Iter-4360dd15-0042-transcript
第 42 轮执行轨迹
→ call search_memory({"limit":8,"query":"4360dd15 PMID 38310895 纳入研究 19 项 下一轮焦点"})【tool:search_memory】
{"ok": true, "results": [{"title": "Iter-4360dd15-0037-transcript", "tags": "iteration transcript", "modified": "20260424191347000", "preview": "!! 第 37 轮执行轨迹
→ call search_memory({\"limit\":10,\"query\":\"4360dd15 PMID 38310895 reference chain Crossref 75 references human trial rapamycin everolimus sirolimus\"}) → call list_recent({\"n\":8}) → call list_tools({}) 【tool:search_memory】 {\"ok\": true, \"results\": [{\"title\": \"Iter-4360dd15-0037-transcript\", \"tags\": \"iteration transcript\", \"modified\": \"20260424191347000\", \"preview\": \"!! 第 3"}, {"title": "Iter-4360dd15-0010-transcript", "tags": "iteration transcript", "modified": "20260424175830000", "preview": "!! 第 10 轮执行轨迹 → call list_recent({"n":8})
【tool:list_recent】
{"ok": true, "items": [{"title": "Iter-4360dd15-0041-reflection", "modified": "20260424192437000", "tags": "iteration reflection"}, {"title": "NEXT_FOCUS", "modified": "20260424192437000", "tags": "pinned focus"}, {"title": "候选召回不能代替纳入判定", "modified": "20260424192437000", "tags": "lesson evidence-retrieval systematic-review crossref"}, {"title": "Iter-4360dd15-0041-transcript", "modified": "20260424192431000", "tags": "iteration transcript"}, {"title": "Iter-4360dd15-0040-reflection", "modified": "20260424192103000", "tags": "iteration reflection"}, {"title": "Iter-4360dd15-0040-transcript", "modified": "20260424192058000", "tags": "iteration transcript"}, {"title": "Iter-4360dd15-0040-crossref-trialish-family-taxonomy", "modified": "20260424192051000", "tags": "knowledge fact 4360dd15"}, {"title": "Iter-4360dd15-0039-reflection", "modified": "20260424191824000", "tags": "iteration reflection"}]}
→ call read_note({"title":"NEXT_FOCUS"})
【tool:read_note】
{"ok": true, "title": "NEXT_FOCUS", "tags": "pinned focus", "text": "!! 下轮焦点（来自 mission 4360dd15 · Iter-0041）\n\n直接攻克 PMID 38310895 的正文和补充材料中 19 项纳入研究家族清单，先把 13 条人类临床候选与纳入表一一对齐，再补出剩余 11 项。"}
→ call read_note({"title":"Iter-4360dd15-0040-crossref-trialish-family-taxonomy"})
【tool:read_note】
{"ok": true, "title": "Iter-4360dd15-0040-crossref-trialish-family-taxonomy", "tags": "knowledge fact 4360dd15", "text": "!! PMID 38310895 综述的 Crossref trial-ish 候选家族：14 条命中，1 条非人类，剩余 13 条人类临床候选\n\n我把 PMID 38310895 对应综述（DOI 10.1016/S2666-7568(23)00258-1）的 Crossref references 再做了一次机器筛选，得到一个更整洁、可引用的候选集。\n\n!! 机器筛选规则\n
\nimport requests, re\n\ndoi='10.1016/S2666-7568(23)00258-1'\nmsg=requests.get(f'https://api.crossref.org/works/{doi}', timeout=30,\n headers={'User-Agent':'Mozilla/5.0'}).json()['message']\nrefs=msg['reference']\nmarkers = ['rapamycin','sirolimus','everolimus','temsirolimus']\ntrial_markers = ['trial','randomized','randomised','placebo','phase','proof-of-concept','feasibility','futility','extension','crossover']\n\ncands=[]\nfor r in refs:\n txt=' | '.join(str(r.get(k,'')) for k in ['article-title','journal-title','author','DOI','unstructured']).lower()\n if any(m in txt for m in markers) and any(t in txt for t in trial_markers):\n cands.append(r)\n\nprint('count', len(cands))\n→ call web_search({"limit":5,"query":"PMID 38310895 full text PDF supplement 19 included studies rapamycin review"})
【tool:web_search】
