Filters
Clear AllLoading
integration_instructions Research softwarekeyboard_double_arrow_right Software 2023 Pythonbio.tools Bernasconi, Anna; Garcia, Giuseppe Serna; Invernici, Francesco;Bernasconi, Anna; Garcia, Giuseppe Serna; Invernici, Francesco;Interactive System for Mining the Effects of SARS-CoV-2 Mutations and Variants Based on Deep Learning
Do the share buttons not appear? Please make sure, any blocking addon is disabled, and then reload the page.All Research productsarrow_drop_down <script type="text/javascript"> <!-- document.write('<div id="oa_widget"></div>'); document.write('<script type="text/javascript" src="https://www.openaire.eu/index.php?option=com_openaire&view=widget&format=raw&projectId=__bioTools__::d4c445601b0ab43995e7448fffc11abf&type=result"></script>'); --> </script>For further information contact us at helpdesk@openaire.euintegration_instructions Research softwarekeyboard_double_arrow_right Software 2022 Shellbio.tools Trieu, Hai-Long;Trieu, Hai-Long;BioVAE is a pre-trained latent variable language model for biomedical text mining. Large scale pre-trained language models (PLMs) have advanced state-of-the-art (SOTA) performance on various biomedical text mining tasks. The power of such PLMs can be combined with the advantages of deep generative models. These are examples of these combinations. However, they are trained only on general domain text, and biomedical models are still missing. In this work, we describe BioVAE, the first large scale pre-trained latent variable language model for the biomedical domain, which uses the OPTIMUS framework to train on large volumes of biomedical text. The model shows SOTA performance on several biomedical text mining tasks when compared to existing publicly available biomedical PLMs.
Do the share buttons not appear? Please make sure, any blocking addon is disabled, and then reload the page.All Research productsarrow_drop_down <script type="text/javascript"> <!-- document.write('<div id="oa_widget"></div>'); document.write('<script type="text/javascript" src="https://www.openaire.eu/index.php?option=com_openaire&view=widget&format=raw&projectId=__bioTools__::1332b0ab84e607de984a83d7bc680061&type=result"></script>'); --> </script>For further information contact us at helpdesk@openaire.euintegration_instructions Research softwarekeyboard_double_arrow_right Software 2022bio.tools Zhu, Xiaolei;Zhu, Xiaolei;BERT-Kcr is a tool for prediction of lysine crotonylation sites by a transfer learning method with pre-trained BERT models.
Do the share buttons not appear? Please make sure, any blocking addon is disabled, and then reload the page.All Research productsarrow_drop_down <script type="text/javascript"> <!-- document.write('<div id="oa_widget"></div>'); document.write('<script type="text/javascript" src="https://www.openaire.eu/index.php?option=com_openaire&view=widget&format=raw&projectId=__bioTools__::de30c21675b18898646a749e945761ae&type=result"></script>'); --> </script>For further information contact us at helpdesk@openaire.euintegration_instructions Research softwarekeyboard_double_arrow_right Software 2022 Pythonbio.tools Elnaggar, Ahmed; Heinzinger, Michael; Dallago, Christian; Wang, Yu;Elnaggar, Ahmed; Heinzinger, Michael; Dallago, Christian; Wang, Yu;ProtTrans is providing state of the art pre-trained models for proteins. ProtTrans was trained on thousands of GPUs from Summit and hundreds of Google TPUs using various Transformers Models.
Do the share buttons not appear? Please make sure, any blocking addon is disabled, and then reload the page.All Research productsarrow_drop_down <script type="text/javascript"> <!-- document.write('<div id="oa_widget"></div>'); document.write('<script type="text/javascript" src="https://www.openaire.eu/index.php?option=com_openaire&view=widget&format=raw&projectId=__bioTools__::a350a1386879ae6cabf5b36414122181&type=result"></script>'); --> </script>For further information contact us at helpdesk@openaire.euintegration_instructions Research softwarekeyboard_double_arrow_right Software 2021 Rbio.tools Tsiamis, Vasileios; Schwämmle, Veit;Tsiamis, Vasileios; Schwämmle, Veit;VIQoR, is a user-friendly web service for Visually supervised protein Inference and protein Quantification implemented in R. The Shiny web interface integrates the post-identification processes involved in protein inference and relative protein abundance summarization, along with smart and novel interactive visualization modules to support the common researchers with a straight-forward tool for protein quantification, data browsing and data inspection.
Do the share buttons not appear? Please make sure, any blocking addon is disabled, and then reload the page.All Research productsarrow_drop_down <script type="text/javascript"> <!-- document.write('<div id="oa_widget"></div>'); document.write('<script type="text/javascript" src="https://www.openaire.eu/index.php?option=com_openaire&view=widget&format=raw&projectId=__bioTools__::2292ee67b4f4b20eea79c53dab826770&type=result"></script>'); --> </script>For further information contact us at helpdesk@openaire.euintegration_instructions Research softwarekeyboard_double_arrow_right Software 2021bio.tools Lever, Jake;Lever, Jake;CoronaCentral is a tool for analyzing the vast coronavirus literature with CoronaCentral.
