Question
I have a bulk human RNA-seq fastq file cryptic.exon.q1.fq.gz. There is exactly one highly expressed coding gene that has a cryptic exon in it formed by two novel junctions. Report the HGNC gene symbol (uppercase) for that gene.
- Inferred answer
GNG10Uniquely inferred from submitted scores.
- Domain
- Transcriptomics
- Question style
- Synthetic/Augmented Data
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
CorrectUDT + standard tools
AnswerGNG10
WorkflowHisat2→Rna Star→Rank STAR junctions→Find cryptic exon junction pairs
Codex GPT-5.5
Replicate 2
CorrectUDT-only
AnswerGNG10
WorkflowFASTQ diagnostic→FASTQ diagnostic gzip-aware→Minimap2→Samtools→Bedtools→5 more tools
- Total tokens
- 1.3M
- Output
- 18.6K
Codex GPT-5.5
Replicate 3
CorrectUDT + standard tools
AnswerGNG10
WorkflowRna Star→Find cryptic exon gene→Find cryptic exon gene v2→Find cryptic exon gene v3→Find cryptic exon gene v4→6 more tools
- Total tokens
- 4.0M
- Output
- 19.9K
Codex GPT-5.6 Sol
3 replicates
Codex GPT-5.6 Sol
Replicate 1
CorrectUDT + standard tools
AnswerGNG10
WorkflowRna Star→Rank protein-coding cryptic exons
- Total tokens
- 2.7M
- Output
- 12.1K
Codex GPT-5.6 Sol
Replicate 2
CorrectUDT + standard tools
AnswerGNG10
WorkflowFastqc→Rna Star→Rank novel splice-junction exon pairs→Identify paired novel cryptic exons with GENCODE→Resolve overlapping cryptic-exon gene models
- Total tokens
- 6.7M
- Output
- 16.7K
Codex GPT-5.6 Sol
Replicate 3
CorrectUDT + standard tools
AnswerGNG10
WorkflowRna Star→Cryptic exon junction-pair scan→Novel junction cryptic-exon diagnostic→GTF-coordinate novel junction-pair scan→Filter Tabular
- Total tokens
- 12.2M
- Output
- 20.5K
Codex + DeepSeek-v4-pro-0813
3 replicates
Codex + DeepSeek-v4-pro-0813
Replicate 1
CorrectStandard tools only
AnswerGNG10
WorkflowNo Galaxy tool job recorded
- Total tokens
- 9.2M
- Output
- 29.0K
Codex + DeepSeek-v4-pro-0813
Replicate 2
IncorrectStandard tools only
AnswerCD74
WorkflowRna Star→Filter rows→Select columns→Converter Interval To Bedstrict 0→Converter Interval To Bed 0→6 more tools
- Total tokens
- 12.8M
- Output
- 45.8K
Codex + DeepSeek-v4-pro-0813
Replicate 3
IncorrectStandard tools only
AnswerUBC
WorkflowFastqc→Rna Star→Hisat2→Featurecounts→Filter Tabular→1 more tools
- Total tokens
- 23.4M
- Output
- 73.5K
Codex GPT-5.6 Luna
3 replicates
Codex GPT-5.6 Luna
Replicate 1
CorrectStandard tools only
AnswerGNG10
WorkflowHisat2→Upload1→Gtftobed12→Rseqc Junction Annotation→Sort rows→4 more tools
- Total tokens
- 15.3M
- Output
- 38.4K
Codex GPT-5.6 Luna
Replicate 2
CorrectStandard tools only
AnswerGNG10
WorkflowFastqc→Hisat2→Featurecounts→Gtftobed12→Rseqc Junction Annotation→6 more tools
- Total tokens
- 13.5M
- Output
- 37.1K
Codex GPT-5.6 Luna
Replicate 3
CorrectUDT + standard tools
AnswerGNG10
WorkflowFastq Info→Hisat2→Cryptic Junction Analyzer→UDT Render Probe→Stringtie→5 more tools
- Total tokens
- 15.1M
- Output
- 62.0K