{"ok": true, "query": "PMID 38310895 full text PDF supplement 19 included studies rapamycin review", "results": [{"title": "Targeting ageing with rapamycin and its derivatives in humans: a ...", "url": "https://www.thelancet.com/journals/lanhl/article/PIIS2666-7568(23)00258-1/fulltext", "snippet": "Rapamycin and its derivatives (rapalogs) are inhibitors of mTOR, a major regulator of the ageing process. We aimed to summarise the effects of rapamycin and its derivatives on the severity of ageing-related physiological changes and disease in adults. A search across five databases yielded 18 400 unique articles, resulting in 19 included studies . Rapamycin and its derivatives improved ..."}, {"title": "Targeting ageing with rapamycin and its derivatives in humans: a ...", "url": "https://www.sciencedirect.com/science/article/pii/S2666756823002581", "snippet": "Rapamycin and its derivatives (rapalogs) are inhibitors of mTOR, a major regulator of the ageing process. We aimed to summarise the effects of rapamycin and its derivatives on the severity of ageing-related physiological changes and disease in adults. A search across five databases yielded 18 400 unique articles, resulting in 19 included studies ."}, {"title": "Targeting ageing with rapamycin and its derivatives in humans: a ...", "url": "https://europepmc.org/article/MED/38310895", "snippet": "A search across five databases yielded 18 400 unique articles, resulting in 19 included studies . Rapamycin and its derivatives impr
→ call web_fetch({"max_chars":8000,"url":"https://www.thelancet.com/journals/lanhl/article/PIIS2666-7568(23)00258-1/fulltext"})
【tool:web_fetch】
{"ok": false, "error": "Client error '403 Forbidden' for url 'https://www.thelancet.com/journals/lanhl/article/PIIS2666-7568(23)00258-1/fulltext'\nFor more information check: https://developer.mozilla.org/en-US/docs/Web/HTTP/Status/403"}
→ call web_search({"limit":8,"query":"PMID 38310895 supplement PDF included studies table rapamycin humans"})
→ call web_search({"limit":8,"query":"\"38310895\" supplement table included studies rapamycin"})
→ call web_search({"limit":8,"query":"site:thelancet.com PIIS2666-7568(23)00258-1 supplement pdf"})
【tool:web_search】
{"ok": true, "query": "PMID 38310895 supplement PDF included studies table rapamycin humans", "results": [{"title": "Targeting ageing with rapamycin and its derivatives in humans: a ...", "url": "https://europepmc.org/article/MED/38310895", "snippet": "A search across five databases yielded 18 400 unique articles, resulting in 19 included studies . Rapamycin and its derivatives improved physiological parameters associated with ageing in the immune, cardiovascular, and integumentary systems of healthy individuals or individuals with ageing-related diseases."}, {"title": "Influence of rapamycin on safety and healthspan metrics after one year ...", "url": "https://pmc.ncbi.nlm.nih.gov/articles/PMC12074816/", "snippet": "An additional 11 discontinued participation prior to study completion, and were not included in these analyses. Of the 114 who completed the study, 40 received 5 mg/week of rapamycin , 35 received 10 mg/week of rapamycin , and 39 received placebo (Supplementary Figure 1)."}, {"title": "Rapamycin for longevity: the pros, the cons, and future perspectives", "url": "https://pmc.ncbi.nlm.nih.gov/articles/PMC12226543/", "snippet": "Translating these findings to humans remains uncertain, as the complexity of human aging and lack of validated endpoints complicate implementation (Lee et al., 2021). Some early clinical studies suggest that short-term rapamycin or analogs (rapalogs) may improve aspects of immune function in older adults (Mannick et al., 2014)."}, {"title":
