The Spindle Inventory (SpI) database was developed by researchers at Princeton University to provide a consolidated
resource containing information on proteins involved in mitotic spindle assembly, identified by the MitoCheck Consortium and extracted from the literature.
SpI links together information from NCBI, UniProt,
Ensembl, MitoCheck,
OMIM, BRENDA, GO,
BioGRID, and Xenbase. In addition, supplementary notes are provided on proteins
of particular interest to the Petry Lab at Princeton University, where research is focused on understanding the molecular
architecture and function of the microtubule cytoskeleton. More information on how to navigate this resource is provided
below. For additional questions not addressed on this page, please contact bgouveia@princeton.edu.
The Spindle Assembly Proteins table may be accessed via the top left menu option in the blue SpI banner, or through the
Proteins link in the navigation bar at the top of the page. The Spindle Assembly Proteins table lists
the protein names, NCBI Gene IDs (linked to individual
NCBI pages), and UniProt IDs (linked to individual UniProt pages),
as well as brief summaries for information on protein function, phenotypes from dsRNA studies performed by the MitoCheck
Consortium, involvement in disease, and tissue/cell type and cellular localization. The Protein, Gene ID, UniProt ID, and
Organism columns can be sorted alphabetically/numerically by clicking the arrows next to the the column titles. Each column
can also be filtered by entering search terms in the white text boxes under the column headers. In order to access more detailed
information on each protein, users have the option to click on the protein names to view individual Protein Summary pages.
Additionally, all information may be downloaded for the entire protein set or for filtered subsets using the Download button
at the top of the page.
The set of Spindle Assembly Proteins included in SpI originally came from a list of cell division genes identified by the
MitoCheck Consortium. From this initial list of 572 mitotic hits,
genes confirmed to be valid targets of the dsRNA sequences originally used in the MitoCheck study were selected to be included in SpI.
Of these, only genes with well-documented entries in NCBI,
UniProt, and Ensembl
were included in the SpI database. This resulted in a final list of 566 Spindle Assembly Proteins with entries in SpI.
At the top of the Protein Summary page, the protein symbol and organism are listed, as well as UniProt ID,
NCBI ID, BRENDA
EC ID, current Ensembl ID, and
Ensembl 89 ID (used to identify genes on
MitoCheck).
The table below contains additional information for the protein of interest,
including the following topics: function, phenotypes from the dsRNA study performed by MitoCheck, diseases,
localization, tissues/cell types, protein and genetic interactions, isoforms, orthologs, and notes. The notes section contains supplemental
information from the Petry Lab on proteins that the lab studies
in depth.
The annotations listed under each category in the table are linked to the original source(s) of the data when relevant, including links to
PubMed, UniProt,
MitoCheck, OMIM,
GO, BRENDA,
BioGRID, Xenbase, and
NCBI. All annotations extracted from other resources were converted into
standardized ontological terms including OMIM (disease),
BRENDA tissue ontology (tissues, cell types), and
GO cellular component (cellular localization) where applicable.
More detailed references are provided in the download files, which can be obtained either for individual proteins or for sets of proteins using the
blue Download Annotations button at the top of the Spindle Assembly Proteins and Protein Summary pages.
