{ "cells": [ { "cell_type": "code", "execution_count": 1, "metadata": {}, "outputs": [], "source": [ "import pandas as pd\n", "from OpenAITools.JRCTTools import fetch_clinical_trials, extract_jrct_links, create_dataframe_from_urls, reorder_columns" ] }, { "cell_type": "code", "execution_count": 2, "metadata": {}, "outputs": [ { "name": "stdout", "output_type": "stream", "text": [ "1 ページ目を処理しました。\n", "2 ページ目を処理しました。\n", "3 ページ目を処理しました。\n", "4 ページ目を処理しました。\n", "5 ページ目を処理しました。\n", "6 ページ目を処理しました。\n", "7 ページ目を処理しました。\n", "次のページはありません。全ての結果を取得しました。\n" ] } ], "source": [ "# fetch_clinical_trialsを使って検索結果を取得\n", "results = fetch_clinical_trials(disease_name=\"がん 神経膠腫 骨髄腫 黒色腫 肉腫 間質腫瘍 膠芽腫 内分泌腫瘍 パジェット ラブドイド\", freeword=\"\",include_not_yet_recruiting=True)" ] }, { "cell_type": "code", "execution_count": 3, "metadata": {}, "outputs": [ { "name": "stdout", "output_type": "stream", "text": [ "Processing URL: https://jrct.niph.go.jp/latest-detail/jRCT1030240513\n", "Waiting for 15 seconds before the 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"cell_type": "code", "execution_count": 4, "metadata": {}, "outputs": [], "source": [ "# 整列後の DataFrame を作成\n", "sorted_df = reorder_columns(df)" ] }, { "cell_type": "code", "execution_count": 5, "metadata": {}, "outputs": [ { "name": "stderr", "output_type": "stream", "text": [ "/var/folders/yw/qz00x75d7kb98f7vm8dkhkvw0000gn/T/ipykernel_89944/3932068550.py:1: SettingWithCopyWarning: \n", "A value is trying to be set on a copy of a slice from a DataFrame.\n", "Try using .loc[row_indexer,col_indexer] = value instead\n", "\n", "See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy\n", " sorted_df['JRCT ID'] = [result[0] for result in results]\n", "/var/folders/yw/qz00x75d7kb98f7vm8dkhkvw0000gn/T/ipykernel_89944/3932068550.py:2: SettingWithCopyWarning: \n", "A value is trying to be set on a copy of a slice from a DataFrame.\n", "Try using .loc[row_indexer,col_indexer] = value instead\n", "\n", "See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy\n", " sorted_df['Title'] = [result[1] for result in results]\n", "/var/folders/yw/qz00x75d7kb98f7vm8dkhkvw0000gn/T/ipykernel_89944/3932068550.py:3: SettingWithCopyWarning: \n", "A value is trying to be set on a copy of a slice from a DataFrame.\n", "Try using .loc[row_indexer,col_indexer] = value instead\n", "\n", "See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy\n", " sorted_df['Target'] = [result[2] for result in results]\n" ] } ], "source": [ "sorted_df['JRCT ID'] = [result[0] for result in results]\n", "sorted_df['Title'] = [result[1] for result in results]\n", "sorted_df['Target'] = [result[2] for result in results]" ] }, { "cell_type": "code", "execution_count": 6, "metadata": {}, "outputs": [], "source": [ "new_order = [\"JRCT ID\", 'NCT No', 'JapicCTI No',\"Title\",'Target'] + [col for col in sorted_df.columns if col not in [\"JRCT ID\", 'NCT No', 'JapicCTI No',\"Title\",'Target']]" ] }, { "cell_type": "code", "execution_count": 7, "metadata": {}, "outputs": [], "source": [ "sorted_df = sorted_df[new_order]" ] }, { "cell_type": "code", "execution_count": 8, "metadata": {}, "outputs": [ { "data": { "text/html": [ "
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JRCT IDNCT NoJapicCTI NoTitleTarget研究・治験の目的試験等のフェーズ試験の種類無作為化盲検化...assignmentpurposeInclusion CriteriaExclusion CriteriaAge MinimumAge MaximumGenderDiscontinuation CriteriaKeywordIntervention(s)
0jRCT1030240513NoneNone進行がん患者に対する可聴領域外のハイレゾ自然音源が与える生体情報や癒しの変化を評価する\\n探...がん進行がん患者を対象に、可聴領域外のハイレゾ自然音源を介入とした音楽療法が、無音と比較して、疲...None介入研究無作為化比較単盲検...parallel assignmentsupportive careEligible participants must meet the following ...Exclusion criteria apply if any of the followi...18age old overNo limitNonecancer,Participants will be exposed to either sounds ...
