microProtein Prediction Program (miP3): A Software for Predicting microProteins and Their Target Transcription Factors
An emerging concept in transcriptional regulation is that a class of truncated transcription factors (TFs), called microProteins (miPs), engages in protein-protein interactions with TF complexes and provides feedback controls. A handful of miP examples have been described in the literature but the e...
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| Main Authors: | , , , |
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| Format: | Article |
| Language: | English |
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Wiley
2015-01-01
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| Series: | International Journal of Genomics |
| Online Access: | http://dx.doi.org/10.1155/2015/734147 |
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| _version_ | 1850177415734624256 |
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| author | Niek de Klein Enrico Magnani Michael Banf Seung Yon Rhee |
| author_facet | Niek de Klein Enrico Magnani Michael Banf Seung Yon Rhee |
| author_sort | Niek de Klein |
| collection | DOAJ |
| description | An emerging concept in transcriptional regulation is that a class of truncated transcription factors (TFs), called microProteins (miPs), engages in protein-protein interactions with TF complexes and provides feedback controls. A handful of miP examples have been described in the literature but the extent of their prevalence is unclear. Here we present an algorithm that predicts miPs and their target TFs from a sequenced genome. The algorithm is called miP prediction program (miP3), which is implemented in Python. The software will help shed light on the prevalence, biological roles, and evolution of miPs. Moreover, miP3 can be used to predict other types of miP-like proteins that may have evolved from other functional classes such as kinases and receptors. The program is freely available and can be applied to any sequenced genome. |
| format | Article |
| id | doaj-art-bf45e404f95f48dea3a45bd026aaaa10 |
| institution | OA Journals |
| issn | 2314-436X 2314-4378 |
| language | English |
| publishDate | 2015-01-01 |
| publisher | Wiley |
| record_format | Article |
| series | International Journal of Genomics |
| spelling | doaj-art-bf45e404f95f48dea3a45bd026aaaa102025-08-20T02:18:58ZengWileyInternational Journal of Genomics2314-436X2314-43782015-01-01201510.1155/2015/734147734147microProtein Prediction Program (miP3): A Software for Predicting microProteins and Their Target Transcription FactorsNiek de Klein0Enrico Magnani1Michael Banf2Seung Yon Rhee3Carnegie Institution for Science, Department of Plant Biology, 260 Panama Street, Stanford, CA 94305, USACarnegie Institution for Science, Department of Plant Biology, 260 Panama Street, Stanford, CA 94305, USACarnegie Institution for Science, Department of Plant Biology, 260 Panama Street, Stanford, CA 94305, USACarnegie Institution for Science, Department of Plant Biology, 260 Panama Street, Stanford, CA 94305, USAAn emerging concept in transcriptional regulation is that a class of truncated transcription factors (TFs), called microProteins (miPs), engages in protein-protein interactions with TF complexes and provides feedback controls. A handful of miP examples have been described in the literature but the extent of their prevalence is unclear. Here we present an algorithm that predicts miPs and their target TFs from a sequenced genome. The algorithm is called miP prediction program (miP3), which is implemented in Python. The software will help shed light on the prevalence, biological roles, and evolution of miPs. Moreover, miP3 can be used to predict other types of miP-like proteins that may have evolved from other functional classes such as kinases and receptors. The program is freely available and can be applied to any sequenced genome.http://dx.doi.org/10.1155/2015/734147 |
| spellingShingle | Niek de Klein Enrico Magnani Michael Banf Seung Yon Rhee microProtein Prediction Program (miP3): A Software for Predicting microProteins and Their Target Transcription Factors International Journal of Genomics |
| title | microProtein Prediction Program (miP3): A Software for Predicting microProteins and Their Target Transcription Factors |
| title_full | microProtein Prediction Program (miP3): A Software for Predicting microProteins and Their Target Transcription Factors |
| title_fullStr | microProtein Prediction Program (miP3): A Software for Predicting microProteins and Their Target Transcription Factors |
| title_full_unstemmed | microProtein Prediction Program (miP3): A Software for Predicting microProteins and Their Target Transcription Factors |
| title_short | microProtein Prediction Program (miP3): A Software for Predicting microProteins and Their Target Transcription Factors |
| title_sort | microprotein prediction program mip3 a software for predicting microproteins and their target transcription factors |
| url | http://dx.doi.org/10.1155/2015/734147 |
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