Iter-4360dd15-0102-transcript
第 102 轮执行轨迹
→ call search_memory({"limit":8,"query":"4360dd15 38310895 Europe PMC references PMID 原始试验"}) → call list_recent({"n":8})
→ call list_by_tag({"limit":20,"tag":"4360dd15"})
【tool:search_memory】
{"ok": true, "results": [{"title": "Iter-4360dd15-0097-transcript", "tags": "iteration transcript", "modified": "20260424211821000", "preview": "!! 第 97 轮执行轨迹
→ call search_memory({\"limit\":8,\"query\":\"4360dd15 38310895 参考文献 原始人类试验 PMID mTOR rapalog 主要终点\"}) 【tool:search_memory】 {\"ok\": true, \"results\": [{\"title\": \"Iter-4360dd15-0060-transcript\", \"tags\": \"iteration transcript\", \"modified\": \"20260424200117000\", \"preview\": \"!! 第 60 轮执行轨迹 → call search_memory({\"limit\":8,\"query\":\"4360dd15 38310895 Europe PMC references human trial PMID\"}) 【tool:search_memory】 {\"ok\": true, \"results\": [{\"title\": \"Iter-4360dd15-0097-transcript\", \"tags\": \"i【tool:list_recent】
{"ok": true, "items": [{"title": "Iter-4360dd15-0101-reflection", "modified": "20260424212846000", "tags": "iteration reflection"}, {"title": "NEXT_FOCUS", "modified": "20260424212846000", "tags": "pinned focus"}, {"title": "先拿全量参考文献再分类", "modified": "20260424212846000", "tags": "lesson evidence-chain clinical-trials pmid"}, {"title": "Iter-4360dd15-0101-transcript", "modified": "20260424212836000", "tags": "iteration transcript"}, {"title": "Iter-4360dd15-0100-reflection", "modified": "20260424212541000", "tags": "iteration reflection"}, {"title": "先拿参考文献清单再做分类", "modified": "20260424212541000", "tags": "lesson evidence-chain clinical-trials pmid"}, {"title": "Iter-4360dd15-0100-transcript", "modified": "20260424212536000", "tags": "iteration transcript"}, {"title": "Iter-4360dd15-0100-human-trial-vs-non-original-screening-of-38310895-references", "modified": "20260424212530000", "tags": "4360dd15 knowledge fact method clinical-trials evidence-chain"}]}
【tool:list_by_tag】
{"ok": true, "items": [{"title": "Iter-4360dd15-0100-human-trial-vs-non-original-screening-of-38310895-references", "modified": "20260424212530000"}, {"title": "Iter-4360dd15-0099-critic-mechanistic-vs-aging-trial", "modified": "20260424212312000"}, {"title": "Iter-4360dd15-0098-EuropePMC-extract-human-trial-PMIDs", "modified": "20260424212055000"}, {"title": "PMID 22367193 is cardiac-repolarization safety, not longevity evidence", "modified": "20260424210833000"}, {"title": "PMID 24691032 is muscle-protein-synthesis endpoint, not longevity evidence", "modified": "20260424210355000"}, {"title": "PMID 22115710 is phase I ocular safety study, not longevity evidence", "modified": "20260424210145000"}, {"title": "PMID 29408453 is feasibility/safety pilot, not direct longevity evidence", "modified": "20260424210012000"}, {"title": "PMID 31761958 is skin-senescence endpoint, not longevity evidence", "modified": "20260424205759000"}, {"title": "PMID 33977284 is RTI incidence endpoint, not direct longevity evidence", "modified": "20260424204839000"}, {"title": "PMID 25540326 is immune-response endpoint, not longevity evidence", "modified": "20260424204718000"}, {"title": "PMID 27883166 is a pilot safety feasibility trial not direct longevity evidence", "modified": "20260424204543000"}, {"title": "PEARL trial is not direct longevity evidence", "modified": "20260424203525000"}, {"title": "Iter-4360dd15-0078-two-pmid-evidence-verification", "modified": "20260424203242000"}, {"title": "I
→ call search_memory({"limit":10,"query":"4360dd15 EuropePMC extract human trial PMIDs 38310895"})
→ call read_note({"title":"Iter-4360dd15-0098-EuropePMC-extract-human-trial-PMIDs"})
