Class: MsProtein

URI: img_proteome:MsProtein

classDiagram class MsProtein click MsProtein href "../MsProtein/" MsProtein : description MsProtein : end_coord MsProtein : experiment MsProtein --> "0..1" MsExperiment : experiment click MsExperiment href "../MsExperiment/" MsProtein : locus_tag MsProtein : mol_wt MsProtein : notes MsProtein : nsaf_score MsProtein : pep_nonuniq_cnt MsProtein : pep_tot_cnt MsProtein : pep_uniq_cnt MsProtein : pi MsProtein : prot_seq_length MsProtein : protein_acc_id MsProtein : protein_oid MsProtein : protein_seq MsProtein : protein_source_id MsProtein : sample MsProtein : score MsProtein : search_db MsProtein : search_engine MsProtein : seq_coverage MsProtein : spec_tot_cnt MsProtein : spec_uniq_cnt MsProtein : start_coord MsProtein : threshold

Slots

Name	Cardinality and Range	Description	Inheritance
protein_oid	0..1 Integer		direct
protein_source_id	0..1 String		direct
protein_acc_id	0..1 String		direct
search_engine	0..1 String		direct
search_db	0..1 String		direct
score	0..1 Float		direct
threshold	0..1 Float		direct
seq_coverage	0..1 Float		direct
pep_uniq_cnt	0..1 Integer		direct
pep_nonuniq_cnt	0..1 Integer		direct
pep_tot_cnt	0..1 Integer		direct
spec_uniq_cnt	0..1 Integer		direct
spec_tot_cnt	0..1 Integer		direct
nsaf_score	0..1 Float		direct
experiment	0..1 MsExperiment	Foreign key to ms_experiment	direct
sample	0..1 Integer		direct
protein_seq	0..1 String		direct
locus_tag	0..1 String		direct
start_coord	0..1 Integer		direct
end_coord	0..1 Integer		direct
prot_seq_length	0..1 Integer		direct
mol_wt	0..1 Float		direct
pi	0..1 Float		direct
description	0..1 String		direct
notes	0..1 String		direct

Usages

used by	used in	type	used
MsPeptide	protein	range	MsProtein
MsProteinImgGenes	protein_oid	range	MsProtein

Identifier and Mapping Information

Schema Source

from schema: https://w3id.org/jgi/img_proteome

Mappings

Mapping Type	Mapped Value
self	img_proteome:MsProtein
native	img_proteome:MsProtein

