Changes
On April 11, 2024 at 7:21:11 AM UTC, Philipp D. Rohde:
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f | 1 | { | f | 1 | { |
2 | "author": "Philipp D. Rohde", | 2 | "author": "Philipp D. Rohde", | ||
3 | "author_email": "philipp.rohde@tib.eu", | 3 | "author_email": "philipp.rohde@tib.eu", | ||
4 | "creator_user_id": "de54a873-8acf-4fa5-bb95-5342cf7fd041", | 4 | "creator_user_id": "de54a873-8acf-4fa5-bb95-5342cf7fd041", | ||
5 | "doi": "10.57702/kf5tc88r", | 5 | "doi": "10.57702/kf5tc88r", | ||
6 | "doi_date_published": "2023-11-15", | 6 | "doi_date_published": "2023-11-15", | ||
7 | "doi_publisher": "TIB", | 7 | "doi_publisher": "TIB", | ||
8 | "doi_status": true, | 8 | "doi_status": true, | ||
9 | "domain": "https://service.tib.eu/ldmservice", | 9 | "domain": "https://service.tib.eu/ldmservice", | ||
10 | "extra_authors": [ | 10 | "extra_authors": [ | ||
11 | { | 11 | { | ||
12 | "extra_author": "Antonio Jesus Diaz-Honrubia", | 12 | "extra_author": "Antonio Jesus Diaz-Honrubia", | ||
13 | "orcid": "0000-0001-5464-0714" | 13 | "orcid": "0000-0001-5464-0714" | ||
14 | }, | 14 | }, | ||
15 | { | 15 | { | ||
16 | "extra_author": "Emetis Niazmand", | 16 | "extra_author": "Emetis Niazmand", | ||
17 | "orcid": "0000-0001-8194-8079" | 17 | "orcid": "0000-0001-8194-8079" | ||
18 | }, | 18 | }, | ||
19 | { | 19 | { | ||
20 | "extra_author": "Maria-Esther Vidal", | 20 | "extra_author": "Maria-Esther Vidal", | ||
21 | "orcid": "0000-0003-1160-8727" | 21 | "orcid": "0000-0003-1160-8727" | ||
22 | } | 22 | } | ||
23 | ], | 23 | ], | ||
24 | "extras": [ | 24 | "extras": [ | ||
25 | { | 25 | { | ||
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37 | "isopen": true, | 37 | "isopen": true, | ||
38 | "license_id": "cc-by-sa", | 38 | "license_id": "cc-by-sa", | ||
39 | "license_title": "Creative Commons Attribution Share-Alike", | 39 | "license_title": "Creative Commons Attribution Share-Alike", | ||
40 | "license_url": "http://www.opendefinition.org/licenses/cc-by-sa", | 40 | "license_url": "http://www.opendefinition.org/licenses/cc-by-sa", | ||
41 | "maintainer": "", | 41 | "maintainer": "", | ||
42 | "maintainer_email": "", | 42 | "maintainer_email": "", | ||
43 | "metadata_created": "2023-11-10T15:17:42.752028", | 43 | "metadata_created": "2023-11-10T15:17:42.752028", | ||
n | 44 | "metadata_modified": "2024-04-11T07:20:18.955233", | n | 44 | "metadata_modified": "2024-04-11T07:21:09.211249", |
45 | "name": "paladin-benchmarks-experimental-settings-and-evaluation", | 45 | "name": "paladin-benchmarks-experimental-settings-and-evaluation", | ||
46 | "notes": "This collection includes all the data and scripts | 46 | "notes": "This collection includes all the data and scripts | ||
47 | necessary to reproduce the results from the experimental study of | 47 | necessary to reproduce the results from the experimental study of | ||
48 | LADIN](https://github.com/SDM-TIB/PALADIN).\r\n\r\n__Data__\r\n\r\nThe | 48 | LADIN](https://github.com/SDM-TIB/PALADIN).\r\n\r\n__Data__\r\n\r\nThe | ||
49 | data is generated using the [Synthetic Data | 49 | data is generated using the [Synthetic Data | ||
50 | Generator](https://github.com/SDM-TIB/Synthetic-Data-Generator) which | 50 | Generator](https://github.com/SDM-TIB/Synthetic-Data-Generator) which | ||
51 | generates process-based breast cancer treatment data following the | 51 | generates process-based breast cancer treatment data following the | ||
52 | distribution in a real population of breast cancer patients. The | 52 | distribution in a real population of breast cancer patients. The | ||
53 | collection comprises a total of 18 data sets, nine for relational | 53 | collection comprises a total of 18 data sets, nine for relational | ||
54 | databases and nine for RDF-based knowledge graphs. For each data | 54 | databases and nine for RDF-based knowledge graphs. For each data | ||
55 | format, there are three different sizes of data sets:\r\n\r\n+ _Small_ | 55 | format, there are three different sizes of data sets:\r\n\r\n+ _Small_ | ||
56 | models 1,000 patients\r\n+ _Medium-sized_ models 10,000 patients\r\n+ | 56 | models 1,000 patients\r\n+ _Medium-sized_ models 10,000 patients\r\n+ | ||
57 | _Large_ models 100,000 patients\r\n\r\nThere are three data sets of | 57 | _Large_ models 100,000 patients\r\n\r\nThere are three data sets of | ||
58 | each size. They differ in the parameter used for the mutation | 58 | each size. They differ in the parameter used for the mutation | ||
59 | probability of the data generator. The lower this value is, the closer | 59 | probability of the data generator. The lower this value is, the closer | ||
60 | the data is to following the treatment guideline for breast cancer | 60 | the data is to following the treatment guideline for breast cancer | ||
61 | patients with an amplified HER2 gene.\r\n\r\nThe data is available for | 61 | patients with an amplified HER2 gene.\r\n\r\nThe data is available for | ||
62 | download in\r\n\r\n* Turtle format: `synth_data_ttl.zip`\r\n* | 62 | download in\r\n\r\n* Turtle format: `synth_data_ttl.zip`\r\n* | ||