→ call read_note({"title":"Iter-4360dd15-0100-human-trial-vs-non-original-screening-of-38310895-references"})
【tool:search_memory】
{"ok": true, "results": [{"title": "Iter-4360dd15-0010-transcript", "tags": "iteration transcript", "modified": "20260424175830000", "preview": "!! 第 10 轮执行轨迹
→ cal"}, {"title": "Iter-4360dd15-0099-transcript", "tags": "iteration transcript", "modified": "20260424212320000", "preview": "!! 第 99 轮执行轨迹 → call search_memory({\\\"limit\\\":8,\\\"query\\\":\\\"4360dd15 38310895 rapamycin review original "}, {"title": "Iter-4360dd15-0048-transcript", "tags": "iteration transcript", "modified": "20260424194115000", "preview": "!! 第 48 轮执行轨迹 【tool:read_note】
{"ok": true, "title": "Iter-4360dd15-0098-EuropePMC-extract-human-trial-PMIDs", "tags": "method fact clinical-trials evidence-chain rapamycin 4360dd15", "text": "!! Europe PMC 提取 PMID 38310895 参考文献中的人体原始试验 PMID\n\n本轮通过 Europe PMC REST 接口直接读取了 PMID 38310895 的参考文献列表：\nhttps://www.ebi.ac.uk/europepmc/webservices/rest/MED/38310895/references/1/1000\n\n该接口返回 75 条参考文献。用标题关键词筛选后，得到一批与 rapamycin / rapalog 人体原始试验高度相关的 PMID：\n\n* 33977284 — Targeting the biology of ageing with mTOR inhibitors to improve immune function in older adults: phase 2b and phase 3 randomised trials\n* 29408453 — A randomized control trial to establish the feasibility and safety of rapamycin treatment in an older human cohort: Immunological, physical performance, and cognitive effects\n* 31761958 — Topical rapamycin reduces markers of senescence and aging in human skin: an exploratory, prospective, randomized trial\n* 22959478 — Rapamycin does not affect post-absorptive protein metabolism in human skeletal muscle\n* 19188252 — Rapamycin administration in humans blocks the contraction-induced increase in skeletal muscle protein synthesis\n* 24691032 — Activation of mTORC1 signaling and protein synthesis in human muscle following blood flow restriction exercise is inhibited by rapamycin\n* 32475067 — Dose-Dependent Acute Effects of Everolimus Administration on Immunological, Neuroendocrine and Psychological Parameters in Healthy Men\n* 22367193 — A single-dose placebo- and moxiflox
【tool:read_note】
{"ok": true, "title": "Iter-4360dd15-0100-human-trial-vs-non-original-screening-of-38310895-references", "tags": "4360dd15 knowledge fact method clinical-trials evidence-chain", "text": "!! PMID 38310895 参考文献的“原始人体试验 / 非原始试验”复核（第 100 轮）\n\n本轮只做一件事：把上一轮从 PMID 38310895 的 Europe PMC 参考文献里抽出来的一批候选 PMID，用 PubMed 逐条复核为“原始人体试验 / 非原始试验”。\n\n!! 复核方法\n# 先以前轮抽取的候选 PMID 为种子。\n# 再用 PubMed 逐条确认题名、期刊与研究设计词。\n# 判据：题名明确出现 <i>follow-up</i>、<i>longitudinal analysis</i>、<i>extension</i>、<i>ancillary</i>、<i>postextension</i> 时，优先判为 <i>非原始试验</i>；其余 interventional / randomized / pilot / phase I/II/III 研究且为首次报告者，判为 <i>原始人体试验</i>。\n\n!! 本轮已复核的 PMID\n!! 原始人体试验（但不一定是长寿相关）\n* 33977284 — [[Targeting the biology of ageing with mTOR inhibitors to improve immune function in older adults: phase 2b and phase 3 randomised trials\n* 29408453 — A randomized control trial to establish the feasibility and safety of rapamycin treatment in an older human cohort: Immunological, physical performance, and cognitive effects\n* 32475067 — Dose-Dependent Acute Effects of Everolimus Administration on Immunological, Neuroendocrine and Psychological Parameters in Healthy Men\n* 35040506 — mTOR Inhibition with Sirolimus in Multiple System Atrophy: A Randomized, Double-Blind, Placebo-Controlled Futility Trial and 1-Year Biomarker Longitudinal Analysis\n* 25525171 — Intravitreal sirolimus for the treatment of geographic atrophy: results of a phase I/II clinical trial\n* 24618547 — [[Everolimus in patients with severe pulmonary hyp
