(unnamed)
S. pombe
thiamine transporter
What the model saw
Gene: Organism: Schizosaccharomyces pombe Known functions: thiamine transporter. amino acid transmembrane transporter activity. gamma-aminobutyric acid transmembrane transporter activity. transmembrane transporter activity.
View unredacted entry
thiamine transporter. amino acid transmembrane transporter activity. gamma-aminobutyric acid transmembrane transporter activity. transmembrane transporter activity.
Solver output
This gene encodes a transmembrane transporter with activity toward thiamine (vitamin B1), amino acids, and GABA. Thiamine is an essential cofactor for key metabolic enzymes (pyruvate dehydrogenase, alpha-ketoglutarate dehydrogenase, transketolase) involved in energy metabolism and the TCA cycle; adequate thiamine import supports mitochondrial function and reduces oxidative stress. Amino acid transporter activity connects to nutrient sensing pathways (TORC1), where controlled amino acid availability modulates TOR signaling and promotes longevity through effects analogous to dietary restriction. GABA transport can modulate inhibitory signaling and has been linked to stress resistance in yeast. Together, the primary role in nutrient/cofactor import places this gene within the deregulated nutrient-sensing hallmark, where proper transporter function maintains metabolic homeostasis and supports lifespan extension.
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 pro_longevity but the ground truth is anti_longevity. The model's reasoning is speculative and generic - it assumes that a nutrient/cofactor transporter would support longevity by maintaining metabolic homeostasis, but the actual gene is anti-longevity in S. pombe. The model's logic about thiamine import supporting mitochondrial function and amino acid transport modulating TOR signaling is plausible in general but leads to the wrong conclusion here. The confidence of 0.55 is relatively low, but the model still committed to the wrong answer. The mechanistic reasoning is also incorrect since it doesn't account for how this transporter actually influences aging in S. pombe.
Raw API responses
solver
{
"reasoning": "This gene encodes a transmembrane transporter with activity toward thiamine (vitamin B1), amino acids, and GABA. Thiamine is an essential cofactor for key metabolic enzymes (pyruvate dehydrogenase, alpha-ketoglutarate dehydrogenase, transketolase) involved in energy metabolism and the TCA cycle; adequate thiamine import supports mitochondrial function and reduces oxidative stress. Amino acid transporter activity connects to nutrient sensing pathways (TORC1), where controlled amino acid availability modulates TOR signaling and promotes longevity through effects analogous to dietary restriction. GABA transport can modulate inhibitory signaling and has been linked to stress resistance in yeast. Together, the primary role in nutrient/cofactor import places this gene within the deregulated nutrient-sensing hallmark, where proper transporter function maintains metabolic homeostasis and supports lifespan extension.",
"confidence": 0.55,
"key_pathways": [
"thiamine/vitamin B1 metabolism and cofactor availability",
"TORC1 nutrient sensing via amino acid transport",
"GABA transmembrane transport and stress response"
],
"mechanism_class": "deregulated_nutrient_sensing",
"longevity_influence": "pro_longevity"
}advisor
{
"notes": "The model predicted pro_longevity but the ground truth is anti_longevity. The model's reasoning is speculative and generic - it assumes that a nutrient/cofactor transporter would support longevity by maintaining metabolic homeostasis, but the actual gene is anti-longevity in S. pombe. The model's logic about thiamine import supporting mitochondrial function and amino acid transport modulating TOR signaling is plausible in general but leads to the wrong conclusion here. The confidence of 0.55 is relatively low, but the model still committed to the wrong answer. The mechanistic reasoning is also incorrect since it doesn't account for how this transporter actually influences aging in S. pombe.",
"failure_mode": "confident_wrong",
"answer_correct": false,
"mechanism_correct": false,
"reasoning_quality": 2,
"ground_truth_questionable": false
}