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  "author": "Philipp D. Rohde",
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  "author": "Philipp D. Rohde",
            
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  "author_email": "philipp.rohde@tib.eu",
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  "author_email": "philipp.rohde@tib.eu",
            
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  "defined_in": "https://doi.org/10.1016/j.inffus.2024.102557",
            
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  "doi": "10.57702/kf5tc88r",
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  "doi": "10.57702/kf5tc88r",
            
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  "doi_date_published": "2023-11-15",
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  "doi_date_published": "2023-11-15",
            
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  "doi_publisher": "TIB",
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    {
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    {
            
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      "extra_author": "Antonio Jesus Diaz-Honrubia",
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      "extra_author": "Antonio Jesus Diaz-Honrubia",
            
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      "orcid": "0000-0001-5464-0714"
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      "orcid": "0000-0001-5464-0714"
            
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      "extra_author": "Emetis Niazmand",
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      "extra_author": "Emetis Niazmand",
            
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    {
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      "extra_author": "Maria-Esther Vidal",
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      "extra_author": "Maria-Esther Vidal",
            
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      "orcid": "0000-0003-1160-8727"
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      "orcid": "0000-0003-1160-8727"
            
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  "license_title": "Creative Commons Attribution Share-Alike",
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  "maintainer": "Philipp D. Rohde",
            
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  "metadata_modified": "2024-09-11T09:00:08.797581",
            
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  "name": "paladin-benchmarks-experimental-settings-and-evaluation",
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  "name": "paladin-benchmarks-experimental-settings-and-evaluation",
            
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  "notes": "This collection includes all the data and scripts 
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  "notes": "This collection includes all the data and scripts 
            
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necessary to reproduce the results from the experimental study of 
65
necessary to reproduce the results from the experimental study of 
            
66
LADIN](https://github.com/SDM-TIB/PALADIN).\r\n\r\n__Data__\r\n\r\nThe 
66
LADIN](https://github.com/SDM-TIB/PALADIN).\r\n\r\n__Data__\r\n\r\nThe 
            
67
data is generated using the [Synthetic Data 
67
data is generated using the [Synthetic Data 
            
68
Generator](https://github.com/SDM-TIB/Synthetic-Data-Generator) which 
68
Generator](https://github.com/SDM-TIB/Synthetic-Data-Generator) which 
            
69
generates process-based breast cancer treatment data following the 
69
generates process-based breast cancer treatment data following the 
            
70
distribution in a real population of breast cancer patients. The 
70
distribution in a real population of breast cancer patients. The 
            
71
collection comprises a total of 18 data sets, nine for relational 
71
collection comprises a total of 18 data sets, nine for relational 
            
72
databases and nine for RDF-based knowledge graphs. For each data 
72
databases and nine for RDF-based knowledge graphs. For each data 
            
73
format, there are three different sizes of data sets:\r\n\r\n+ _Small_ 
73
format, there are three different sizes of data sets:\r\n\r\n+ _Small_ 
            
74
models 1,000 patients\r\n+ _Medium-sized_ models 10,000 patients\r\n+ 
74
models 1,000 patients\r\n+ _Medium-sized_ models 10,000 patients\r\n+ 
            
75
_Large_ models 100,000 patients\r\n\r\nThere are three data sets of 
75
_Large_ models 100,000 patients\r\n\r\nThere are three data sets of 
            
76
each size. They differ in the parameter used for the mutation 
76
each size. They differ in the parameter used for the mutation 
            
77
probability of the data generator. The lower this value is, the closer 
77
probability of the data generator. The lower this value is, the closer 
            
78
the data is to following the treatment guideline for breast cancer 
78
the data is to following the treatment guideline for breast cancer 
            
79
patients with an amplified HER2 gene.\r\n\r\nThe data is available for 
79
patients with an amplified HER2 gene.\r\n\r\nThe data is available for 
            
80
download in\r\n\r\n* Turtle format: `synth_data_ttl.zip`\r\n* 
80
download in\r\n\r\n* Turtle format: `synth_data_ttl.zip`\r\n* 
            
81
Preloaded for the use with Virtuoso 7.20.3237: 
81
Preloaded for the use with Virtuoso 7.20.3237: 
            
82
`synth_data_virtuoso.zip`\r\n* MySQL 8.1 dump: 
82
`synth_data_virtuoso.zip`\r\n* MySQL 8.1 dump: 
            
83
`synth_data_sql.zip`\r\n\r\n__PALADIN Schemas__\r\n\r\nThe file 
83
`synth_data_sql.zip`\r\n\r\n__PALADIN Schemas__\r\n\r\nThe file 
            
84
`paladin_schemas.zip` contains the different PALADIN schemas used in 
84
`paladin_schemas.zip` contains the different PALADIN schemas used in 
            
85
the experimental study. There are mainly seven different schemas. One 
85
the experimental study. There are mainly seven different schemas. One 
            
86
of them represents the treatment guideline for breast cancer patients 
86
of them represents the treatment guideline for breast cancer patients 
            
87
with an amplified HER2 gene. The remaining six shemas are used in the 
87
with an amplified HER2 gene. The remaining six shemas are used in the 
            
88
study of the scalability. They divide the patients based on the ranges 
88
study of the scalability. They divide the patients based on the ranges 
            
89
over their IDs. They comprise of 16, 32, 64, 128, 256, 512, and 1024 
89
over their IDs. They comprise of 16, 32, 64, 128, 256, 512, and 1024 
            
90
nodes, respectively.\r\n\r\n__Experimental Environment__\r\n\r\nIn 
90
nodes, respectively.\r\n\r\n__Experimental Environment__\r\n\r\nIn 
            
91
order to reproduce the results, download the file `experiments.zip`. 
91
order to reproduce the results, download the file `experiments.zip`. 
            
92
Once unzipped, execute the file `run_experiments.sh`. Note that you 
92
Once unzipped, execute the file `run_experiments.sh`. Note that you 
            
93
need to have Docker installed. The script `run_experiments.sh` should 
93
need to have Docker installed. The script `run_experiments.sh` should 
            
94
be executed with sudo permissions in order to let the script 
94
be executed with sudo permissions in order to let the script 
            
95
automatically transfer the ownership of the files created with Docker 
95
automatically transfer the ownership of the files created with Docker 
            
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to your user. ",
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to your user. ",
            
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Technology, abbreviated TIB, is the national library of the Federal 
            
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Republic of Germany for all fields of engineering, technology, and the 
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