→ call define_tool({"name":"europe_pmc_reference_pmids","description":"Fetch Europe PMC references for a PMID and extract reference PMIDs, titles, and raw reference snippets for downstream classification.","code":"import re\nimport json\nimport requests\nimport xml.etree.ElementTree as ET\n\n\ndef run(**kwargs):\n pmid = str(kwargs.get('pmid', '')).strip()\n if not pmid:\n return {'ok': False, 'error': )
【tool:define_tool】
{"ok": false, "error": "参数错误: tool_define_tool() missing 1 required positional argument: 'parameters'"}
→ call web_fetch({"max_chars":12000,"url":"https://www.ebi.ac.uk/europepmc/webservices/rest/MED/38310895/references/1/1000"})
【tool:web_fetch】
{"ok": true, "url": "https://www.ebi.ac.uk/europepmc/webservices/rest/MED/38310895/references/1/1000", "status": 200, "content_type": "application/xml", "text": "6.9 75 38310895 MED 1 1000 33069325 MED JOURNAL ARTICLE Global age-sex-specific fertility, mortality, healthy life expectancy (HALE), and population estimates in 204 countries and territories, 1950-2019: a comprehensive demographic analysis for the Global Burden of Disease Study 2019. r Lancet 10258 2020 396 0140-6736 1474-547X 1160-1203 1 Y 28919117 MED JOURNAL ARTICLE Global, regional, and national incidence, prevalence, and years lived with disability for 328 diseases and injuries for 195 countries, 1990-2016: a systematic analysis for the Global Burden of Disease Study 2016. , Lancet 10100 2017 390 0140-6736 1474-547X 1211-1259 2 Y 37117804 MED JOURNAL ARTICLE The economic value of targeting aging. Scott AJ, Ellison M, Sinclair DA. Nat Aging 7 2021 1 2662-8465 2662-8465 616-623 3 Y 31316753 MED JOURNAL ARTICLE mTOR as a central regulator of lifespan and aging. Papadopoli D, Boulay K, Kazak L, Pollak M, Mallette FA, Topisirovic I, Hulea L. F1000Res 2019 8 2046-1402 2046-1402 F1000 Faculty Rev-998 4 Y 29190625 MED JOURNAL ARTICLE mTOR as Regulator of Lifespan, Aging, and Cellular Senescence: A Mini-Review. Weichhart T. Gerontology 2 2017 64 0304-324X 1423-0003 127-134 5 Y 36599349 MED JOURNAL ARTICLE Hallmarks of aging: An expanding universe. Lopez-Otin C, Blasco MA, Partridge L, Serrano M, Kroemer G. Cell 2 2023 1
→ call run_python({"code":"import requests,re\nfrom collections import OrderedDict\nurl='https://www.ebi.ac.uk/europepmc/webservices/rest/MED/38310895/references/1/1000'\ntext=requests.get(url,timeout=30).text\n# Europe PMC returns space-delimited records after header.\n# Each reference seems to have PMID, source, type, title, authors, journal fields, etc.\n# We'll extract all PMIDs from the full text in order, kee)
【tool:run_python】
{"ok": true, "stdout": "count 0\n[]\nparsed refs 0\n", "stderr": "", "returncode": 0}
→ call define_tool({"parameters":{"name":"europe_pmc_reference_pmids","description":"Fetch Europe PMC references for a PMID and extract reference PMIDs, titles, and raw reference snippets for downstream classification.","code":"import re\nimport requests\nimport xml.etree.ElementTree as ET\n\n\ndef run(**kwargs):\n pmid = str(kwargs.get('pmid', '')).strip()\n if not pmid:\n return {'ok': False, 'error':)
【tool:define_tool】
{"ok": false, "error": "参数错误: tool_define_tool() missing 3 required positional arguments: 'name', 'description', and 'code'"}
→ call run_python({"code":"import requests, re\ntext=requests.get('https://www.ebi.ac.uk/europepmc/webservices/rest/MED/38310895/references/1/1000',timeout=30).text\nprint(text[:1000])\nprint('len', len(text))\n# show positions of 'MED JOURNAL ARTICLE'\nfor m in re.finditer(r'MED\\s+JOURNAL\\s+ARTICLE', text):\n print('pos', m.start())\n break\n","timeout":30})
【tool:run_python】
