lmn-1
C. elegans
Lamin-1
What the model saw
Gene: lmn-1 Organism: Caenorhabditis elegans Known functions: Lamin-1. histone binding. identical protein binding. protein binding. structural constituent of cytoskeleton. structural molecule activity.
View unredacted entry
Lamin-1. histone binding. identical protein binding. protein binding. structural constituent of cytoskeleton. structural molecule activity.
Solver output
lmn-1 encodes the sole C. elegans lamin (Lamin-1), a type V intermediate filament protein that forms the nuclear lamina. As a structural constituent of the nuclear envelope, it maintains nuclear architecture, tethers chromatin (consistent with its histone-binding activity), and supports DNA damage repair and genome integrity. Loss of nuclear lamina integrity—as seen in laminopathies and progeria—leads to accelerated genomic instability, heterochromatin loss, and premature aging phenotypes. In C. elegans, lmn-1 depletion causes nuclear morphology defects, impaired DNA damage response, and shortened lifespan, indicating that its normal function is required to sustain longevity. The histone-binding function further links it to epigenetic organization at the nuclear periphery, reinforcing its role in preserving genome and chromatin stability during aging.
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 correctly predicted pro_longevity for lmn-1 in C. elegans with high confidence (0.72). The mechanistic reasoning is well-grounded: lmn-1 encodes the sole C. elegans lamin, and the model correctly identifies its role in nuclear lamina integrity, chromatin tethering (consistent with histone-binding annotation), DNA damage response, and genome stability. The connection to laminopathies/progeria as analogous aging phenotypes is appropriate. The model correctly notes that lmn-1 depletion causes shortened lifespan, supporting the pro_longevity classification. The reasoning is detailed, accurate, and well-supported by the known biology of nuclear lamins in aging.
Raw API responses
solver
{
"reasoning": "lmn-1 encodes the sole C. elegans lamin (Lamin-1), a type V intermediate filament protein that forms the nuclear lamina. As a structural constituent of the nuclear envelope, it maintains nuclear architecture, tethers chromatin (consistent with its histone-binding activity), and supports DNA damage repair and genome integrity. Loss of nuclear lamina integrity—as seen in laminopathies and progeria—leads to accelerated genomic instability, heterochromatin loss, and premature aging phenotypes. In C. elegans, lmn-1 depletion causes nuclear morphology defects, impaired DNA damage response, and shortened lifespan, indicating that its normal function is required to sustain longevity. The histone-binding function further links it to epigenetic organization at the nuclear periphery, reinforcing its role in preserving genome and chromatin stability during aging.",
"confidence": 0.72,
"key_pathways": [
"nuclear lamina integrity and genome stability",
"heterochromatin tethering and epigenetic organization",
"DNA damage response"
],
"mechanism_class": "genomic_instability",
"longevity_influence": "pro_longevity"
}advisor
{
"notes": "The model correctly predicted pro_longevity for lmn-1 in C. elegans with high confidence (0.72). The mechanistic reasoning is well-grounded: lmn-1 encodes the sole C. elegans lamin, and the model correctly identifies its role in nuclear lamina integrity, chromatin tethering (consistent with histone-binding annotation), DNA damage response, and genome stability. The connection to laminopathies/progeria as analogous aging phenotypes is appropriate. The model correctly notes that lmn-1 depletion causes shortened lifespan, supporting the pro_longevity classification. The reasoning is detailed, accurate, and well-supported by the known biology of nuclear lamins in aging.",
"failure_mode": "correct",
"answer_correct": true,
"mechanism_correct": true,
"reasoning_quality": 5,
"ground_truth_questionable": false
}