Question
characterize.response.q1.txt contains an ordered list of differentially regulated genes in one direction (decreasing abs log-fold change, all sharing the same sign) in a specific immune cell type in response to a specific condition. Which condition, cell type pair from the following options most specifically describes this gene set. Conditions: a. stimulation by lipopolysaccharide (LPS), b. exhaustion, c. stimulation by cytokine LIF, d. stimulation by cytokine IL-39, e. COVID-19, f. sepsis, g. Med12 knockout, h. systemic lupus erythematosus, i. treatment with BMS-34554, j. treatment with aldesleukin, k. aging, l. rheumatoid arthritis. Cell types: i. monocytes, ii. CD8 T cells, iii. CD4 T cells, iv. B cells, v. dendritic cells, vi. NK cells, vii. Neutrophils. Respond in the format d;ii.
- Inferred answer
c;vUniquely inferred from submitted scores.
- Domain
- Transcriptomics
- Question style
- Metadata Recovery
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
Answerc;v
WorkflowShow Beginning1→Gene set overlap check CUI CDC2 LIF→Gene set overlap check CUI CDC2 LIF v2
Codex GPT-5.5
Replicate 2
CorrectStandard tools only
Answerc;v
- Total tokens
- 338.2K
- Output
- 4.6K
Codex GPT-5.5
Replicate 3
CorrectUDT + standard tools
Answerc;v
WorkflowCharacterize Q1 MSigDB Check→UDT Path Syntax Probe→UDT Path Syntax Probe Qualified→UDT Path Syntax Probe Project Image→Comp1
- Total tokens
- 1.6M
- Output
- 11.7K
Codex GPT-5.6 Sol
3 replicates
Codex GPT-5.6 Sol
Replicate 1
CorrectStandard tools only
Answerc;v
WorkflowGseapy Enrichr→Tp Head Tool→Datamash Transpose→Comp1
Codex GPT-5.6 Sol
Replicate 2
CorrectUDT + standard tools
Answerc;v
WorkflowTp Head Tool→Show Tail1→Gseapy Enrichr→Inspect Immune Dictionary XLSX→Match Immune Dictionary Signature
- Total tokens
- 4.7M
- Output
- 14.0K
Codex GPT-5.6 Sol
Replicate 3
CorrectUDT + standard tools
Answerc;v
WorkflowInspect ranked genes Q1→Xlsx2Tsv→Match ranked cytokine signature→Cat Multi Datasets→Match ranked cytokine signature all candidate cells→1 more tools
- Total tokens
- 16.4M
- Output
- 20.2K
Codex + DeepSeek-v4-pro-0813
3 replicates
Codex + DeepSeek-v4-pro-0813
Replicate 1
IncorrectStandard tools only
Answera;i
- Total tokens
- 14.0M
- Output
- 50.1K
Codex + DeepSeek-v4-pro-0813
Replicate 2
IncorrectStandard tools only
Answera;i
- Total tokens
- 5.3M
- Output
- 32.0K
Codex + DeepSeek-v4-pro-0813
Replicate 3
IncorrectStandard tools only
Answera;i
- Total tokens
- 13.8M
- Output
- 82.9K
Codex GPT-5.6 Luna
3 replicates
Codex GPT-5.6 Luna
Replicate 1
IncorrectStandard tools only
Answera;i
WorkflowShow Beginning1→Gseapy Enrichr→Filter Tabular
- Total tokens
- 10.4M
- Output
- 49.3K
Codex GPT-5.6 Luna
Replicate 2
IncorrectStandard tools only
Answera;i
WorkflowTp Head Tool→Hgv Linktogprofile→Gseapy Enrichr→Filter Tabular
Codex GPT-5.6 Luna
Replicate 3
IncorrectStandard tools only
Answerf;iii
WorkflowSelect columns→Gprofiler Gost→Gseapy Enrichr→Filter Tabular
- Total tokens
- 12.7M
- Output
- 55.1K