Do the share buttons not appear? Please make sure, any blocking addon is disabled, and then reload the page.All Research productsarrow_drop_down <script type="text/javascript"> <!-- document.write('<div id="oa_widget"></div>'); document.write('<script type="text/javascript" src="https://www.openaire.eu/index.php?option=com_openaire&view=widget&format=raw&projectId=__bioTools__::ccbc52b2a47676d2a92b018c2aabaaaa&type=result"></script>'); --> </script>For further information contact us at helpdesk@openaire.euintegration_instructions Research softwarekeyboard_double_arrow_right Software 2021bio.tools Biofactoid;Biofactoid;Biofactoid is a web-based system that empowers authors to capture and share machine-readable summaries of molecular-level interactions described in their publications.
Do the share buttons not appear? Please make sure, any blocking addon is disabled, and then reload the page.All Research productsarrow_drop_down <script type="text/javascript"> <!-- document.write('<div id="oa_widget"></div>'); document.write('<script type="text/javascript" src="https://www.openaire.eu/index.php?option=com_openaire&view=widget&format=raw&projectId=__bioTools__::8531504a38265b7d9d249264d726bf02&type=result"></script>'); --> </script>For further information contact us at helpdesk@openaire.euintegration_instructions Research softwarekeyboard_double_arrow_right Software 2021 Pythonbio.tools NIH | A framework to enhance ra... (4R00LM013001-02)Lu, Zhiyong;Lu, Zhiyong;COVID-19-CT-CXR is a public database of COVID-19 CXR and CT images, which are automatically extracted from COVID-19-relevant articles from the PubMed Central Open Access (PMC-OA) Subset.
Do the share buttons not appear? Please make sure, any blocking addon is disabled, and then reload the page.All Research productsarrow_drop_down <script type="text/javascript"> <!-- document.write('<div id="oa_widget"></div>'); document.write('<script type="text/javascript" src="https://www.openaire.eu/index.php?option=com_openaire&view=widget&format=raw&projectId=__bioTools__::b713ff83182a222c35db000b88032171&type=result"></script>'); --> </script>For further information contact us at helpdesk@openaire.euintegration_instructions Research softwarekeyboard_double_arrow_right Software 2021 EnglishZenodo EC | HERILAND (813883)Nan, Bai; Renqian, Luo;Nan, Bai; Renqian, Luo;WHOSe Heritage: Classification of UNESCO World Heritage "Outstanding Universal Value" Documents with Smoothed Labels This repository provides the supplemental materials for reproducing the results of the above-mentioned paper as submitted to arXiv preprint server, including both models and results.
add ClaimPlease grant OpenAIRE to access and update your ORCID works.This Research product is the result of merged Research products in OpenAIRE.
You have already added works in your ORCID record related to the merged Research product.This Research product is the result of merged Research products in OpenAIRE.
You have already added works in your ORCID record related to the merged Research product.Do the share buttons not appear? Please make sure, any blocking addon is disabled, and then reload the page.All Research productsarrow_drop_down <script type="text/javascript"> <!-- document.write('<div id="oa_widget"></div>'); document.write('<script type="text/javascript" src="https://www.openaire.eu/index.php?option=com_openaire&view=widget&format=raw&projectId=10.5281/zenodo.4680508&type=result"></script>'); --> </script>For further information contact us at helpdesk@openaire.eu0 citations 0 popularity Average influence Average impulse Average 
Powered by BIP!visibility 31visibility views 31 download downloads 4 Powered by
integration_instructions Research softwarekeyboard_double_arrow_right Software 2021 Rbio.tools Arnold, James N.; Kordasti, Shahram;Arnold, James N.; Kordasti, Shahram;A computational framework for the non-specialist to profile cellular heterogeneity in cytometry datasets. The immunoCluster package uses the scDataViz bioconductor package’s vizualization tools and adaptation of the SingleCellExperiment data structure to build simple and flexible cytometry analysis workflows like those outlined in Nowicka et al. (2017) CyTOF workflow: differential discovery in high-throughput high-dimensional cytometry datasets.
