FusionAI, a DNA-sequence-based deep learning protocol reduces the false positives of human fusion gene prediction

Even though there were many tool developments of fusion gene prediction from NGS data, too many false positives are still an issue. Wise use of the genomic features around the fusion gene breakpoints will be helpful to identify reliable fusion genes efficiently. For this aim, we developed FusionAI,...

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Detalles Bibliográficos
Autores principales: Kim, Pora, Tan, Hua, Liu, Jiajia, Kumar, Himansu, Zhou, Xiaobo
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Elsevier 2022
Materias:
Protocol
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8892011/
https://www.ncbi.nlm.nih.gov/pubmed/35252882
http://dx.doi.org/10.1016/j.xpro.2022.101185
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author Kim, Pora
Tan, Hua
Liu, Jiajia
Kumar, Himansu
Zhou, Xiaobo
author_facet Kim, Pora
Tan, Hua
Liu, Jiajia
Kumar, Himansu
Zhou, Xiaobo
author_sort Kim, Pora
collection PubMed
description Even though there were many tool developments of fusion gene prediction from NGS data, too many false positives are still an issue. Wise use of the genomic features around the fusion gene breakpoints will be helpful to identify reliable fusion genes efficiently. For this aim, we developed FusionAI, a deep learning pipeline predicting human fusion gene breakpoints from DNA sequence. FusionAI is freely available via https://compbio.uth.edu/FusionGDB2/FusionAI. For complete details on the use and execution of this protocol, please refer to Kim et al. (2021b).
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spelling pubmed-88920112022-03-04 FusionAI, a DNA-sequence-based deep learning protocol reduces the false positives of human fusion gene prediction Kim, Pora Tan, Hua Liu, Jiajia Kumar, Himansu Zhou, Xiaobo STAR Protoc Protocol Even though there were many tool developments of fusion gene prediction from NGS data, too many false positives are still an issue. Wise use of the genomic features around the fusion gene breakpoints will be helpful to identify reliable fusion genes efficiently. For this aim, we developed FusionAI, a deep learning pipeline predicting human fusion gene breakpoints from DNA sequence. FusionAI is freely available via https://compbio.uth.edu/FusionGDB2/FusionAI. For complete details on the use and execution of this protocol, please refer to Kim et al. (2021b). Elsevier 2022-02-28 /pmc/articles/PMC8892011/ /pubmed/35252882 http://dx.doi.org/10.1016/j.xpro.2022.101185 Text en © 2022 The Author(s) https://creativecommons.org/licenses/by-nc-nd/4.0/This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).
spellingShingle Protocol
Kim, Pora
Tan, Hua
Liu, Jiajia
Kumar, Himansu
Zhou, Xiaobo
FusionAI, a DNA-sequence-based deep learning protocol reduces the false positives of human fusion gene prediction
title FusionAI, a DNA-sequence-based deep learning protocol reduces the false positives of human fusion gene prediction
title_full FusionAI, a DNA-sequence-based deep learning protocol reduces the false positives of human fusion gene prediction
title_fullStr FusionAI, a DNA-sequence-based deep learning protocol reduces the false positives of human fusion gene prediction
title_full_unstemmed FusionAI, a DNA-sequence-based deep learning protocol reduces the false positives of human fusion gene prediction
title_short FusionAI, a DNA-sequence-based deep learning protocol reduces the false positives of human fusion gene prediction
title_sort fusionai, a dna-sequence-based deep learning protocol reduces the false positives of human fusion gene prediction
topic Protocol
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8892011/
https://www.ncbi.nlm.nih.gov/pubmed/35252882
http://dx.doi.org/10.1016/j.xpro.2022.101185
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