【tool:web_search】
{"ok": true, "query": "\"38310895\" supplement table included studies rapamycin", "results": [{"title": "A systematic review study of Rapamycin", "url": "https://rapamycinlongevitylab.substack.com/p/a-systematic-review-study-of-rapamycin", "snippet": "Last month Ajla Hodzic Kuerec, Deborah Lee and Andrea Maier published a very interesting systematic review of Rapamycin and rapalogs (pubmed: 38310895 ). A systematic review is a review that gathers together different research studies within an area and based on that analyzes and summarizes these."}, {"title": "#rapamycin #longevityscience #healthspan #metabolichealth # ...", "url": "https://www.linkedin.com/posts/ranulf-crooke_rapamycin-longevityscience-healthspan-activity-7411401877105491968-uGEr", "snippet": "In humans, a 2024 Lancet Healthy Longevity review (PMID: 38310895 ) shows that rapamycin and its derivatives can improve some specific immune and skin-ageing markers, but we still lack long-term ..."}, {"title": "Systemic review study of Rapamycin : r/Rapamycin - Reddit", "url": "https://www.reddit.com/r/Rapamycin/comments/1bo5ogp/systemic_review_study_of_rapamycin/", "snippet": "Last month Ajla Hodzic Kuerec, Deborah Lee and Andrea Maier published a very interesting systematic review of Rapamycin and rapalogs (pubmed: 38310895 ). A systematic review is a review that gathers together different research studies within an area and based on that analyzes and summarizes these."}, {"title": "Rapamycin Longevity Lab's Sub
【tool:web_search】
{"ok": true, "query": "site:thelancet.com PIIS2666-7568(23)00258-1 supplement pdf", "results": []}
→ call web_fetch({"max_chars":12000,"url":"https://www.thelancet.com/pdfs/journals/lanhl/PIIS2666-7568(23)00258-1.pdf"})
【tool:web_fetch】
{"ok": false, "error": "Client error '403 Forbidden' for url 'https://www.thelancet.com/pdfs/journals/lanhl/PIIS2666-7568(23)00258-1.pdf'\nFor more information check: https://developer.mozilla.org/en-US/docs/Web/HTTP/Status/403"}
→ call web_search({"limit":10,"query":"\"Targeting ageing with rapamycin and its derivatives in humans\" included studies Mannick 2014 Wen 2013 trial names"})
【tool:web_search】
{"ok": true, "query": "\"Targeting ageing with rapamycin and its derivatives in humans\" included studies Mannick 2014 Wen 2013 trial names", "results": []}
→ call web_fetch({"max_chars":12000,"url":"https://europepmc.org/article/MED/38310895"})
【tool:web_fetch】
{"ok": true, "url": "https://europepmc.org/article/MED/38310895", "status": 200, "content_type": "text/html;charset=UTF-8", "text": "Europe PMC Europe PMC 1 Sign in | Create an account https://orcid.org https://plus.europepmc.org Europe PMC Menu About About Europe PMC Preprints in Europe PMC Funders Become a funder Governance Roadmap Outreach Tools Tools overview Article status monitor Grant finder External links service RSS feeds About SciLite annotations Annotations submission service Developers Developer resources Articles RESTful API Grants RESTful API API case studies SOAP web service Annotations API OAI service Bulk downloads Developers Forum Support User guide Search syntax guide Contact us Contact us Helpdesk Feedback Twitter Blog Tech blog Developer Forum Europe PMC plus NOTICE: The ORCID Claiming tool has been temporarily disabled, because of technical issues. Please check back in later.", "truncated": false}