Do the share buttons not appear? Please make sure, any blocking addon is disabled, and then reload the page.All Research productsarrow_drop_down <script type="text/javascript"> <!-- document.write('<div id="oa_widget"></div>'); document.write('<script type="text/javascript" src="https://www.openaire.eu/index.php?option=com_openaire&view=widget&format=raw&projectId=__bioTools__::7be28d6582db7ab57b395f6bf9e33b2a&type=result"></script>'); --> </script>For further information contact us at helpdesk@openaire.eu
Loading
integration_instructions Research softwarekeyboard_double_arrow_right Software 2023 Pythonbio.tools Bernasconi, Anna; Garcia, Giuseppe Serna; Invernici, Francesco;Bernasconi, Anna; Garcia, Giuseppe Serna; Invernici, Francesco;Interactive System for Mining the Effects of SARS-CoV-2 Mutations and Variants Based on Deep Learning
Do the share buttons not appear? Please make sure, any blocking addon is disabled, and then reload the page.All Research productsarrow_drop_down <script type="text/javascript"> <!-- document.write('<div id="oa_widget"></div>'); document.write('<script type="text/javascript" src="https://www.openaire.eu/index.php?option=com_openaire&view=widget&format=raw&projectId=__bioTools__::d4c445601b0ab43995e7448fffc11abf&type=result"></script>'); --> </script>For further information contact us at helpdesk@openaire.euintegration_instructions Research softwarekeyboard_double_arrow_right Software 2022 Shellbio.tools Trieu, Hai-Long;Trieu, Hai-Long;BioVAE is a pre-trained latent variable language model for biomedical text mining. Large scale pre-trained language models (PLMs) have advanced state-of-the-art (SOTA) performance on various biomedical text mining tasks. The power of such PLMs can be combined with the advantages of deep generative models. These are examples of these combinations. However, they are trained only on general domain text, and biomedical models are still missing. In this work, we describe BioVAE, the first large scale pre-trained latent variable language model for the biomedical domain, which uses the OPTIMUS framework to train on large volumes of biomedical text. The model shows SOTA performance on several biomedical text mining tasks when compared to existing publicly available biomedical PLMs.
Do the share buttons not appear? Please make sure, any blocking addon is disabled, and then reload the page.All Research productsarrow_drop_down <script type="text/javascript"> <!-- document.write('<div id="oa_widget"></div>'); document.write('<script type="text/javascript" src="https://www.openaire.eu/index.php?option=com_openaire&view=widget&format=raw&projectId=__bioTools__::1332b0ab84e607de984a83d7bc680061&type=result"></script>'); --> </script>For further information contact us at helpdesk@openaire.euintegration_instructions Research softwarekeyboard_double_arrow_right Software 2022bio.tools Zhu, Xiaolei;Zhu, Xiaolei;BERT-Kcr is a tool for prediction of lysine crotonylation sites by a transfer learning method with pre-trained BERT models.
Do the share buttons not appear? Please make sure, any blocking addon is disabled, and then reload the page.All Research productsarrow_drop_down <script type="text/javascript"> <!-- document.write('<div id="oa_widget"></div>'); document.write('<script type="text/javascript" src="https://www.openaire.eu/index.php?option=com_openaire&view=widget&format=raw&projectId=__bioTools__::de30c21675b18898646a749e945761ae&type=result"></script>'); --> </script>For further information contact us at helpdesk@openaire.euintegration_instructions Research softwarekeyboard_double_arrow_right Software 2022 Pythonbio.tools Elnaggar, Ahmed; Heinzinger, Michael; Dallago, Christian; Wang, Yu;Elnaggar, Ahmed; Heinzinger, Michael; Dallago, Christian; Wang, Yu;ProtTrans is providing state of the art pre-trained models for proteins. ProtTrans was trained on thousands of GPUs from Summit and hundreds of Google TPUs using various Transformers Models.
Do the share buttons not appear? Please make sure, any blocking addon is disabled, and then reload the page.All Research productsarrow_drop_down <script type="text/javascript"> <!-- document.write('<div id="oa_widget"></div>'); document.write('<script type="text/javascript" src="https://www.openaire.eu/index.php?option=com_openaire&view=widget&format=raw&projectId=__bioTools__::a350a1386879ae6cabf5b36414122181&type=result"></script>'); --> </script>For further information contact us at helpdesk@openaire.euintegration_instructions Research softwarekeyboard_double_arrow_right Software 2021 Rbio.tools Tsiamis, Vasileios; Schwämmle, Veit;Tsiamis, Vasileios; Schwämmle, Veit;VIQoR, is a user-friendly web service for Visually supervised protein Inference and protein Quantification implemented in R. The Shiny web interface integrates the post-identification processes involved in protein inference and relative protein abundance summarization, along with smart and novel interactive visualization modules to support the common researchers with a straight-forward tool for protein quantification, data browsing and data inspection.
Do the share buttons not appear? Please make sure, any blocking addon is disabled, and then reload the page.All Research productsarrow_drop_down <script type="text/javascript"> <!-- document.write('<div id="oa_widget"></div>'); document.write('<script type="text/javascript" src="https://www.openaire.eu/index.php?option=com_openaire&view=widget&format=raw&projectId=__bioTools__::2292ee67b4f4b20eea79c53dab826770&type=result"></script>'); --> </script>For further information contact us at helpdesk@openaire.euintegration_instructions Research softwarekeyboard_double_arrow_right Software 2021bio.tools Lever, Jake;Lever, Jake;CoronaCentral is a tool for analyzing the vast coronavirus literature with CoronaCentral.
