AI Consilium: a Benchmark of LLM Clinical Multidisciplinary Second Opinions
Organizations: AIRI, Moscow, Russian Federation · Northern State Medical University, Arkhangelsk, Russian Federation · Arkhangelsk Clinical Oncological Dispensary, Arkhangelsk, Russian Federation · Intelligent Radiology Assistance Laboratories LLC (IRA LABS), Moscow, Russian Federation ·
Abstract
Large language models (LLMs) can generate differential diagnoses for complex cases, but a useful second opinion must also be factually grounded, clinically coherent, actionable, and safe. We developed a multidimensional benchmark using 300 diagnostically resolved NEJM--MedQA cases: 110 for physician reference ratings and Judge calibration and 190 for held-out evaluation. Eight single-model pipelines generated independent role-specific opinions and interactive-consilium reports under free-form and structured clinical-reasoning conditions. A physician-calibrated LLM Judge evaluated 3,040 final reports and the corresponding structured primary-role outputs. Model identity separated report quality more strongly than response format. Structured final reports had higher overall mean scores in seven of eight model pipelines, with their clearest advantage in management (2.740 vs. 2.436). Compared with the structured pre-consilium primary-role opinion, the complete structured synthesis had higher pooled scores across all five shared criteria, with the largest increases in problem prioritization, factual grounding, and reasoning coherence. GPT-5.6-Sol led every evaluated component and reached consensus in the fewest review rounds. These findings show that the benchmark can distinguish model capability, the contribution of multidisciplinary synthesis, criterion-specific effects of response structure, deliberation dynamics, and inference requirements within one common-case evaluation.
Figures & tables
| No. | Criterion | Evaluation target |
|---|---|---|
| 1 | Factual Correctness and Source Grounding | Agreement of clinically material claims with the supplied case, without fabricated patient facts or consequential distortion. |
| 2 | Identification and Prioritization of Clinical Problems | Recognition of the principal and decision-relevant problems and their clinically justified ordering. |
| 3 | Completeness and Relevance of Data Use | Integration of supplied information that affects conclusions or management, without penalizing information absent from the input. |
| 4 | Coherence of Clinical Reasoning | Validity of links from confirmed facts to conclusions, including mechanisms, chronology, alternatives, and uncertainty. |
| 5 | Quality of the Differential Diagnosis | Relevance and prioritization of hypotheses, evidence for and against them, and concrete discriminating checks. |
| 6 | Quality of the Final Clinical Conclusion | Clarity, responsiveness, evidence grounding, agreement with the reference diagnosis, and calibration to uncertainty. |
| Characteristic | Annotation/Judge calibration | Held-out evaluation | SMD |
|---|---|---|---|
| Case records / patients | 110 / 110 | 190 / 191 | - |
| Age, median [IQR]; range, years | 44.0 [26.3–60.8]; 0–89 | 48.0 [29.0–64.5]; 0–84 | 0.107 |
| Younger than 18 years | 15/110 (13.6%) | 23/191 (12.0%) | 0.048 |
| 18–64 years | 76/110 (69.1%) | 120/191 (62.8%) | 0.132 |
| 65 years or older | 19/110 (17.3%) | 48/191 (25.1%) | 0.193 |
| Male | 59/110 (53.6%) | 105/191 (55.0%) | 0.027 |
| Model | Pipeline | R1 dissent, mean % | R1 unanimous, (%) | Mean rounds | Report consensus, (%) | No-change stop, (%) | Round-limit stop, (%) |
|---|---|---|---|---|---|---|---|
| DeepSeek-V4-Pro | Free-form | 29.7 | 58 (30.5%) | 1.77 | 189 (99.5%) | 1 (0.5%) | 0 (0.0%) |
| Structured | 7.5 | 144 (75.8%) | 1.27 | 189 (99.5%) | 1 (0.5%) | 0 (0.0%) | |
| Gemma-4-31B | Free-form | 20.4 | 110 (57.9%) | 1.44 | 190 (100.0%) | 0 (0.0%) | 0 (0.0%) |
| Structured | 30.9 | 87 (45.8%) | 1.56 | 190 (100.0%) | 0 (0.0%) | 0 (0.0%) | |
| GLM-5.2 | Free-form | 41.5 | 33 (17.4%) | 1.95 | 189 (99.5%) | 1 (0.5%) | 0 (0.0%) |
| Structured | 38.8 | 40 (21.1%) | 1.83 | 186 (97.9%) | 4 (2.1%) | 0 (0.0%) |
| Transition | R1 R2 | R2 R3 | R3 R4 | R4 R5 |
|---|---|---|---|---|
| no yes | 4,582 (83.1%) | 937 (79.9%) | 278 (66.0%) | 153 (62.4%) |
| no no | 932 (16.9%) | 235 (20.1%) | 143 (34.0%) | 92 (37.6%) |
| yes no | 246 (7.4%) | 194 (18.5%) | 109 (29.7%) | 31 (17.9%) |
| yes yes | 3,064 (92.6%) | 854 (81.5%) | 258 (70.3%) | 142 (82.1%) |
| Training re-evaluation MAE | Validation MAE | |||