{"ok": true, "stdout": "<?xml version=\"1.0\" encoding=\"UTF-8\" standalone=\"yes\"?><responseWrapper xmlns:slx=\"http://www.scholix.org\" xmlns:epmc=\"https://www.europepmc.org/data\"><version>6.9</version><hitCount>75</hitCount><request><id>38310895</id><source>MED</source><offSet>1</offSet><pageSize>1000</pageSize></request><referenceList><reference><id>33069325</id><source>MED</source><citationType>JOURNAL ARTICLE</citationType><title>Global age-sex-specific fertility, mortality, healthy life expectancy (HALE), and population estimates in 204 countries and territories, 1950-2019: a comprehensive demographic analysis for the Global Burden of Disease Study 2019.</title><authorString>r</authorString><journalAbbreviation>Lancet</journalAbbreviation><issue>10258</issue><pubYear>2020</pubYear><volume>396</volume><ISSN>0140-6736</ISSN><ESSN>1474-547X</ESSN><pageInfo>1160-1203</pageInfo><citedOrder>1</citedOrder><match>Y</match></reference><reference><id>28919117</id><source>MED</source><citationType>JOURNAL ARTICLE</citat\nlen 42376\n", "stderr": "", "returncode": 0}
→ call define_tool({"name":"europe_pmc_reference_pmids","description":"Fetch Europe PMC references for a PMID and extract all reference PMIDs with titles and raw XML fields; reusable for evidence-chain screening.","code":"import re\nimport requests\nimport xml.etree.ElementTree as ET\n\n\ndef run(**kwargs):\n pmid = str(kwargs.get('pmid', '')).strip()\n if not pmid:\n return {'ok': False, 'error': 'pmid)
【tool:define_tool】
{"ok": false, "error": "参数错误: tool_define_tool() missing 1 required positional argument: 'parameters'"}
→ call run_python({"code":"import requests, xml.etree.ElementTree as ET, re, json\nurl='https://www.ebi.ac.uk/europepmc/webservices/rest/MED/38310895/references/1/1000'\nxml=requests.get(url,timeout=30).text\nroot=ET.fromstring(xml)\nrefs=[]\nfor ref in root.findall('.//reference'):\n d={k:ref.findtext(k) for k in ['id','source','citationType','title','authorString','journalAbbreviation','pubYear','volume','issu)
【tool:run_python】
{"ok": true, "stdout": "count 75\n01\t33069325\t2020\tGlobal age-sex-specific fertility, mortality, healthy life expectancy (HALE), and population estimates in 204 countries and territories, 1950-2019: a comprehensive demographic analysis for the Global Burden of Disease Study 2019.\n02\t28919117\t2017\tGlobal, regional, and national incidence, prevalence, and years lived with disability for 328 diseases and injuries for 195 countries, 1990-2016: a systematic analysis for the Global Burden of Disease Study 2016.\n03\t37117804\t2021\tThe economic value of targeting aging.\n04\t31316753\t2019\tmTOR as a central regulator of lifespan and aging.\n05\t29190625\t2017\tmTOR as Regulator of Lifespan, Aging, and Cellular Senescence: A Mini-Review.\n06\t36599349\t2023\tHallmarks of aging: An expanding universe.\n07\t26403194\t2015\tRegulation of innate immune cell function by mTOR.\n08\t30860857\t2019\tCellular Senescence as a Mechanism and Target in Chronic Lung Diseases.\n", "stderr": "Traceback (most recent call last):\n File \"C:\\Users\\yh599\\Documents\\GitHub\\LLM-yh\\Sisyphus\\workspace\\_run_1777066211306.py\", line 12, in <module>\n print(f\"{i:02d}\\t{d['id']}\\t{d['pubYear']}\\t{d['title']}\")\n ~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n File \"C:\\Python313\\Lib\\encodings\\cp1252.py\", line 19, in encode\n return codecs.charmap_encode(input,self.errors,encoding_table)[0]\n ~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\nUnic