1jRCT1032240511NoneNone進行がん患者の痛みに対する交番磁界治療器の至適な治療時間の条件に関する多施設共同研究がん患者の疼痛交番磁界治療器を用いた自宅での疼痛治療について、進行がん患者が治療の継続が可能と考える治療時...None介入研究単一群非盲検...single assignmentother1. Age 18 years or older on the day of consent...1. There is a skin disorder in the painful are...18age old overNo limitBothNoneFour pads of the alternating magnetic field th...
2jRCT1032240506NoneNone卵巣腫瘍手術での術中低圧換気介入による術中出血量に及ぼす影響:ランダム化比較試験卵巣がん卵巣悪性腫瘍手術は高侵襲な手術であり輸血率の高い手術である。一方で輸血により癌の予後が悪化す...None介入研究無作為化比較単盲検...parallel assignmenttreatment purposePatients undergoing ovarian cancer surgery at ...1.Minors\\r\\n2.Emergency surgery\\r\\n3.Patients ...18age old over100age old notFemaleNoneLow-pressure ventilation and low venous pressu...
3jRCT2041240130NoneNone中等度-高度PONV発症リスクを有する肺切除術予定患者の周術期管理におけるGranisetr...肺がん全身麻酔を要する肺切除術周術期における標準制吐療法であるグラニセトロン(Granisetro...2None無作為化比較非盲検...parallel assignmenttreatment purpose(1) Patients scheduled to undergo anatomical l...(1) Patients with a history of allergy to the ...18age old overNo limitBothNoneTreatment group\\r\\nAdminister GRA 1mg intraven...
4jRCT2031240500NoneNoneミスマッチ修復機能欠損（dMMR）又は高頻度マイクロサテライト不安定性（MSI-H）を有する...ミスマッチ修復機能欠損（dMMR）又は高頻度マイクロサテライト不安定性（MSI-H）を有する...固形がんは、体のさまざまな部位に発生する異常な組織の塊である。本治験は、特定の遺伝的特徴を持...1-2None単一群非盲検...single assignmenttreatment purposeParts 1, 2, and 3 inclusion criteria: \\r\\n-Has...Parts 1, 2, and 3 exclusion criteria:\\r\\n-Has ...18age old overNo limitBothNoneDrug: GSK4418959\\r\\nDrug:PD-1 inhibitor
..................................................................
309jRCT2080223823NCT03444701JapicCTI-183879固形がん患者を対象としたE7130 の臨床第1相試験Part1：固形がん\\nPart2：頭頸部がん，尿路上皮がんNoneNone介入研究NoneNone...NoneNoneNoneNoneNoneNoneBothNoneinvestigational material(s)\\nGeneric name etc ...
310jRCT1090220266NoneNone肺がん手術患者に対する運動療法とBCAA摂取の併用効果の検討肺がんNoneNoneNoneNone非盲検...NoNoneNoneNoneAge Month Week Day HourAge Month Week Day Hour No limitBothNoneIntervention type:BEHAVIOUR\\nName of intervent...
311jRCT1091220254NoneNone肺動静脈分離3D-CT angiographyにおけるヨード造影剤量低減の検討肺がんNoneNoneNoneNone単盲検...YesNoneNoneNoneAge Month Week Day Hour No limitAge Month Week Day Hour No limitBothNoneIntervention type:DRUG\\nName of intervention: ...
312jRCT1090220224NoneNone体幹部神経ブロック後のレボブピバカインの血中濃度の変化下腹部消化器がんNoneNoneNoneNone非盲検...NoneNoneNone20Age Month Week Day Hour overAge Month Week Day Hour No limitBothNoneIntervention type:\\nName of intervention:\\nDos...
313jRCT1091220221NoneNoneヨード造影剤と生理食塩水の混合溶液を用いたtest injectionによる混合割合と造影効...肺がんNoneNoneNoneNone非盲検...NoNoneNoneNoneAge Month Week Day Hour No limitAge Month Week Day Hour No limitBothNoneIntervention type:DRUG\\nName of intervention:N...