63 | Preloaded for the use with Virtuoso 7.20.3237: | 63 | Preloaded for the use with Virtuoso 7.20.3237: | ||
64 | `synth_data_virtuoso.zip`\r\n* MySQL 8.1 dump: | 64 | `synth_data_virtuoso.zip`\r\n* MySQL 8.1 dump: | ||
65 | `synth_data_sql.zip`\r\n\r\n__PALADIN Schemas__\r\n\r\nThe file | 65 | `synth_data_sql.zip`\r\n\r\n__PALADIN Schemas__\r\n\r\nThe file | ||
66 | `paladin_schemas.zip` contains the different PALADIN schemas used in | 66 | `paladin_schemas.zip` contains the different PALADIN schemas used in | ||
67 | the experimental study. There are mainly four different schemas. One | 67 | the experimental study. There are mainly four different schemas. One | ||
68 | of them represents the treatment guideline for breast cancer patients | 68 | of them represents the treatment guideline for breast cancer patients | ||
69 | with an amplified HER2 gene. The remaining three shemas are used in | 69 | with an amplified HER2 gene. The remaining three shemas are used in | ||
70 | the study of the scalability. They divide the patients based on the | 70 | the study of the scalability. They divide the patients based on the | ||
71 | ranges over their IDs. They comprise of 64, 256, and 1024 nodes, | 71 | ranges over their IDs. They comprise of 64, 256, and 1024 nodes, | ||
72 | respectively.\r\n\r\n__Experimental Environment__\r\n\r\nIn order to | 72 | respectively.\r\n\r\n__Experimental Environment__\r\n\r\nIn order to | ||
73 | reproduce the results, download the file `experiments.zip`. Once | 73 | reproduce the results, download the file `experiments.zip`. Once | ||
74 | unzipped, execute the file `run_experiments.sh`. Note that you need to | 74 | unzipped, execute the file `run_experiments.sh`. Note that you need to | ||
75 | have Docker installed. The script `run_experiments.sh` should be | 75 | have Docker installed. The script `run_experiments.sh` should be | ||
76 | executed with sudo permissions in order to let the script | 76 | executed with sudo permissions in order to let the script | ||
77 | automatically transfer the ownership of the files created with Docker | 77 | automatically transfer the ownership of the files created with Docker | ||
78 | to your user. ", | 78 | to your user. ", | ||
79 | "num_resources": 5, | 79 | "num_resources": 5, | ||
80 | "num_tags": 0, | 80 | "num_tags": 0, | ||
81 | "orcid": "0000-0002-9835-4354", | 81 | "orcid": "0000-0002-9835-4354", | ||
82 | "organization": { | 82 | "organization": { | ||
83 | "approval_status": "approved", | 83 | "approval_status": "approved", | ||
84 | "created": "2017-11-23T17:30:37.757128", | 84 | "created": "2017-11-23T17:30:37.757128", | ||
85 | "description": "The German National Library of Science and | 85 | "description": "The German National Library of Science and | ||
86 | Technology, abbreviated TIB, is the national library of the Federal | 86 | Technology, abbreviated TIB, is the national library of the Federal | ||
87 | Republic of Germany for all fields of engineering, technology, and the | 87 | Republic of Germany for all fields of engineering, technology, and the | ||
88 | natural sciences.", | 88 | natural sciences.", | ||
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90 | "image_url": | 90 | "image_url": | ||
91 | 3conf/ext/tib_tmpl_bootstrap/Resources/Public/images/TIB_Logo_en.png", | 91 | 3conf/ext/tib_tmpl_bootstrap/Resources/Public/images/TIB_Logo_en.png", | ||
92 | "is_organization": true, | 92 | "is_organization": true, | ||
93 | "name": "tib", | 93 | "name": "tib", | ||
94 | "state": "active", | 94 | "state": "active", | ||
95 | "title": "TIB", | 95 | "title": "TIB", | ||
96 | "type": "organization" | 96 | "type": "organization" | ||
97 | }, | 97 | }, | ||
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187 | "created": "2023-11-10T15:24:32.024426", | 187 | "created": "2023-11-10T15:24:32.024426", | ||
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212 | "created": "2023-11-10T15:25:37.491260", | 212 | "created": "2023-11-10T15:25:37.491260", | ||
213 | "description": "Complete experiment environment for reproducing | 213 | "description": "Complete experiment environment for reproducing | ||
214 | the results", | 214 | the results", | ||
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229 | source/21bcc348-5e53-4994-97da-dc094c6113fb/download/experiments.zip", | 229 | source/21bcc348-5e53-4994-97da-dc094c6113fb/download/experiments.zip", | ||
230 | "url_type": "upload" | 230 | "url_type": "upload" | ||
231 | } | 231 | } | ||
232 | ], | 232 | ], | ||
233 | "services_used_list": "", | 233 | "services_used_list": "", | ||
234 | "state": "active", | 234 | "state": "active", | ||
235 | "tags": [], | 235 | "tags": [], | ||
236 | "title": "PALADIN: Benchmarks, Experimental Settings, and | 236 | "title": "PALADIN: Benchmarks, Experimental Settings, and | ||
237 | Evaluation", | 237 | Evaluation", | ||
238 | "type": "dataset", | 238 | "type": "dataset", | ||
239 | "url": "", | 239 | "url": "", | ||
240 | "version": "" | 240 | "version": "" | ||
241 | } | 241 | } |