|---|---|---|---|---|
| Criterion | Best initial | Best descendant | Best initial | Best descendant |
| 1 | ||||
| 2 | ||||
| 3 | ||||
| 4 | ||||
| 5 | ||||
| Model | Role reasoning Structured | Role clinical opinion Structured | Conclusion Free-form | Conclusion Structured |
|---|---|---|---|---|
| GPT-5.6-Sol | ||||
| GPT-OSS-120B | ||||
| DeepSeek-V4-Pro | ||||
| GLM-5.2 | ||||
| Qwen3.5-27B | ||||
| Qwen3-235B |
| Model | Format | Mean Judge score | Input tokens/case (thousands) | Output tokens/case (thousands) | Total tokens/case (thousands) |
|---|---|---|---|---|---|
| GPT-5.6-Sol | Free-form | 2.708 | 55.3 | 9.9 | 65.2 |
| Structured | 2.772 | 108.5 | 23.5 | 132.1 | |
| GPT-OSS-120B | Free-form | 2.543 | 164.9 | 42.3 | 207.2 |
| Structured | 2.569 | 163.8 | 45.5 | 209.3 | |
| DeepSeek-V4-Pro | Free-form | 2.514 | 84.5 | 14.0 | 98.4 |
| Structured | 2.526 | 87.0 | 17.0 | 103.9 |
| Criterion | Role reasoning Structured | Role clinical opinion Structured | Conclusion Free-form | Conclusion Structured |
|---|---|---|---|---|
| 1: Factual grounding | ||||
| 2: Problem prioritization | ||||
| 3: Data use | - | |||
| 4: Reasoning coherence | ||||
| 5: Differential diagnosis | - | |||
| 6: Clinical conclusion | - |
| Completed rounds | Outputs | C1–C8 output mean Mean population SD | Output mean No. (%) | C10 complexity Mean population SD |
|---|---|---|---|---|
| 1 | 1,214 | 2.525 0.326 | 62 (5.1) | 2.148 0.543 |
| 2 | 1,377 | 2.419 0.338 | 123 (8.9) | 2.131 0.537 |
| 3 | 449 | 2.438 0.330 | 33 (7.3) | 2.158 0.494 |
Appendix figures & tables28 assets
Supplementary material from the paper’s appendix.
Appendix
| Component | Format | Applicable criteria | No. of criteria | Opportunities per model |
|---|---|---|---|---|
| Role reasoning | Structured | 1, 2, 3, 4, 5, 7, 8 | 7 | 1330 |
| Role clinical opinion | Structured | 1, 2, 4, 6, 8 | 5 | 950 |
| Conclusion | Free-form | 1, 2, 3, 4, 5, 6, 7, 8 | 8 | 1520 |
| Conclusion | Structured | 1, 2, 3, 4, 5, 6, 7, 8 | 8 | 1520 |
| Model | Role reasoning Structured | Role clinical opinion Structured | Conclusion Free-form | Conclusion Structured |
|---|---|---|---|---|
| GPT-OSS-120B | 1330/1330 | 949/950 | 1498/1520 | 1491/1520 |
| Qwen3.5-27B | 1330/1330 | 950/950 | 1502/1520 | 1503/1520 |
| Qwen3-235B | 1330/1330 | 950/950 | 1513/1520 | 1509/1520 |
| Gemma-4-31B | 1330/1330 | 950/950 | 1418/1520 | 1503/1520 |
| Qwen3-Next-80B | 1330/1330 | 950/950 | 1501/1520 | 1500/1520 |
| GPT-5.6-Sol | 1330/1330 | 949/950 | 1518/1520 | 1519/1520 |
| Criterion | Role reasoning Structured | Role clinical opinion Structured | Conclusion Free-form | Conclusion Structured |
|---|---|---|---|---|
| 1: Factual grounding | 1520/1520 | 1520/1520 | 1520/1520 | 1520/1520 |
| 2: Problem prioritization | 1520/1520 | 1520/1520 | 1520/1520 | 1520/1520 |
| 3: Data use | 1520/1520 | - | 1520/1520 | 1520/1520 |
| 4: Reasoning coherence | 1520/1520 | 1518/1520 | 1520/1520 | 1520/1520 |
| 5: Differential diagnosis | 1520/1520 | - | 1480/1520 | 1518/1520 |
| 6: Clinical conclusion | - | 1520/1520 | 1355/1520 | 1387/1520 |
| Criterion | Role reasoning Structured | Role clinical opinion Structured | Conclusion Free-form | Conclusion Structured |
|---|---|---|---|---|
| 1: Factual grounding | ||||
| 2: Problem prioritization | ||||
| 3: Data use | - | |||
| 4: Reasoning coherence | ||||
| 5: Differential diagnosis | - | |||
| 6: Clinical conclusion | - |
| Criterion | Role reasoning Structured | Role clinical opinion Structured | Conclusion Free-form | Conclusion Structured |
|---|---|---|---|---|
| 1: Factual grounding | ||||
| 2: Problem prioritization | ||||
| 3: Data use | - | |||
| 4: Reasoning coherence | ||||
| 5: Differential diagnosis | - | |||
| 6: Clinical conclusion | - |
| Criterion | Role reasoning Structured | Role clinical opinion Structured | Conclusion Free-form | Conclusion Structured |
|---|---|---|---|---|
| 1: Factual grounding | ||||
| 2: Problem prioritization | ||||
| 3: Data use | - | |||
| 4: Reasoning coherence | ||||
| 5: Differential diagnosis | - | |||
| 6: Clinical conclusion | - |
| Criterion | Role reasoning Structured | Role clinical opinion Structured | Conclusion Free-form | Conclusion Structured |
|---|---|---|---|---|
| 1: Factual grounding | ||||
| 2: Problem prioritization | ||||
| 3: Data use | - | |||
| 4: Reasoning coherence | ||||
| 5: Differential diagnosis | - | |||
| 6: Clinical conclusion | - |
| Criterion | Role reasoning Structured | Role clinical opinion Structured | Conclusion Free-form | Conclusion Structured |
