warf-1
C. elegans
ADP-ribosylation factor 1-like 1
What the model saw
Gene: warf-1 Organism: Caenorhabditis elegans Known functions: ADP-ribosylation factor 1-like 1. G protein activity. GTP binding. GTPase activity.
View unredacted entry
ADP-ribosylation factor 1-like 1. G protein activity. GTP binding. GTPase activity.
Solver output
warf-1 encodes an ADP-ribosylation factor (ARF) 1-like GTPase, a small G protein that cycles between GDP-bound (inactive) and GTP-bound (active) states. ARF1 family members are canonically involved in vesicle coat assembly (COPI) and Golgi trafficking, regulating intracellular membrane dynamics and secretory pathway fidelity. While proper vesicular trafficking is essential for proteostasis and intercellular signaling, ARF GTPases do not map cleanly to a single pro- or anti-longevity axis in C. elegans; their role depends heavily on which trafficking routes and downstream effectors are engaged. No strong evidence from C. elegans aging studies directly links warf-1 to lifespan extension or reduction, and the molecular function annotations alone (G protein/GTPase/GTP binding) are insufficiently specific to resolve the directionality of its longevity influence.
GenAge curators classify each gene's normal function as promoting (Pro-Longevity) or opposing (Anti-Longevity) longevity, based on synthesis across studies. Loss-of-function effects can vary from this depending on the manipulation.
Advisor judgment
The model predicted "unclear" with low confidence (0.38), while the ground truth is "anti_longevity." The model's reasoning about ARF1/COPI vesicle trafficking is plausible but doesn't connect to any specific anti-longevity mechanism. The model correctly identified the molecular function but failed to commit to a direction. The mechanism class "altered_intercellular_communication" is a reasonable but not clearly correct assignment for an ARF GTPase involved in vesicle trafficking. The model's uncertainty was somewhat appropriate given limited direct evidence, but it still missed the correct answer.
Raw API responses
solver
{
"reasoning": "warf-1 encodes an ADP-ribosylation factor (ARF) 1-like GTPase, a small G protein that cycles between GDP-bound (inactive) and GTP-bound (active) states. ARF1 family members are canonically involved in vesicle coat assembly (COPI) and Golgi trafficking, regulating intracellular membrane dynamics and secretory pathway fidelity. While proper vesicular trafficking is essential for proteostasis and intercellular signaling, ARF GTPases do not map cleanly to a single pro- or anti-longevity axis in C. elegans; their role depends heavily on which trafficking routes and downstream effectors are engaged. No strong evidence from C. elegans aging studies directly links warf-1 to lifespan extension or reduction, and the molecular function annotations alone (G protein/GTPase/GTP binding) are insufficiently specific to resolve the directionality of its longevity influence.",
"confidence": 0.38,
"key_pathways": [
"ARF1-mediated COPI vesicle trafficking",
"Golgi secretory pathway",
"small GTPase signaling"
],
"mechanism_class": "altered_intercellular_communication",
"longevity_influence": "unclear"
}advisor
{
"notes": "The model predicted \"unclear\" with low confidence (0.38), while the ground truth is \"anti_longevity.\" The model's reasoning about ARF1/COPI vesicle trafficking is plausible but doesn't connect to any specific anti-longevity mechanism. The model correctly identified the molecular function but failed to commit to a direction. The mechanism class \"altered_intercellular_communication\" is a reasonable but not clearly correct assignment for an ARF GTPase involved in vesicle trafficking. The model's uncertainty was somewhat appropriate given limited direct evidence, but it still missed the correct answer.",
"failure_mode": "appropriately_uncertain",
"answer_correct": false,
"mechanism_correct": false,
"reasoning_quality": 2,
"ground_truth_questionable": false
}