Available genes in JUMP

Is my gene of interest in JUMP or other associated datasets? We provide a tutorial with details.

The number in the table indicates how many copies are present (it is mostly 0’s and 1’s, but there are some genes that correspond to multiple JUMP ids). Note that the JUMP columns include all available genes, whereas for PERISCOPE (A549, Hela_X) include only hits (statistically significant perturbations). The Lacoste dataset contains all entries.

This table was generated using this script.

Knock-out (CRISPR) datasets: CRISPR (from JUMP), A549 and Hela_X (from PERISCOPE).
Overexpression (ORF) datasets: ORF (from JUMP), Lacoste.

Code

import polars as pl
import pooch
from itables import show

logger = pooch.get_logger()
logger.setLevel("WARNING")
df = pl.read_csv(
    pooch.retrieve(
        f"https://zenodo.org/api/records/16883068/files/table.csv/content",
        known_hash="40f12b266d632d8593b29c4a327cd82cffc36ad354e92815bf77e6d2f5008ec7",
    )
)
show(df, maxBytes=0)

Loading ITables v2.4.0 from the internet... (need help?)

Other Formats