Question
In the paired FASTQs deleterious.mutation.q1.R1.fq.gz and deleterious.mutation.q1.R2.fq.gz (exome 2×150 bp, reads from human chr9 only), there is one gene that harbors a high-confidence homozygous nonsense SNV for a gene that is highly LoF-intolerant. Report the HGNC gene symbol (uppercase) for that gene.
- Predicted answer
STXBP1Most likely answer for this question; not uniquely determined from submitted scores.
- Domain
- Genomics
- Question style
- Routine Analysis
An answer can be uniquely inferred for 54 of 100 questions from submitted scores. Green: correct · Red: incorrect. For questions without a uniquely determined answer: Blue: matches prediction · Orange: differs from prediction. These are inferred answer checks, not official per-question grades.
Galaxy
12/12 terminal item results
UDT = user-defined tool: custom code executed by Galaxy. Route badges summarize analysis tools, excluding uploads and automatic conversions. How usage is counted.
Codex GPT-5.5
3 replicates
Codex GPT-5.5
Replicate 1
Matches predictionStandard tools only
AnswerSTXBP1
WorkflowGalaxy dataset inspection
Codex GPT-5.5
Replicate 2
Matches predictionUDT-only
AnswerSTXBP1
WorkflowSamtools→BCFtools→Bedtools→BWA-MEM→Minimap2→2 more tools
- Total tokens
- 1.0M
- Output
- 14.7K
Codex GPT-5.5
Replicate 3
Matches predictionUDT + standard tools
AnswerSTXBP1
WorkflowBwa Mem→Samtools Flagstat→Samtools Idxstats→Bcftools Mpileup→Bcftools Call→8 more tools
- Total tokens
- 4.1M
- Output
- 20.8K
Codex GPT-5.6 Sol
3 replicates
Codex GPT-5.6 Sol
Replicate 1
Matches predictionUDT + standard tools
AnswerSTXBP1
WorkflowBwa Mem→Samtools Flagstat→Freebayes→Snpeff Download→Snpeff Databases→3 more tools
- Total tokens
- 2.7M
- Output
- 9.3K
Codex GPT-5.6 Sol
Replicate 2
Matches predictionStandard tools only
AnswerSTXBP1
WorkflowFastqc→Bwa Mem→Samtools Flagstat→Freebayes→Bcftools Filter→4 more tools
- Total tokens
- 11.5M
- Output
- 14.9K
Codex GPT-5.6 Sol
Replicate 3
Matches predictionUDT + standard tools
AnswerSTXBP1
WorkflowBwa Mem→Samtools Stats→Grep→Freebayes→Tp Head Tool→5 more tools
- Total tokens
- 6.6M
- Output
- 13.9K
Codex + DeepSeek-v4-pro-0813
3 replicates
Codex + DeepSeek-v4-pro-0813
Replicate 1
Matches predictionStandard tools only
AnswerSTXBP1
WorkflowBwa Mem→Samtools Idxstats→Freebayes→Bcftools Query→Bcftools Stats→3 more tools
- Total tokens
- 4.1M
- Output
- 17.0K
Codex + DeepSeek-v4-pro-0813
Replicate 2
Matches predictionStandard tools only
AnswerSTXBP1
WorkflowBwa Mem→Samtools Idxstats→Freebayes→Picard Addorreplacereadgroups→Snpeff Databases→5 more tools
- Total tokens
- 4.1M
- Output
- 17.5K
Codex + DeepSeek-v4-pro-0813
Replicate 3
Matches predictionStandard tools only
AnswerSTXBP1
WorkflowBwa Mem→Samtools Sort→Freebayes→Snpeff Databases→Snpeff→1 more tools
- Total tokens
- 3.6M
- Output
- 15.6K
Codex GPT-5.6 Luna
3 replicates
Codex GPT-5.6 Luna
Replicate 1
Matches predictionStandard tools only
AnswerSTXBP1
WorkflowFastqc→Bwa Mem→Fastq Paired End Interlacer→Samtools Flagstat→Samtools Idxstats
- Total tokens
- 31.5M
- Output
- 65.1K
Codex GPT-5.6 Luna
Replicate 2
Matches predictionStandard tools only
AnswerSTXBP1
WorkflowBwa Mem2→Samtools Stats→Samtools Flagstat→Samtools Idxstats→Bcftools Mpileup→6 more tools
- Total tokens
- 8.7M
- Output
- 23.6K
Codex GPT-5.6 Luna
Replicate 3
Matches predictionStandard tools only
AnswerSTXBP1
WorkflowBwa Mem→Samtools Flagstat→Bcftools Mpileup→Bcftools Call→Snpeff→2 more tools
- Total tokens
- 6.7M
- Output
- 25.3K