|---|---|---|---|---|
| 1: Factual grounding | ||||
| 2: Problem prioritization | ||||
| 3: Data use | - | |||
| 4: Reasoning coherence | ||||
| 5: Differential diagnosis | - | |||
| 6: Clinical conclusion | - |
| Criterion | Role reasoning Structured | Role clinical opinion Structured | Conclusion Free-form | Conclusion Structured |
|---|---|---|---|---|
| 1: Factual grounding | ||||
| 2: Problem prioritization | ||||
| 3: Data use | - | |||
| 4: Reasoning coherence | ||||
| 5: Differential diagnosis | - | |||
| 6: Clinical conclusion | - |
| Criterion | Role reasoning Structured | Role clinical opinion Structured | Conclusion Free-form | Conclusion Structured |
|---|---|---|---|---|
| 1: Factual grounding | ||||
| 2: Problem prioritization | ||||
| 3: Data use | - | |||
| 4: Reasoning coherence | ||||
| 5: Differential diagnosis | - | |||
| 6: Clinical conclusion | - |
| Criterion | Role reasoning Structured | Role clinical opinion Structured | Conclusion Free-form | Conclusion Structured |
|---|---|---|---|---|
| 1: Factual grounding | ||||
| 2: Problem prioritization | ||||
| 3: Data use | - | |||
| 4: Reasoning coherence | ||||
| 5: Differential diagnosis | - | |||
| 6: Clinical conclusion | - |
| Spreadsheet component | Columns | Material to review | Scores to assign |
|---|---|---|---|
| Reasoning | B–I | In the pre-consensus stage, identify the block corresponding to the rater’s specialty. Evaluate the sections describing clinical data, syndromes, differential diagnosis, diagnostic strategy, and management strategy. Do not include the section titled “Final conclusion.” | Eight scores, one for each criterion. |
| First-stage final judgment | J–Q | In the same specialty-specific block, evaluate only the section titled “Final conclusion.” This represents the specialist’s final position before the overall consensus discussion. | Eight scores, one for each criterion. |
| Consensus conclusion | R–Y | Evaluate the overall consensus stage, including the final opinion, summary, final differential diagnosis, diagnostic plan, management plan, and safety warnings. | Eight scores, one for each criterion. |
| Whole-case assessment | Z–AB | Evaluate the consensus report as a whole, including the adequacy of the specialist composition, clinical complexity, and overall quality of all stages. | Three scores: specialist composition, complexity, and overall quality. |
| Comment | AC | Briefly explain, if possible, why low scores were assigned or identify the most important errors. | One to four sentences. |
| Columns | Criterion | Operational meaning |
|---|---|---|
| B / J / R | Factual accuracy and sources | Facts, numerical values, dates, investigations, and treatments are not fabricated or distorted. |
| C / K / S | Identification and prioritization of clinical problems | The main clinical problems are identified and prioritized appropriately. |
| D / L / T | Completeness and relevance of the data used | Relevant data are used, while irrelevant or incidental details do not drive the assessment. |
| E / M / U | Coherence of clinical reasoning | The report contains a coherent chain linking data, explanation, diagnoses, conclusions, and management. |
| F / N / V | Quality of differential diagnosis | Plausible alternatives are considered, with arguments for and against them and methods for verification. |
| G / O / W | Quality of the final clinical conclusion | The conclusion is clear, clinically appropriate, and answers the main clinical question. |
| Score | Assign this score when | Interpretation |
|---|---|---|
| 0 | The criterion is not met. There is a major error, an unsafe recommendation, or fabricated information that invalidates the conclusion. | The response cannot be trusted. |
| 1 | Some useful content is present, but there is a substantial deficiency: important information is missing, the logic is weak, the conclusion is incomplete, or factual reliability is poor. | The response requires substantial revision. |
| 2 | The criterion is generally met, but there is a noticeable deficiency, such as missing data, incomplete arguments, absent timeframes, unclear conditions, or insufficient specification. | The response may be acceptable after revision. |
| 3 | The criterion is fully met and clinically convincing. Important facts are accurate, the logic is clear, and the conclusion and management plan are specific. | The response is strong. |
| Example | Scoring implication |
|---|---|
