Methotrexate

Across CCLE and GDSC cell-line panels, response to Methotrexate is significantly associated with the shRNA pathway dependency of multiple pathways, with URINARY_TRACT cell lines showing a particularly strong set of associations.

The most reproducible Methotrexate response-associated pathways across cancer lineages are Regulation of monocyte extravasation, Mitochondrial respiratory chain complex IV assembly, and Cytoskeleton-dependent cytokinesis, each associated with drug response in up to 8 lineages. Since the analysis identifies associations rather than directional relationships, both response-to-biomarker and biomarker-to-response views are provided.

Each biomarker is linked to its corresponding Q-omics profile. The scatter plot shows the strongest observed association, Methotrexate response versus Regulation of monocyte extravasation shRNA pathway dependency in URINARY_TRACT (Pearson r = -0.55).

Shrna pathway dependency biomarkers of Methotrexate response

Ranked by combined sampling and lineage consensus. X-score (response→biomarker) and Y-score (biomarker→response) are standardized regression coefficients; both directions are reported because the association is undirected. The reported p-values are derived from the association test.

Lineage	Partner pathway	X-score	Y-score	p(X)	p(Y)	Sampling consensus	Lineage consensus
URINARY_TRACT	Regulation of monocyte extravasation →	-1.493	-1.261	.009	.038	3	7
OVARY	Mitochondrial respiratory chain complex IV assembly →	+1.040	+1.496	.002	<.001	3	7
UPPER_AERODIGESTIVE_TRACT	Cytoskeleton-dependent cytokinesis →	-0.204	-1.183	.017	.004	3	7
LUNG_NSCLC_LUSC	Regulation of telomeric loop disassembly →	-1.028	-0.867	.020	.019	3	7
SKIN	Response to amyloid-beta →	+0.788	+1.190	.002	<.001	3	7
LARGE_INTESTINE	Pyramidal neuron development →	+0.239	+0.825	.027	.020	3	7

Each biomarker links to its Q-omics profile. Showing the 6 strongest associations by consensus.

Methotrexate response vs Regulation of monocyte extravasation — URINARY_TRACT

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