LinkML Source

Direct

name: ms_protein
from_schema: https://w3id.org/jgi/img_proteome
attributes:
  protein_oid:
    name: protein_oid
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    domain_of:
    - ms_protein
    - ms_protein_img_genes
    - ms_protein_img_genes_old
    - ms_protein_old
    range: integer
    required: false
  protein_source_id:
    name: protein_source_id
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    domain_of:
    - ms_protein
    - ms_protein_old
    range: string
    required: false
  protein_acc_id:
    name: protein_acc_id
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    domain_of:
    - ms_protein
    - ms_protein_old
    range: string
    required: false
  search_engine:
    name: search_engine
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    domain_of:
    - ms_protein
    - ms_protein_old
    range: string
    required: false
  search_db:
    name: search_db
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    domain_of:
    - ms_protein
    - ms_protein_old
    range: string
    required: false
  score:
    name: score
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    domain_of:
    - ms_protein
    - ms_protein_old
    range: float
    required: false
  threshold:
    name: threshold
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    domain_of:
    - ms_protein
    - ms_protein_old
    range: float
    required: false
  seq_coverage:
    name: seq_coverage
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    domain_of:
    - ms_protein
    - ms_protein_old
    range: float
    required: false
  pep_uniq_cnt:
    name: pep_uniq_cnt
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    domain_of:
    - ms_protein
    - ms_protein_old
    range: integer
    required: false
  pep_nonuniq_cnt:
    name: pep_nonuniq_cnt
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    domain_of:
    - ms_protein
    - ms_protein_old
    range: integer
    required: false
  pep_tot_cnt:
    name: pep_tot_cnt
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    domain_of:
    - ms_protein
    - ms_protein_old
    range: integer
    required: false
  spec_uniq_cnt:
    name: spec_uniq_cnt
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    domain_of:
    - ms_protein
    - ms_protein_old
    range: integer
    required: false
  spec_tot_cnt:
    name: spec_tot_cnt
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    domain_of:
    - ms_protein
    - ms_protein_old
    range: integer
    required: false
  nsaf_score:
    name: nsaf_score
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    domain_of:
    - ms_protein
    - ms_protein_old
    range: float
    required: false
  experiment:
    name: experiment
    description: Foreign key to ms_experiment
    from_schema: https://w3id.org/jgi/img_proteome
    domain_of:
    - ms_peptide
    - ms_peptide_old
    - ms_protein
    - ms_protein_old
    - ms_sample
    range: ms_experiment
    required: false
  sample:
    name: sample
    from_schema: https://w3id.org/jgi/img_proteome
    domain_of:
    - ms_peptide
    - ms_peptide_old
    - ms_protein
    - ms_protein_old
    range: integer
    required: false
  protein_seq:
    name: protein_seq
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    domain_of:
    - ms_protein
    - ms_protein_old
    range: string
    required: false
  locus_tag:
    name: locus_tag
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    domain_of:
    - ms_protein
    - ms_protein_old
    range: string
    required: false
  start_coord:
    name: start_coord
    from_schema: https://w3id.org/jgi/img_proteome
    domain_of:
    - ms_peptide
    - ms_peptide_old
    - ms_protein
    - ms_protein_img_genes
    - ms_protein_img_genes_old
    - ms_protein_old
    range: integer
    required: false
  end_coord:
    name: end_coord
    from_schema: https://w3id.org/jgi/img_proteome
    domain_of:
    - ms_peptide
    - ms_peptide_old
    - ms_protein
    - ms_protein_img_genes
    - ms_protein_img_genes_old
    - ms_protein_old
    range: integer
    required: false
  prot_seq_length:
    name: prot_seq_length
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    domain_of:
    - ms_protein
    - ms_protein_old
    range: integer
    required: false
  mol_wt:
    name: mol_wt
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    domain_of:
    - ms_protein
    - ms_protein_old
    range: float
    required: false
  pi:
    name: pi
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    domain_of:
    - ms_protein
    - ms_protein_old
    range: float
    required: false
  description:
    name: description
    from_schema: https://w3id.org/jgi/img_proteome
    domain_of:
    - ms_experiment
    - ms_protein
    - ms_protein_old
    - ms_sample
    range: string
    required: false
  notes:
    name: notes
    from_schema: https://w3id.org/jgi/img_proteome
    domain_of:
    - ms_experiment
    - ms_peptide
    - ms_peptide_old
    - ms_protein
    - ms_protein_old
    range: string
    required: false