| The source case contains no leukocytosis, C-reactive protein value, procalcitonin level, creatine kinase value, troponin value, or acute kidney injury, but the consensus report presents these findings as facts and uses them to support a diagnosis. | This is not a minor inaccuracy. Factual accuracy should receive 0 points. Reasoning, differential diagnosis, the final conclusion, and management strategy should receive no more than 1 point if they rely on these data. |
| The consensus report states that C-reactive protein may be elevated and should be checked, although no C-reactive protein result is available. | This is a hypothesis rather than a fact. It is permissible if it is clearly framed as a hypothesis and not presented as an already available test result. |
| Score | Assign this score when |
|---|---|
| 0 | A fabricated or distorted clinically significant fact is present and could alter the diagnosis, risk assessment, or management strategy; or the conclusion directly contradicts the source data. |
| 1 | There are several factual errors or one important unsupported interpretation; the sources are unclear; however, the entire conclusion does not depend exclusively on fabricated data. |
| 2 | The main facts are reported correctly and no clinically significant fabricated facts are present, but there are minor inaccuracies or incomplete source references. |
| 3 | All important facts, numerical values, dates, and investigations are accurate; their sources are clear; and hypotheses are distinguished from established facts. |
| Score | Assign this score when |
|---|---|
| 0 | The main clinical problem is missed or incorrectly stated. |
| 1 | The main problem is only partly recognized, but priorities are incorrect or an important risk is omitted. |
| 2 | The main problem and most important associated problems are identified correctly, but there is a limited omission or weak prioritization. |
| 3 | All key clinical problems and risks are identified and arranged in an appropriate clinical order. |
| Score | Assign this score when |
|---|---|
| 0 | Key data are omitted, making the conclusion unreliable or incorrect. |
| 1 | Only part of the available data is used; several important domains are omitted, such as history, physical examination, clinical course, laboratory results, imaging, treatment, or risks. |
| 2 | Most important data are considered, but one or two meaningful omissions remain, or excessive irrelevant detail reduces focus. |
| 3 | All data affecting diagnosis, risk assessment, and management are considered; irrelevant information does not drive the conclusion. |
| Score | Assign this score when |
|---|---|
| 0 | Conclusions do not follow from the data, contradict the data, or are based on fabricated facts. |
| 1 | Logic is present only in fragments; important conclusions are not explained, and causal links are superficial. |
| 2 | Reasoning is generally coherent, but there are limited logical gaps, weak mechanisms, or incomplete chronology. |
| 3 | There is a clear chain from data to syndromes or mechanisms, differential diagnosis, conclusion, and management. Chronology and clinical dynamics are considered. |
| Score | Assign this score when |
|---|---|
| 0 | Differential diagnosis is absent, irrelevant, omits an obvious dangerous alternative, or is based on fabricated data. |
| 1 | Too few alternatives are considered, probabilities are not ordered, and arguments for and against the alternatives are largely absent. |
| 2 | The main alternatives are identified, but arguments, prioritization, or verification methods are incomplete. |
| 3 | Diagnoses are relevant and prioritized; for each important alternative, there are arguments for and against it and a way to confirm or exclude it. |
| Score | Assign this score when |
|---|---|
| 0 | The conclusion is absent, clinically incorrect, contradictory, or based on fabricated clinically significant facts. |
| 1 | The conclusion is overly general, incomplete, does not answer the main question, or merely repeats a list of possible diagnoses without a clear position. |
| 2 | The main conclusion is generally correct and understandable, but requires clarification regarding probability, conditions, limitations, or links to key data. |
| 3 | The conclusion is clear, specific, and justified. It names the main diagnosis, syndrome, or working hypothesis, states the level of confidence, and identifies data that could change the decision. |
| Score | Assign this score when |
|---|---|
| 0 | Management strategy is absent, clearly inappropriate, unsafe, or based on fabricated clinically significant facts. |
