EZCancerTarget: an open-access drug repurposing and data-collection tool to enhance target validation and optimize international research efforts against highly progressive cancers
Abstract The expanding body of potential therapeutic targets requires easily accessible, structured, and transparent real-time interpretation of molecular data. Open-access genomic, proteomic and drug-repurposing databases transformed the landscape of cancer research, but most of them are difficult...
| Main Authors: | , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
BMC
2022-10-01
|
| Series: | BioData Mining |
| Subjects: | |
| Online Access: | https://doi.org/10.1186/s13040-022-00307-9 |
| _version_ | 1811236486728646656 |
|---|---|
| author | David Dora Timea Dora Gabor Szegvari Csongor Gerdán Zoltan Lohinai |
| author_facet | David Dora Timea Dora Gabor Szegvari Csongor Gerdán Zoltan Lohinai |
| author_sort | David Dora |
| collection | DOAJ |
| description | Abstract The expanding body of potential therapeutic targets requires easily accessible, structured, and transparent real-time interpretation of molecular data. Open-access genomic, proteomic and drug-repurposing databases transformed the landscape of cancer research, but most of them are difficult and time-consuming for casual users. Furthermore, to conduct systematic searches and data retrieval on multiple targets, researchers need the help of an expert bioinformatician, who is not always readily available for smaller research teams. We invite research teams to join and aim to enhance the cooperative work of more experienced groups to harmonize international efforts to overcome devastating malignancies. Here, we integrate available fundamental data and present a novel, open access, data-aggregating, drug repurposing platform, deriving our searches from the entries of Clue.io. We show how we integrated our previous expertise in small-cell lung cancer (SCLC) to initiate a new platform to overcome highly progressive cancers such as triple-negative breast and pancreatic cancer with data-aggregating approaches. Through the front end, the current content of the platform can be further expanded or replaced and users can create their drug-target list to select the clinically most relevant targets for further functional validation assays or drug trials. EZCancerTarget integrates searches from publicly available databases, such as PubChem, DrugBank, PubMed, and EMA, citing up-to-date and relevant literature of every target. Moreover, information on compounds is complemented with biological background information on eligible targets using entities like UniProt, String, and GeneCards, presenting relevant pathways, molecular- and biological function and subcellular localizations of these molecules. Cancer drug discovery requires a convergence of complex, often disparate fields. We present a simple, transparent, and user-friendly drug repurposing software to facilitate the efforts of research groups in the field of cancer research. |
| first_indexed | 2024-04-12T12:09:28Z |
| format | Article |
| id | doaj.art-cd24254ec026492fa04e035c6346b1c9 |
| institution | Directory Open Access Journal |
| issn | 1756-0381 |
| language | English |
| last_indexed | 2024-04-12T12:09:28Z |
| publishDate | 2022-10-01 |
| publisher | BMC |
| record_format | Article |
| series | BioData Mining |
| spelling | doaj.art-cd24254ec026492fa04e035c6346b1c92022-12-22T03:33:37ZengBMCBioData Mining1756-03812022-10-0115111310.1186/s13040-022-00307-9EZCancerTarget: an open-access drug repurposing and data-collection tool to enhance target validation and optimize international research efforts against highly progressive cancersDavid Dora0Timea Dora1Gabor Szegvari2Csongor Gerdán3Zoltan Lohinai4Department of Anatomy, Histology, and Embryology, Semmelweis UniversityDepartment of Management and Business Economics, Budapest University of Technology and EconomicsTranslational Medicine Institute, Semmelweis UniversityNational Korányi Institute of PulmonologyTranslational Medicine Institute, Semmelweis UniversityAbstract The expanding body of potential therapeutic targets requires easily accessible, structured, and transparent real-time interpretation of molecular data. Open-access genomic, proteomic and drug-repurposing databases transformed the landscape of cancer research, but most of them are difficult and time-consuming for casual users. Furthermore, to conduct systematic searches and data retrieval on multiple targets, researchers need the help of an expert bioinformatician, who is not always readily available for smaller research teams. We invite research teams to join and aim to enhance the cooperative work of more experienced groups to harmonize international efforts to overcome devastating malignancies. Here, we integrate available fundamental data and present a novel, open access, data-aggregating, drug repurposing platform, deriving our searches from the entries of Clue.io. We show how we integrated our previous expertise in small-cell lung cancer (SCLC) to initiate a new platform to overcome highly progressive cancers such as triple-negative breast and pancreatic cancer with data-aggregating approaches. Through the front end, the current content of the platform can be further expanded or replaced and users can create their drug-target list to select the clinically most relevant targets for further functional validation assays or drug trials. EZCancerTarget integrates searches from publicly available databases, such as PubChem, DrugBank, PubMed, and EMA, citing up-to-date and relevant literature of every target. Moreover, information on compounds is complemented with biological background information on eligible targets using entities like UniProt, String, and GeneCards, presenting relevant pathways, molecular- and biological function and subcellular localizations of these molecules. Cancer drug discovery requires a convergence of complex, often disparate fields. We present a simple, transparent, and user-friendly drug repurposing software to facilitate the efforts of research groups in the field of cancer research.https://doi.org/10.1186/s13040-022-00307-9Drug-repurposingCancer researchDrug databaseData miningLung cancer |
| spellingShingle | David Dora Timea Dora Gabor Szegvari Csongor Gerdán Zoltan Lohinai EZCancerTarget: an open-access drug repurposing and data-collection tool to enhance target validation and optimize international research efforts against highly progressive cancers BioData Mining Drug-repurposing Cancer research Drug database Data mining Lung cancer |
| title | EZCancerTarget: an open-access drug repurposing and data-collection tool to enhance target validation and optimize international research efforts against highly progressive cancers |
| title_full | EZCancerTarget: an open-access drug repurposing and data-collection tool to enhance target validation and optimize international research efforts against highly progressive cancers |
| title_fullStr | EZCancerTarget: an open-access drug repurposing and data-collection tool to enhance target validation and optimize international research efforts against highly progressive cancers |
| title_full_unstemmed | EZCancerTarget: an open-access drug repurposing and data-collection tool to enhance target validation and optimize international research efforts against highly progressive cancers |
| title_short | EZCancerTarget: an open-access drug repurposing and data-collection tool to enhance target validation and optimize international research efforts against highly progressive cancers |
| title_sort | ezcancertarget an open access drug repurposing and data collection tool to enhance target validation and optimize international research efforts against highly progressive cancers |
| topic | Drug-repurposing Cancer research Drug database Data mining Lung cancer |
| url | https://doi.org/10.1186/s13040-022-00307-9 |
| work_keys_str_mv | AT daviddora ezcancertargetanopenaccessdrugrepurposinganddatacollectiontooltoenhancetargetvalidationandoptimizeinternationalresearcheffortsagainsthighlyprogressivecancers AT timeadora ezcancertargetanopenaccessdrugrepurposinganddatacollectiontooltoenhancetargetvalidationandoptimizeinternationalresearcheffortsagainsthighlyprogressivecancers AT gaborszegvari ezcancertargetanopenaccessdrugrepurposinganddatacollectiontooltoenhancetargetvalidationandoptimizeinternationalresearcheffortsagainsthighlyprogressivecancers AT csongorgerdan ezcancertargetanopenaccessdrugrepurposinganddatacollectiontooltoenhancetargetvalidationandoptimizeinternationalresearcheffortsagainsthighlyprogressivecancers AT zoltanlohinai ezcancertargetanopenaccessdrugrepurposinganddatacollectiontooltoenhancetargetvalidationandoptimizeinternationalresearcheffortsagainsthighlyprogressivecancers |