Induced

name: ms_protein
from_schema: https://w3id.org/jgi/img_proteome
attributes:
  protein_oid:
    name: protein_oid
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    alias: protein_oid
    owner: ms_protein
    domain_of:
    - ms_protein
    - ms_protein_img_genes
    - ms_protein_img_genes_old
    - ms_protein_old
    range: integer
    required: false
  protein_source_id:
    name: protein_source_id
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    alias: protein_source_id
    owner: ms_protein
    domain_of:
    - ms_protein
    - ms_protein_old
    range: string
    required: false
  protein_acc_id:
    name: protein_acc_id
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    alias: protein_acc_id
    owner: ms_protein
    domain_of:
    - ms_protein
    - ms_protein_old
    range: string
    required: false
  search_engine:
    name: search_engine
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    alias: search_engine
    owner: ms_protein
    domain_of:
    - ms_protein
    - ms_protein_old
    range: string
    required: false
  search_db:
    name: search_db
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    alias: search_db
    owner: ms_protein
    domain_of:
    - ms_protein
    - ms_protein_old
    range: string
    required: false
  score:
    name: score
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    alias: score
    owner: ms_protein
    domain_of:
    - ms_protein
    - ms_protein_old
    range: float
    required: false
  threshold:
    name: threshold
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    alias: threshold
    owner: ms_protein
    domain_of:
    - ms_protein
    - ms_protein_old
    range: float
    required: false
  seq_coverage:
    name: seq_coverage
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    alias: seq_coverage
    owner: ms_protein
    domain_of:
    - ms_protein
    - ms_protein_old
    range: float
    required: false
  pep_uniq_cnt:
    name: pep_uniq_cnt
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    alias: pep_uniq_cnt
    owner: ms_protein
    domain_of:
    - ms_protein
    - ms_protein_old
    range: integer
    required: false
  pep_nonuniq_cnt:
    name: pep_nonuniq_cnt
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    alias: pep_nonuniq_cnt
    owner: ms_protein
    domain_of:
    - ms_protein
    - ms_protein_old
    range: integer
    required: false
  pep_tot_cnt:
    name: pep_tot_cnt
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    alias: pep_tot_cnt
    owner: ms_protein
    domain_of:
    - ms_protein
    - ms_protein_old
    range: integer
    required: false
  spec_uniq_cnt:
    name: spec_uniq_cnt
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    alias: spec_uniq_cnt
    owner: ms_protein
    domain_of:
    - ms_protein
    - ms_protein_old
    range: integer
    required: false
  spec_tot_cnt:
    name: spec_tot_cnt
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    alias: spec_tot_cnt
    owner: ms_protein
    domain_of:
    - ms_protein
    - ms_protein_old
    range: integer
    required: false
  nsaf_score:
    name: nsaf_score
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    alias: nsaf_score
    owner: ms_protein
    domain_of:
    - ms_protein
    - ms_protein_old
    range: float
    required: false
  experiment:
    name: experiment
    description: Foreign key to ms_experiment
    from_schema: https://w3id.org/jgi/img_proteome
    alias: experiment
    owner: ms_protein
    domain_of:
    - ms_peptide
    - ms_peptide_old
    - ms_protein
    - ms_protein_old
    - ms_sample
    range: ms_experiment
    required: false
  sample:
    name: sample
    from_schema: https://w3id.org/jgi/img_proteome
    alias: sample
    owner: ms_protein
    domain_of:
    - ms_peptide
    - ms_peptide_old
    - ms_protein
    - ms_protein_old
    range: integer
    required: false
  protein_seq:
    name: protein_seq
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    alias: protein_seq
    owner: ms_protein
    domain_of:
    - ms_protein
    - ms_protein_old
    range: string
    required: false
  locus_tag:
    name: locus_tag
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    alias: locus_tag
    owner: ms_protein
    domain_of:
    - ms_protein
    - ms_protein_old
    range: string
    required: false
  start_coord:
    name: start_coord
    from_schema: https://w3id.org/jgi/img_proteome
    alias: start_coord
    owner: ms_protein
    domain_of:
    - ms_peptide
    - ms_peptide_old
    - ms_protein
    - ms_protein_img_genes
    - ms_protein_img_genes_old
    - ms_protein_old
    range: integer
    required: false
  end_coord:
    name: end_coord
    from_schema: https://w3id.org/jgi/img_proteome
    alias: end_coord
    owner: ms_protein
    domain_of:
    - ms_peptide
    - ms_peptide_old
    - ms_protein
    - ms_protein_img_genes
    - ms_protein_img_genes_old
    - ms_protein_old
    range: integer
    required: false
  prot_seq_length:
    name: prot_seq_length
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    alias: prot_seq_length
    owner: ms_protein
    domain_of:
    - ms_protein
    - ms_protein_old
    range: integer
    required: false
  mol_wt:
    name: mol_wt
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    alias: mol_wt
    owner: ms_protein
    domain_of:
    - ms_protein
    - ms_protein_old
    range: float
    required: false
  pi:
    name: pi
    from_schema: https://w3id.org/jgi/img_proteome
    rank: 1000
    alias: pi
    owner: ms_protein
    domain_of:
    - ms_protein
    - ms_protein_old
    range: float
    required: false
  description:
    name: description
    from_schema: https://w3id.org/jgi/img_proteome
    alias: description
    owner: ms_protein
    domain_of:
    - ms_experiment
    - ms_protein
    - ms_protein_old
    - ms_sample
    range: string
    required: false
  notes:
    name: notes
    from_schema: https://w3id.org/jgi/img_proteome
    alias: notes
    owner: ms_protein
    domain_of:
    - ms_experiment
    - ms_peptide
    - ms_peptide_old
    - ms_protein
    - ms_protein_old
    range: string
    required: false