→ call run_python({"code":"import requests, xml.etree.ElementTree as ET, re, json\nfrom collections import Counter\nxml=requests.get('https://www.ebi.ac.uk/europepmc/webservices/rest/MED/38310895/references/1/1000',timeout=30).text\nroot=ET.fromstring(xml)\nrefs=[]\nfor ref in root.findall('.//reference'):\n refs.append({\n 'pmid': ref.findtext('id'),\n 'title': (ref.findtext('title') or '').strip()
【tool:run_python】
{"ok": true, "stdout": "class counts: Counter({'other': 45, 'original human trial candidate': 14, 'review/mechanism': 11, 'follow-up/secondary': 5})\nselected count 14\n33069325 Global age-sex-specific fertility, mortality, healthy life expectancy (HALE), and population estimates in 204 countries and territories, 1950-2019: a comprehensive demographic analysis for the Global Burden of Disease Study 2019.\n28919117 Global, regional, and national incidence, prevalence, and years lived with disability for 328 diseases and injuries for 195 countries, 1990-2016: a systematic analysis for the Global Burden of Disease Study 2016.\n33977284 Targeting the biology of ageing with mTOR inhibitors to improve immune function in older adults: phase 2b and phase 3 randomised trials.\n22367193 A single-dose placebo- and moxifloxacin-controlled study of the effects of temsirolimus on cardiac repolarization in healthy adults.\n31761958 Topical rapamycin reduces markers of senescence and aging in human skin: an exploratory, prospective, randomized trial.\n29408453 A randomized control trial to establish the feasibility and safety of rapamycin treatment in an older human cohort: Immunological, physical performance, and cognitive effects.\n22115710 A randomized, dose-escalation study of subconjunctival and intravitreal injections of sirolimus in patients with diabetic macular edema.\n33593448 Intravitreal sirolimus for persistent, exudative age-related macular degeneration: a Pilot Study.\n2084770
→ call pubmed_search({"limit":2,"query":"33069325 PubMed"})
→ call pubmed_search({"limit":2,"query":"28919117 PubMed"})
→ call pubmed_search({"limit":2,"query":"33593448 PubMed"})
【tool:pubmed_search】
{"ok": true, "query": "33069325 PubMed", "results": [{"pmid": "42030085", "title": "Hepatotoxicity Associated with Labetalol Use: A Case Report with Systematic Review and Disproportionality Analysis Using FAERS.", "source": "J Clin Pharmacol", "pubdate": "2026 Apr", "authors": ["Hendriksen ED", "Rieder M", "Urbantke E"], "url": "https://pubmed.ncbi.nlm.nih.gov/42030085/"}, {"pmid": "42030033", "title": "Factors associated with persistent shoulder pain following arthroscopic rotator cuff repair: a scoping review.", "source": "Pain Manag", "pubdate": "2026 Apr 24", "authors": ["Prabhu AB", "Maiya GA", "Pandey V", "Acharya KKV", "Raja G P", "Elliott JM", "Meeus M"], "url": "https://pubmed.ncbi.nlm.nih.gov/42030033/"}]}
【tool:pubmed_search】
{"ok": true, "query": "28919117 PubMed", "results": [{"pmid": "42030085", "title": "Hepatotoxicity Associated with Labetalol Use: A Case Report with Systematic Review and Disproportionality Analysis Using FAERS.", "source": "J Clin Pharmacol", "pubdate": "2026 Apr", "authors": ["Hendriksen ED", "Rieder M", "Urbantke E"], "url": "https://pubmed.ncbi.nlm.nih.gov/42030085/"}, {"pmid": "42030033", "title": "Factors associated with persistent shoulder pain following arthroscopic rotator cuff repair: a scoping review.", "source": "Pain Manag", "pubdate": "2026 Apr 24", "authors": ["Prabhu AB", "Maiya GA", "Pandey V", "Acharya KKV", "Raja G P", "Elliott JM", "Meeus M"], "url": "https://pubmed.ncbi.nlm.nih.gov/42030033/"}]}
【tool:pubmed_search】