→ call run_python({"code":"import requests, re, json, textwrap, itertools, math\nfrom collections import defaultdict\n\ndoi='10.1016/S2666-7568(23)00258-1'\nmsg=requests.get(f'https://api.crossref.org/works/{doi}', timeout=30,\n headers={'User-Agent':'Mozilla/5.0'}).json()['message']\nrefs=msg['reference']\nmarkers = ['rapamycin','sirolimus','everolimus','temsirolimus']\ntrial_markers = ['trial','ra)
【tool:run_python】
{"ok": true, "stdout": "nescence and aging in human skin: an exploratory, prospective, randomized trial\n DOI: 10.1007/s11357-019-00113-y\n author: Chung\n04 | A randomized control trial to establish the feasibility and safety of rapamycin treatment in an older human cohort: immunological, physical \n DOI: 10.1016/j.exger.2017.12.026\n author: Kraig\n05 | A randomized, dose-escalation study of subconjunctival and intravitreal injections of sirolimus in patients with diabetic macular edema\n DOI: 10.1016/j.ophtha.2011.07.034\n author: Dugel\n06 | mTOR inhibition with sirolimus in multiple system atrophy: a randomized, double-blind, placebo-controlled futility trial and 1-year biomarke\n DOI: 10.1002/mds.28923\n author: Palma\n07 | Intravitreal sirolimus for the treatment of geographic atrophy: results of a phase I/II clinical trial\n DOI: 10.1167/iovs.14-15877\n author: Petrou\n08 | Everolimus in patients with severe pulmonary hypertension: a safety and efficacy pilot trial\n DOI: 10.1086/674311\n author: Seyfarth\n09 | Everolimus in patients with rheumatoid arthritis receiving concomitant methotrexate: a 3-month, double-blind, randomised, placebo-controlled\n DOI: 10.1136/ard.2007.078808\n author: Bruyn\n10 | Low-dose sirolimus immunoregulation therapy in patients with active rheumatoid arthritis: a 24-week follow-up of the randomized, open-label,\n DOI: 10.1155/2019/7684352\n author: Wen\n11 | Adjunctive everolimus therapy for treatment-resist
→ call write_note({"tags":["knowledge","fact","4360dd15","evidence-retrieval","crossref"],"text":"!! PMID 38310895 的 14 条 Crossref trial-ish 命中可压缩为 10 个家族\n\n本轮没有继续争夺全文，而是把已知的 14 条 trial-ish 命中做了 家族级折叠：\n- 14 条命中里，1 条是非人类（果蝇），排除\n- 剩余 13 条是人类临床候选\n- 这 13 条进一步可归并为 10 个家族，其中有 3 条属于 follow-up / extension / postextension，不能当作独立 trial 计数\n\n!! 可复现的折叠规则\n
\nimport requests, re\nfrom collections import default)【tool:write_note】
{"ok": true, "path": "C:\\Users\\yh599\\Documents\\GitHub\\LLM-yh\\Sisyphus\\wiki\\tiddlers\\Iter-4360dd15-0042-crossref-family-collapse-10-families.tid", "title": "Iter-4360dd15-0042-crossref-family-collapse-10-families"}
【assistant】
本轮我没有继续纠缠全文，而是把 PMID 38310895 的 14 条 Crossref trial-ish 命中做了“家族级折叠”：
- 14 条里 1 条是非人类（果蝇），排除
- 剩余 13 条是人类临床候选
- 这 13 条进一步可压缩成 10 个家族
- 其中 3 条属于 follow-up / extension / postextension，不能当独立 trial 计数
这一步的意义是：后续如果要对齐综述中的 19 项纳入研究，应该优先核对“家族”而不是“单篇标题”，否则会把同一研究项目的后续文章误算成独立纳入项。
已沉淀为：
- `Iter-4360dd15-0042-crossref-family-collapse-10-families`
<NEXT_FOCUS>把 PMID 38310895 的 19 项纳入研究表与这 10 个家族逐一对齐，先锁定哪 3 个家族是重复报告/随访，再找出剩余尚未命中的独立研究</NEXT_FOCUS>