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Using the FIND command in the NIF search box

NIF has a number of curators, domain specialists who take the time to inspect, validate and annotate the information resources that are made available to users. Through their annotation they use their domain knowledge to assert information about the tables and columns of each resource. The FIND command (you can use any case) allows a user to restrict their data federation search to resources that have been annotated to some special categories. We illustrate its use through several examples.

  1. find:gene Alzheimer’s (locates all resources that are annotated by the category (or concept) “gene” and within those resources searches for the term “Alzheimer’s”)
  2. find:protocol * reports all (* means all) resources that have been annotated with the concept “protocol”

Currently, the special categories for the FIND command (note that the command is case insensitive) are as follows.

Cell (find:cell mouse)

Disease (find:disease lymphocyte)

Function (find:function kinase)

Organism (find:organism antigen)

Phenotype (find:phenotype Fox)

Resource (find:resource microscope)

Anatomy (find:anatomy imaging)

Molecule (find:molecule influenza)

Protocol (find:protocol nlx_inv_090912) – a NIF term ID can be directly used.. nlx_inv_090912 is the ID for MRI

Gene

Identifier

Publication

Specimen

Antibody

Sequence

Interaction

Pathway

Coordinate

Environment

Strain

Genotype

Stage

FullText

CatalogNumber

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