| 1 | Some appropriate actions are present, but the plan is generic: priorities, timeframes, reassessment criteria, monitoring, or links to the diagnosis are missing. |
| 2 | The main actions are appropriate, but specific details are missing, such as timeframes, monitoring parameters, responsible specialties, or escalation criteria. |
| 3 | The plan is specific and prioritized. Diagnostic actions, treatment, monitoring, timeframes, reassessment criteria, and next steps are linked to the clinical reasoning. |
| Score | Assign this score when |
|---|---|
| 0 | There is a potentially unsafe recommendation, an omitted life-threatening condition, or an ignored contraindication. |
| 1 | Some risks are recognized, but there is a substantial gap in monitoring, contraindications, drug interactions, or actions in case of deterioration. |
| 2 | The management strategy is generally safe, but one important precaution or one deterioration scenario is not addressed. |
| 3 | Urgent risks, contraindications, interactions, complications, monitoring requirements, and an action plan for deterioration are addressed. |
| Score | Assign this score when |
|---|---|
| 0 | The specialist composition does not cover the main clinical problem; a key specialty is absent, and the consensus cannot reliably address the case. |
| 1 | Part of the composition is appropriate, but one important specialty is absent or the roles of the participants do not match the main clinical tasks. |
| 2 | Most necessary specialties are present, but the composition does not fully cover diagnosis, treatment, or safety. |
| 3 | The composition is appropriate: key specialists are present, and their roles correspond to the main problems and patient risks. |
| Score | Assign this score when |
|---|---|
| 0 | The case is simple for the rater’s specialty, with one obvious problem, a standard diagnostic pathway, limited need for additional analysis, and low risk of error. |
| 1 | The case is moderately complex, with several relevant data points and simple alternatives, but the expected decision is largely standard. |
| 2 | The case is complex, with involvement of several systems, ambiguous data, important clinical dynamics, or several plausible differential diagnoses. |
| 3 | The case is very complex, with a rare or atypical presentation, high risk, incomplete or conflicting data, and a clear need for multidisciplinary input. |
| Score | Assign this score when |
|---|---|
| 0 | The consensus report as a whole is unusable: there are many major errors, and fabricated data lead to an incorrect conclusion or unsafe management. |
| 1 | Some useful fragments are present, but overall quality is low: substantial errors occur across several stages, and the result requires major revision. |
| 2 | The consensus report is generally acceptable, but there are noticeable deficiencies in facts, reasoning, conclusion, management, or consistency between stages. |
| 3 | All stages are consistent, factually accurate, logically coherent, and clinically useful; the result can be accepted without major revision. |
| Non-specific comment | Acceptable comment |
|---|---|
| Many errors. | The reasoning cites a non-existent C-reactive protein value and uses it to support an infectious diagnosis; factual accuracy is 0, and reasoning and differential diagnosis should not exceed 1. |
| Acceptable, but could be better. | The main diagnosis is selected appropriately, but the final plan lacks timeframes for reassessment, escalation criteria, and safety monitoring. |
| Poor conclusion. | The final conclusion lists three diagnoses without prioritization and does not identify the leading hypothesis at the current stage. |
| Question | If the answer is no |
|---|---|
| Do the facts match the source case? | Reduce the factual accuracy score. If a fabricated fact affects the conclusion, assign 0 for factual accuracy. |
| Is the main clinical problem identified? | Reduce the scores for problem prioritization and the final clinical conclusion. |
| Are key laboratory tests, imaging, history, and clinical dynamics used? | Reduce the completeness score. |
| Do conclusions follow logically from the facts? | Reduce the coherence of reasoning score. |
| Is the differential diagnosis adequate? | Reduce the differential diagnosis score. |
| Does the final conclusion answer the main clinical question? | Reduce the final clinical conclusion score. |
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