Aberration hubs in protein interaction networks highlight actionable targets in cancer Article Swipe
Mehran Karimzadeh
,
Pouria Jandaghi
,
Andreas I. Papadakis
,
Sebastian Trainor
,
Johan Rung
,
Mar Gonzàlez-Porta
,
Ghislaine Scélo
,
Naveen Vasudev
,
Alvis Brāzma
,
Sidong Huang
,
Rosamonde E. Banks
,
Mark Lathrop
,
Hamed S. Najafabadi
,
Yasser Riazalhosseini
·
YOU?
·
· 2018
· Open Access
·
· DOI: https://doi.org/10.18632/oncotarget.25382
YOU?
·
· 2018
· Open Access
·
· DOI: https://doi.org/10.18632/oncotarget.25382
Despite efforts for extensive molecular characterization of cancer patients, such as the international cancer genome consortium (ICGC) and the cancer genome atlas (TCGA), the heterogeneous nature of cancer and our limited knowledge of the contextual function of proteins have complicated the identification of targetable genes. Here, we present Aberration Hub Analysis for Cancer (AbHAC) as a novel integrative approach to pinpoint aberration hubs, i.e. individual proteins that interact extensively with genes that show aberrant mutation or expression. Our analysis of the breast cancer data of the TCGA and the renal cancer data from the ICGC shows that aberration hubs are involved in relevant cancer pathways, including factors promoting cell cycle and DNA replication in basal-like breast tumors, and Src kinase and VEGF signaling in renal carcinoma. Moreover, our analysis uncovers novel functionally relevant and actionable targets, among which we have experimentally validated abnormal splicing of spleen tyrosine kinase as a key factor for cell proliferation in renal cancer. Thus, AbHAC provides an effective strategy to uncover novel disease factors that are only identifiable by examining mutational and expression data in the context of biological networks.
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- Type
- article
- Language
- en
- Landing Page
- https://doi.org/10.18632/oncotarget.25382
- https://www.oncotarget.com/article/25382/pdf/
- OA Status
- diamond
- Cited By
- 5
- References
- 55
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W2803449438
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Raw OpenAlex JSON
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https://openalex.org/W2803449438Canonical identifier for this work in OpenAlex
- DOI
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https://doi.org/10.18632/oncotarget.25382Digital Object Identifier
- Title
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Aberration hubs in protein interaction networks highlight actionable targets in cancerWork title
- Type
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articleOpenAlex work type
- Language
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enPrimary language
- Publication year
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2018Year of publication
- Publication date
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2018-05-18Full publication date if available
- Authors
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Mehran Karimzadeh, Pouria Jandaghi, Andreas I. Papadakis, Sebastian Trainor, Johan Rung, Mar Gonzàlez-Porta, Ghislaine Scélo, Naveen Vasudev, Alvis Brāzma, Sidong Huang, Rosamonde E. Banks, Mark Lathrop, Hamed S. Najafabadi, Yasser RiazalhosseiniList of authors in order
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https://doi.org/10.18632/oncotarget.25382Publisher landing page
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https://www.oncotarget.com/article/25382/pdf/Direct link to full text PDF
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YesWhether a free full text is available
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diamondOpen access status per OpenAlex
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https://www.oncotarget.com/article/25382/pdf/Direct OA link when available
- Concepts
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Context (archaeology), Cancer, Breast cancer, Computational biology, Biology, Cancer research, Gene, Cancer cell, Kidney cancer, Tyrosine kinase, Bioinformatics, Genetics, Signal transduction, PaleontologyTop concepts (fields/topics) attached by OpenAlex
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5Total citation count in OpenAlex
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2025: 1, 2020: 2, 2019: 2Per-year citation counts (last 5 years)
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55Number of works referenced by this work
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10Other works algorithmically related by OpenAlex