Do the share buttons not appear? Please make sure, any blocking addon is disabled, and then reload the page.All Research productsarrow_drop_down <script type="text/javascript"> <!-- document.write('<div id="oa_widget"></div>'); document.write('<script type="text/javascript" src="https://www.openaire.eu/index.php?option=com_openaire&view=widget&format=raw&projectId=__bioTools__::ccbc52b2a47676d2a92b018c2aabaaaa&type=result"></script>'); --> </script>For further information contact us at helpdesk@openaire.euintegration_instructions Research softwarekeyboard_double_arrow_right Software 2021bio.tools Biofactoid;Biofactoid;Biofactoid is a web-based system that empowers authors to capture and share machine-readable summaries of molecular-level interactions described in their publications.
Do the share buttons not appear? Please make sure, any blocking addon is disabled, and then reload the page.All Research productsarrow_drop_down <script type="text/javascript"> <!-- document.write('<div id="oa_widget"></div>'); document.write('<script type="text/javascript" src="https://www.openaire.eu/index.php?option=com_openaire&view=widget&format=raw&projectId=__bioTools__::8531504a38265b7d9d249264d726bf02&type=result"></script>'); --> </script>For further information contact us at helpdesk@openaire.euintegration_instructions Research softwarekeyboard_double_arrow_right Software 2021 Pythonbio.tools NIH | A framework to enhance ra... (4R00LM013001-02)Lu, Zhiyong;Lu, Zhiyong;COVID-19-CT-CXR is a public database of COVID-19 CXR and CT images, which are automatically extracted from COVID-19-relevant articles from the PubMed Central Open Access (PMC-OA) Subset.
Do the share buttons not appear? Please make sure, any blocking addon is disabled, and then reload the page.All Research productsarrow_drop_down <script type="text/javascript"> <!-- document.write('<div id="oa_widget"></div>'); document.write('<script type="text/javascript" src="https://www.openaire.eu/index.php?option=com_openaire&view=widget&format=raw&projectId=__bioTools__::b713ff83182a222c35db000b88032171&type=result"></script>'); --> </script>For further information contact us at helpdesk@openaire.euintegration_instructions Research softwarekeyboard_double_arrow_right Software 2021 EnglishZenodo EC | HERILAND (813883)Nan, Bai; Renqian, Luo;Nan, Bai; Renqian, Luo;WHOSe Heritage: Classification of UNESCO World Heritage "Outstanding Universal Value" Documents with Smoothed Labels This repository provides the supplemental materials for reproducing the results of the above-mentioned paper as submitted to arXiv preprint server, including both models and results.
add ClaimPlease grant OpenAIRE to access and update your ORCID works.This Research product is the result of merged Research products in OpenAIRE.
You have already added works in your ORCID record related to the merged Research product.This Research product is the result of merged Research products in OpenAIRE.
You have already added works in your ORCID record related to the merged Research product.Do the share buttons not appear? Please make sure, any blocking addon is disabled, and then reload the page.All Research productsarrow_drop_down <script type="text/javascript"> <!-- document.write('<div id="oa_widget"></div>'); document.write('<script type="text/javascript" src="https://www.openaire.eu/index.php?option=com_openaire&view=widget&format=raw&projectId=10.5281/zenodo.4680508&type=result"></script>'); --> </script>For further information contact us at helpdesk@openaire.eu0 citations 0 popularity Average influence Average impulse Average Powered by BIP!visibility 31visibility views 31 download downloads 4 Powered byintegration_instructions Research softwarekeyboard_double_arrow_right Software 2021 Rbio.tools Arnold, James N.; Kordasti, Shahram;Arnold, James N.; Kordasti, Shahram;A computational framework for the non-specialist to profile cellular heterogeneity in cytometry datasets. The immunoCluster package uses the scDataViz bioconductor package’s vizualization tools and adaptation of the SingleCellExperiment data structure to build simple and flexible cytometry analysis workflows like those outlined in Nowicka et al. (2017) CyTOF workflow: differential discovery in high-throughput high-dimensional cytometry datasets.
Do the share buttons not appear? Please make sure, any blocking addon is disabled, and then reload the page.All Research productsarrow_drop_down <script type="text/javascript"> <!-- document.write('<div id="oa_widget"></div>'); document.write('<script type="text/javascript" src="https://www.openaire.eu/index.php?option=com_openaire&view=widget&format=raw&projectId=__bioTools__::7be28d6582db7ab57b395f6bf9e33b2a&type=result"></script>'); --> </script>For further information contact us at helpdesk@openaire.eu