Centrosome & Scaffolding

Gene co-expression module in Innate lymphoid cells

View this module in SCUBA

Why this annotation

This module has moderate coherence with mostly weak membership scores and uniform expression across subsets. Hub genes include PPCS (phosphopantothenate biosynthesis), RSF1 (chromatin remodeling), PDCD4 (translation inhibitor/tumor suppressor), APPL1 (endosomal signaling adaptor), PPP1R12A (myosin phosphatase regulatory subunit), PCM1 (pericentriolar material), AKAP9 (centrosome scaffold), WASF2 (actin cytoskeleton/WAVE complex), REST (transcriptional repressor), GOPC (Golgi-associated), STUB1 (E3 ubiquitin ligase/chaperone), LRBA (vesicle trafficking). The combination of centrosomal (PCM1, AKAP9, CCDC91), cytoskeletal (WASF2, PPP1R12A), and chromatin/transcriptional regulators (RSF1, REST) with weak/moderate membership suggests a loosely co-regulated housekeeping/cell maintenance program. The low expression, uniform distribution, and moderate coherence point to a general cellular homeostasis program rather than a specific NK effector function. Neighbor context: similar to M11 and M16 in being broadly expressed maintenance modules. The centrosomal and scaffolding genes are the most coherent thread.

Genes

AKAP9, APPL1, ARID4A, CCDC91, CPNE3, ETNK1, FAM204A, GOPC, LRBA, PCM1, PDCD4, PPCS, PPP1R12A, REST, RNMT, RSF1, RSRP1, SNRNP70, SPN, STUB1, USP47, WASF2, YIPF5

Most correlated modules

• Innate Immune Activation · correlation 0.92
• RNA Chromatin Regulation · correlation 0.90
• NK JAK3 Signaling · correlation 0.90
• Endosomal Trafficking · correlation 0.90
• Actin Cytoskeleton Dynamics · correlation 0.88
• Golgi RNA Processing · correlation 0.88
• Innate Stress Signaling · correlation 0.87
• NK Cytotoxic Regulation · correlation 0.86

Module annotations were drafted by a large language model from the module's genes, then reviewed and approved by a domain expert. See sources & licences.