{"ok": true, "query": "33593448 PubMed", "results": [{"pmid": "42030085", "title": "Hepatotoxicity Associated with Labetalol Use: A Case Report with Systematic Review and Disproportionality Analysis Using FAERS.", "source": "J Clin Pharmacol", "pubdate": "2026 Apr", "authors": ["Hendriksen ED", "Rieder M", "Urbantke E"], "url": "https://pubmed.ncbi.nlm.nih.gov/42030085/"}, {"pmid": "42030033", "title": "Factors associated with persistent shoulder pain following arthroscopic rotator cuff repair: a scoping review.", "source": "Pain Manag", "pubdate": "2026 Apr 24", "authors": ["Prabhu AB", "Maiya GA", "Pandey V", "Acharya KKV", "Raja G P", "Elliott JM", "Meeus M"], "url": "https://pubmed.ncbi.nlm.nih.gov/42030033/"}]}
→ call run_python({"code":"import requests, xml.etree.ElementTree as ET, re\nxml=requests.get('https://www.ebi.ac.uk/europepmc/webservices/rest/MED/38310895/references/1/1000',timeout=30).text\nroot=ET.fromstring(xml)\nrefs=[(ref.findtext('id'), (ref.findtext('title') or '').strip()) for ref in root.findall('.//reference')]\nfor i,(pmid,title) in enumerate(refs,1):\n if any(k in title.lower() for k in ['healthy )
【tool:run_python】
{"ok": true, "stdout": "tors to improve immune function in older adults: phase 2b and phase 3 randomised trials.\n26 22367193 A single-dose placebo- and moxifloxacin-controlled study of the effects of temsirolimus on cardiac repolarization in healthy adults.\n27 31761958 Topical rapamycin reduces markers of senescence and aging in human skin: an exploratory, prospective, randomized trial.\n28 22959478 Rapamycin does not affect post-absorptive protein metabolism in human skeletal muscle.\n29 19188252 Rapamycin administration in humans blocks the contraction-induced increase in skeletal muscle protein synthesis.\n30 24691032 Activation of mTORC1 signaling and protein synthesis in human muscle following blood flow restriction exercise is inhibited by rapamycin.\n31 32475067 Dose-Dependent Acute Effects of Everolimus Administration on Immunological, Neuroendocrine and Psychological Parameters in Healthy Men.\n32 17329620 The Mammalian target of rapamycin pathway regulates nutrient-sensitive glucose uptake in man.\n33 29408453 A randomized control trial to establish the feasibility and safety of rapamycin treatment in an older human cohort: Immunological, physical performance, and cognitive effects.\n34 22115710 A randomized, dose-escalation study of subconjunctival and intravitreal injections of sirolimus in patients with diabetic macular edema.\n35 29806044 Treatment of Geographic Atrophy with Intravitreal Sirolimus: The Age-Related Eye Disease Study 2 Ancillary Study.\n36 33593
→ call define_tool({"name":"europe_pmc_reference_pmids","description":"Fetch Europe PMC references for a PMID and extract all reference PMIDs with titles and metadata; useful for evidence-chain screening of review references.","code":"import requests\nimport xml.etree.ElementTree as ET\n\n\ndef run(**kwargs):\n pmid = str(kwargs.get('pmid', '')).strip()\n if not pmid:\n return {'ok': False, 'error': 'pm)
【tool:define_tool】
{"ok": false, "error": "参数错误: tool_define_tool() missing 1 required positional argument: 'parameters'"}
→ call define_tool({"parameters":{"name":"europe_pmc_reference_pmids","description":"Fetch Europe PMC references for a PMID and extract all reference PMIDs with titles and metadata; useful for evidence-chain screening of review references.","code":"import requests\nimport xml.etree.ElementTree as ET\n\n\ndef run(**kwargs):\n pmid = str(kwargs.get('pmid', '')).strip()\n if not pmid:\n return {'ok': False)
【tool:define_tool】
{"ok": false, "error": "参数错误: tool_define_tool() missing 3 required positional arguments: 'name', 'description', and 'code'"}
【assistant】
本轮结论：
我已经把 PMID 38310895 的 Europe PMC 参考文献接口完整打通，并把 **75 条参考文献逐条解析成 PMID 列表**；再按题名做了首轮筛选，得到 **14 个“原始人体试验候选” PMID*
```