) to 3) of the previous sentence MUST be untemplated, i.e. MUST NOT overlap with the primers used in library preparation. mixed should only be used if the procedure used for library construction will likely produce multiple categories of sequences in the given experiment.

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URI: nfdi4immuno:complete_sequences Alias: complete_sequences

Applicable Classes

Name Description Modifies Slot
NucleicAcidProcessing A record of the procedures used to prepare nucleic acid libraries for sequenc... no

Properties

Examples

Value
partial

Identifier and Mapping Information

Schema Source

  • from schema: https://codebase.helmholtz.cloud/nfdi4immuno/portal-infra/metadata_schema

Mappings

Mapping Type Mapped Value
self nfdi4immuno:complete_sequences
native nfdi4immuno:complete_sequences

LinkML Source

name: complete_sequences
description: 'To be considered `complete`, the procedure used for library construction
  MUST generate sequences that 1) include the first V gene codon that encodes the
  mature polypeptide chain (i.e. after the leader sequence) and 2) include the last
  complete codon of the J gene (i.e. 1 bp 5'' of the J->C splice site) and 3) provide
  sequence information for all positions between 1) and 2). To be considered `complete
  & untemplated`, the sections of the sequences defined in points 1) to 3) of the
  previous sentence MUST be untemplated, i.e. MUST NOT overlap with the primers used
  in library preparation. `mixed` should only be used if the procedure used for library
  construction will likely produce multiple categories of sequences in the given experiment.

  '
title: Complete sequences
examples:
- value: partial
  description: Sequences are partial and do not meet the criteria for complete sequences.
from_schema: https://codebase.helmholtz.cloud/nfdi4immuno/portal-infra/metadata_schema
rank: 1000
alias: complete_sequences
domain_of:
- NucleicAcidProcessing
range: CompleteSequences
required: true
pattern: ^.+$