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| abstract_inverted_index.among | 136 |
| abstract_inverted_index.atlas | 21 |
| abstract_inverted_index.cycle | 109 |
| abstract_inverted_index.genes | 70 |
| abstract_inverted_index.hubs, | 62 |
| abstract_inverted_index.novel | 56, 130, 166 |
| abstract_inverted_index.renal | 89, 124, 156 |
| abstract_inverted_index.shows | 95 |
| abstract_inverted_index.which | 137 |
| abstract_inverted_index.(ICGC) | 16 |
| abstract_inverted_index.Cancer | 52 |
| abstract_inverted_index.breast | 81, 115 |
| abstract_inverted_index.cancer | 7, 13, 19, 27, 82, 90, 103 |
| abstract_inverted_index.factor | 151 |
| abstract_inverted_index.genes. | 44 |
| abstract_inverted_index.genome | 14, 20 |
| abstract_inverted_index.kinase | 119, 147 |
| abstract_inverted_index.nature | 25 |
| abstract_inverted_index.spleen | 145 |
| abstract_inverted_index.(AbHAC) | 53 |
| abstract_inverted_index.(TCGA), | 22 |
| abstract_inverted_index.Despite | 0 |
| abstract_inverted_index.cancer. | 157 |
| abstract_inverted_index.context | 181 |
| abstract_inverted_index.disease | 167 |
| abstract_inverted_index.efforts | 1 |
| abstract_inverted_index.factors | 106, 168 |
| abstract_inverted_index.limited | 30 |
| abstract_inverted_index.present | 47 |
| abstract_inverted_index.tumors, | 116 |
| abstract_inverted_index.uncover | 165 |
| abstract_inverted_index.Analysis | 50 |
| abstract_inverted_index.aberrant | 73 |
| abstract_inverted_index.abnormal | 142 |
| abstract_inverted_index.analysis | 78, 128 |
| abstract_inverted_index.approach | 58 |
| abstract_inverted_index.function | 35 |
| abstract_inverted_index.interact | 67 |
| abstract_inverted_index.involved | 100 |
| abstract_inverted_index.mutation | 74 |
| abstract_inverted_index.pinpoint | 60 |
| abstract_inverted_index.proteins | 37, 65 |
| abstract_inverted_index.provides | 160 |
| abstract_inverted_index.relevant | 102, 132 |
| abstract_inverted_index.splicing | 143 |
| abstract_inverted_index.strategy | 163 |
| abstract_inverted_index.targets, | 135 |
| abstract_inverted_index.tyrosine | 146 |
| abstract_inverted_index.uncovers | 129 |
| abstract_inverted_index.Moreover, | 126 |
| abstract_inverted_index.effective | 162 |
| abstract_inverted_index.examining | 174 |
| abstract_inverted_index.extensive | 3 |
| abstract_inverted_index.including | 105 |
| abstract_inverted_index.knowledge | 31 |
| abstract_inverted_index.molecular | 4 |
| abstract_inverted_index.networks. | 184 |
| abstract_inverted_index.pathways, | 104 |
| abstract_inverted_index.patients, | 8 |
| abstract_inverted_index.promoting | 107 |
| abstract_inverted_index.signaling | 122 |
| abstract_inverted_index.validated | 141 |
| abstract_inverted_index.Aberration | 48 |
| abstract_inverted_index.aberration | 61, 97 |
| abstract_inverted_index.actionable | 134 |
| abstract_inverted_index.basal-like | 114 |
| abstract_inverted_index.biological | 183 |
| abstract_inverted_index.carcinoma. | 125 |
| abstract_inverted_index.consortium | 15 |
| abstract_inverted_index.contextual | 34 |
| abstract_inverted_index.expression | 177 |
| abstract_inverted_index.individual | 64 |
| abstract_inverted_index.mutational | 175 |
| abstract_inverted_index.targetable | 43 |
| abstract_inverted_index.complicated | 39 |
| abstract_inverted_index.expression. | 76 |
| abstract_inverted_index.extensively | 68 |
| abstract_inverted_index.integrative | 57 |
| abstract_inverted_index.replication | 112 |
| abstract_inverted_index.functionally | 131 |
| abstract_inverted_index.identifiable | 172 |
| abstract_inverted_index.heterogeneous | 24 |
| abstract_inverted_index.international | 12 |
| abstract_inverted_index.proliferation | 154 |
| abstract_inverted_index.experimentally | 140 |
| abstract_inverted_index.identification | 41 |
| abstract_inverted_index.characterization | 5 |
| cited_by_percentile_year.max | 96 |
| cited_by_percentile_year.min | 91 |
| corresponding_author_ids | https://openalex.org/A5064882820 |
| countries_distinct_count | 3 |
| institutions_distinct_count | 14 |
| corresponding_institution_ids | https://openalex.org/I4210148969, https://openalex.org/I5023651 |
| sustainable_development_goals[0].id | https://metadata.un.org/sdg/17 |
| sustainable_development_goals[0].score | 0.4399999976158142 |
| sustainable_development_goals[0].display_name | Partnerships for the goals |
| citation_normalized_percentile.value | 0.59964648 |
| citation_normalized_percentile.is_in_top_1_percent | False |
| citation_normalized_percentile.is_in_top_10_percent | False |