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314 rows × 37 columns

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" ], "text/plain": [ " JRCT ID NCT No JapicCTI No \\\n", "0 jRCT1030240513 None None \n", "1 jRCT1032240511 None None \n", "2 jRCT1032240506 None None \n", "3 jRCT2041240130 None None \n", "4 jRCT2031240500 None None \n", ".. ... ... ... \n", "309 jRCT2080223823 NCT03444701 JapicCTI-183879 \n", "310 jRCT1090220266 None None \n", "311 jRCT1091220254 None None \n", "312 jRCT1090220224 None None \n", "313 jRCT1091220221 None None \n", "\n", " Title \\\n", "0 進行がん患者に対する可聴領域外のハイレゾ自然音源が与える生体情報や癒しの変化を評価する\\n探... \n", "1 進行がん患者の痛みに対する交番磁界治療器の至適な治療時間の条件に関する多施設共同研究 \n", "2 卵巣腫瘍手術での術中低圧換気介入による術中出血量に及ぼす影響:ランダム化比較試験 \n", "3 中等度-高度PONV発症リスクを有する肺切除術予定患者の周術期管理におけるGranisetr... \n", "4 ミスマッチ修復機能欠損（dMMR）又は高頻度マイクロサテライト不安定性（MSI-H）を有する... \n", ".. ... \n", "309 固形がん患者を対象としたE7130 の臨床第1相試験 \n", "310 肺がん手術患者に対する運動療法とBCAA摂取の併用効果の検討 \n", "311 肺動静脈分離3D-CT angiographyにおけるヨード造影剤量低減の検討 \n", "312 体幹部神経ブロック後のレボブピバカインの血中濃度の変化 \n", "313 ヨード造影剤と生理食塩水の混合溶液を用いたtest injectionによる混合割合と造影効... \n", "\n", " Target \\\n", "0 がん \n", "1 がん患者の疼痛 \n", "2 卵巣がん \n", "3 肺がん \n", "4 ミスマッチ修復機能欠損（dMMR）又は高頻度マイクロサテライト不安定性（MSI-H）を有する... \n", ".. ... \n", "309 Part1：固形がん\\nPart2：頭頸部がん，尿路上皮がん \n", "310 肺がん \n", "311 肺がん \n", "312 下腹部消化器がん \n", "313 肺がん \n", "\n", " 研究・治験の目的 試験等のフェーズ 試験の種類 無作為化 \\\n", "0 進行がん患者を対象に、可聴領域外のハイレゾ自然音源を介入とした音楽療法が、無音と比較して、疲... None 介入研究 無作為化比較 \n", "1 交番磁界治療器を用いた自宅での疼痛治療について、進行がん患者が治療の継続が可能と考える治療時... None 介入研究 単一群 \n", "2 卵巣悪性腫瘍手術は高侵襲な手術であり輸血率の高い手術である。一方で輸血により癌の予後が悪化す... None 介入研究 無作為化比較 \n", "3 全身麻酔を要する肺切除術周術期における標準制吐療法であるグラニセトロン(Granisetro... 2 None 無作為化比較 \n", "4 固形がんは、体のさまざまな部位に発生する異常な組織の塊である。本治験は、特定の遺伝的特徴を持... 1-2 None 単一群 \n", ".. ... ... ... ... \n", "309 None None 介入研究 None \n", "310 None None None None \n", "311 None None None None \n", "312 None None None None \n", "313 None None None None \n", "\n", " 盲検化 ... assignment purpose \\\n", "0 単盲検 ... parallel assignment supportive care \n", "1 非盲検 ... single assignment other \n", "2 単盲検 ... parallel assignment treatment purpose \n", "3 非盲検 ... parallel assignment treatment purpose \n", "4 非盲検 ... single assignment treatment purpose \n", ".. ... ... ... ... \n", "309 None ... None None \n", "310 非盲検 ... No None \n", "311 単盲検 ... Yes None \n", "312 非盲検 ... None \n", "313 非盲検 ... No None \n", "\n", " Inclusion Criteria \\\n", "0 Eligible participants must meet the following ... \n", "1 1. Age 18 years or older on the day of consent... \n", "2 Patients undergoing ovarian cancer surgery at ... \n", "3 (1) Patients scheduled to undergo anatomical l... \n", "4 Parts 1, 2, and 3 inclusion criteria: \\r\\n-Has... \n", ".. ... \n", "309 None \n", "310 None \n", "311 None \n", "312 None \n", "313 None \n", "\n", " Exclusion Criteria \\\n", "0 Exclusion criteria apply if any of the followi... \n", "1 1. There is a skin disorder in the painful are... \n", "2 1.Minors\\r\\n2.Emergency surgery\\r\\n3.Patients ... \n", "3 (1) Patients with a history of allergy to the ... \n", "4 Parts 1, 2, and 3 exclusion criteria:\\r\\n-Has ... \n", ".. ... \n", "309 None \n", "310 None \n", "311 None \n", "312 None \n", "313 None \n", "\n", " Age Minimum Age Maximum \\\n", "0 18age old over No limit \n", "1 18age old over No limit \n", "2 18age old over 100age old not \n", "3 18age old over No limit \n", "4 18age old over No limit \n", ".. ... ... \n", "309 None None \n", "310 Age Month Week Day Hour Age Month Week Day Hour No limit \n", "311 Age Month Week Day Hour No