data_annotations: Cell line annotations

In dwassarman/cellpanelr: Analyze Data from Cell Line Panels

Cell line annotations

Description

Function that returns cell line annotations for 1,829 cell lines. First call will download the data from DropBox and cache it in memory for subsequent calls.

Usage

data_annotations()

Format

A tibble with 1,829 rows and 15 columns. Each row represents a unique DepMap cell line.

depmap_id

Unique identifier of each cell line. Formatted ACH-######.

cell_line_name

Common name of cell line as entered in DepMap

stripped_cell_line_name

Capitalized alpha-numeric name of cell line. Frequently used for name matching.

sex

Sex of tissue donor if known.

source

Source of cell line vial used by DepMap

sample_collection_site

Tissue collection site

primary_or_metastasis

Indicated whether tissue sample is from primary or metastatic site.

primary_disease, Subtype

Cancer lineage categories

age

Age of tissue donor at time of sample collection, if known

lineage, lineage_subtype, lineage_sub_subtype, lineage_molecular_subtype

Cancer type classifications in a standardized from

culture_type

Cell line growth conditions

Source

DepMap (Broad Institute), release 22Q1: https://depmap.org/portal/

dwassarman/cellpanelr documentation built on Jan. 3, 2023, 8:27 a.m.