limit Age Month Week Day Hour No limit \n", "312 20Age Month Week Day Hour over Age Month Week Day Hour No limit \n", "313 Age Month Week Day Hour No limit Age Month Week Day Hour No limit \n", "\n", " Gender Discontinuation Criteria Keyword \\\n", "0 None cancer, \n", "1 Both None \n", "2 Female None \n", "3 Both None \n", "4 Both None \n", ".. ... ... ... \n", "309 Both None \n", "310 Both None \n", "311 Both None \n", "312 Both None \n", "313 Both None \n", "\n", " Intervention(s) \n", "0 Participants will be exposed to either sounds ... \n", "1 Four pads of the alternating magnetic field th... \n", "2 Low-pressure ventilation and low venous pressu... \n", "3 Treatment group\\r\\nAdminister GRA 1mg intraven... \n", "4 Drug: GSK4418959\\r\\nDrug:PD-1 inhibitor \n", ".. ... \n", "309 investigational material(s)\\nGeneric name etc ... \n", "310 Intervention type:BEHAVIOUR\\nName of intervent... \n", "311 Intervention type:DRUG\\nName of intervention: ... \n", "312 Intervention type:\\nName of intervention:\\nDos... \n", "313 Intervention type:DRUG\\nName of intervention:N... \n", "\n", "[314 rows x 37 columns]" ] }, "execution_count": 8, "metadata": {}, "output_type": "execute_result" } ], "source": [ "sorted_df" ] }, { "cell_type": "code", "execution_count": 9, "metadata": {}, "outputs": [], "source": [ "sorted_df.to_csv('../JRCT20241130Cancer.csv')" ] }, { "cell_type": "code", "execution_count": 10, "metadata": {}, "outputs": [ { "data": { "text/plain": [ "array([None, 'NCT06551142', 'NCT06622941', 'NCT05580562', 'NCT06561685',\n", " 'NCT05730036', 'NCT06413706', 'NCT06417814', 'NCT03423628',\n", " 'NCT06465069', 'NCT06431594', 'NCT06526819', 'NCT06012435',\n", " 'NCT06452277', 'NCT04895709', 'NCT06223516', 'NCT05201066',\n", " 'NCT06158841', 'NCT06238479', 'NCT06390995', 'NCT06208150',\n", " 'NCT06330064', 'NCT05552222', 'NCT06106945', 'NCT06285097',\n", " 'NCT05933577', 'NCT05899608', 'NCT06548217', 'NCT04910568',\n", " 'NCT05980416', 'NCT04586426', 'NCT06240741', 'NCT05939414',\n", " 'NCT06152575', 'NCT06057402', 'NCT06130553', 'NCT04420884',\n", " 'NCT06045806', 'NCT06099782', 'NCT05599984', 'NCT05519085',\n", " 'NCT04031677', 'NCT05552976', 'NCT05952557', 'NCT06532331',\n", " 'NCT05544929', 'NCT05907122', 'NCT06038578', 'NCT05753501',\n", " 'NCT06074705', 'NCT05714839', 'NCT05614739', 'NCT05774951',\n", " 'NCT05838768', 'NCT03761108', 'NCT05485766', 'NCT05669989',\n", " 'NCT05382559', 'NCT05410145', 'NCT04931654', 'NCT05347485',\n", " 'NCT05572515', 'NCT05546476', 'NCT05623020', 'NCT05257083',\n", " 'NCT05259839', 'NCT05440786', 'NCT05275868', 'NCT05307705',\n", " 'NCT05099172', 'NCT05201781', 'NCT05067283', 'NCT05317416',\n", " 'NCT04771078', 'NCT05083169', 'NCT06535009', 'NCT05091346',\n", " 'NCT03398655', 'NCT05064618', 'NCT04923893', 'NCT04975997',\n", " 'NCT04452591', 'NCT04221542', 'NCT04649073', 'NCT03769506',\n", " 'NCT04419532', 'NCT04008797', 'NCT03818893', 'NCT03444701'],\n", " dtype=object)" ] }, "execution_count": 10, "metadata": {}, "output_type": "execute_result" } ], "source": [ "sorted_df['NCT No'].unique()" ] }, { "cell_type": "code", "execution_count": null, "metadata": {}, "outputs": [], "source": [] } ], "metadata": { "kernelspec": { "display_name": "gradio", "language": "python", "name": "python3" }, "language_info": { "codemirror_mode": { "name": "ipython", "version": 3 }, "file_extension": ".py", "mimetype": "text/x-python", "name": "python", "nbconvert_exporter": "python", "pygments_lexer": "ipython3", "version": "3.12.3" } }, "nbformat": 4, "nbformat_minor": 2 }