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For: Ahmed H, Howton TC, Sun Y, Weinberger N, Belkhadir Y, Mukhtar MS. Network biology discovers pathogen contact points in host protein-protein interactomes. Nat Commun 2018;9:2312. [PMID: 29899369 PMCID: PMC5998135 DOI: 10.1038/s41467-018-04632-8] [Citation(s) in RCA: 71] [Impact Index Per Article: 10.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/17/2018] [Accepted: 05/11/2018] [Indexed: 12/21/2022]  Open
Number Cited by Other Article(s)
1
Delplace F, Huard-Chauveau C, Roux F, Roby D. The receptor MIK2 interacts with the kinase RKS1 to control quantitative disease resistance to Xanthomonas campestris. PLANT PHYSIOLOGY 2024;197:kiae626. [PMID: 39577458 DOI: 10.1093/plphys/kiae626] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/08/2024] [Revised: 09/26/2024] [Accepted: 10/21/2024] [Indexed: 11/24/2024]
2
Tang T, Li T, Li W, Cao X, Liu Y, Zeng X. Anti-symmetric framework for balanced learning of protein-protein interactions. Bioinformatics 2024;40:btae603. [PMID: 39404784 PMCID: PMC11513017 DOI: 10.1093/bioinformatics/btae603] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2024] [Revised: 09/13/2024] [Accepted: 10/12/2024] [Indexed: 10/29/2024]  Open
3
Yan W, Hu W, Song Y, Liu X, Zhou Z, Li W, Cao Z, Pei W, Zhou G, Hu G. Differential network analysis reveals the key role of the ECM-receptor pathway in α-particle-induced malignant transformation. MOLECULAR THERAPY. NUCLEIC ACIDS 2024;35:102260. [PMID: 39049874 PMCID: PMC11268105 DOI: 10.1016/j.omtn.2024.102260] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/05/2023] [Accepted: 06/14/2024] [Indexed: 07/27/2024]
4
Carrasco JL, Ambrós S, Gutiérrez PA, Elena SF. Adaptation of turnip mosaic virus to Arabidopsis thaliana involves rewiring of VPg-host proteome interactions. Virus Evol 2024;10:veae055. [PMID: 39091990 PMCID: PMC11291303 DOI: 10.1093/ve/veae055] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/12/2024] [Revised: 05/23/2024] [Accepted: 07/16/2024] [Indexed: 08/04/2024]  Open
5
Pan J, Zhang Z, Li Y, Yu J, You Z, Li C, Wang S, Zhu M, Ren F, Zhang X, Sun Y, Wang S. A microbial knowledge graph-based deep learning model for predicting candidate microbes for target hosts. Brief Bioinform 2024;25:bbae119. [PMID: 38555472 PMCID: PMC10981679 DOI: 10.1093/bib/bbae119] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2023] [Revised: 02/23/2024] [Accepted: 03/02/2024] [Indexed: 04/02/2024]  Open
6
Watkins JM, Montes C, Clark NM, Song G, Oliveira CC, Mishra B, Brachova L, Seifert CM, Mitchell MS, Yang J, Braga Dos Reis PA, Urano D, Muktar MS, Walley JW, Jones AM. Phosphorylation Dynamics in a flg22-Induced, G Protein-Dependent Network Reveals the AtRGS1 Phosphatase. Mol Cell Proteomics 2024;23:100705. [PMID: 38135118 PMCID: PMC10837098 DOI: 10.1016/j.mcpro.2023.100705] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/03/2023] [Revised: 11/22/2023] [Accepted: 12/19/2023] [Indexed: 12/24/2023]  Open
7
Fontes EPB. SERKs and NIKs: Coreceptors or signaling hubs in a complex crosstalk between growth and defense? CURRENT OPINION IN PLANT BIOLOGY 2024;77:102447. [PMID: 37690927 DOI: 10.1016/j.pbi.2023.102447] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/12/2023] [Revised: 08/01/2023] [Accepted: 08/14/2023] [Indexed: 09/12/2023]
8
Nithya C, Kiran M, Nagarajaram HA. Hubs and Bottlenecks in Protein-Protein Interaction Networks. Methods Mol Biol 2024;2719:227-248. [PMID: 37803121 DOI: 10.1007/978-1-0716-3461-5_13] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/08/2023]
9
Derbyshire MC, Raffaele S. Till death do us pair: Co-evolution of plant-necrotroph interactions. CURRENT OPINION IN PLANT BIOLOGY 2023;76:102457. [PMID: 37852141 DOI: 10.1016/j.pbi.2023.102457] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/28/2023] [Revised: 08/18/2023] [Accepted: 08/29/2023] [Indexed: 10/20/2023]
10
Mukhtar MS, Mishra B, Athar M. Integrative systems biology framework discovers common gene regulatory signatures in multiple mechanistically distinct inflammatory skin diseases. RESEARCH SQUARE 2023:rs.3.rs-3611240. [PMID: 38014119 PMCID: PMC10680929 DOI: 10.21203/rs.3.rs-3611240/v1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/29/2023]
11
Tayal S, Bhatnagar S. Role of molecular mimicry in the SARS-CoV-2-human interactome for pathogenesis of cardiovascular diseases: An update to ImitateDB. Comput Biol Chem 2023;106:107919. [PMID: 37463554 DOI: 10.1016/j.compbiolchem.2023.107919] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/15/2023] [Revised: 06/13/2023] [Accepted: 07/06/2023] [Indexed: 07/20/2023]
12
Jayaprakash A, Roy A, Thanmalagan RR, Arunachalam A, P T V L. Understanding the mechanism of pathogenicity through interactome studies between Arachis hypogaea L. and Aspergillus flavus. J Proteomics 2023;287:104975. [PMID: 37482270 DOI: 10.1016/j.jprot.2023.104975] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/06/2023] [Revised: 06/28/2023] [Accepted: 07/15/2023] [Indexed: 07/25/2023]
13
Kumar N, Mishra BK, Liu J, Mohan B, Thingujam D, Pajerowska-Mukhtar KM, Mukhtar MS. Network Biology Analyses and Dynamic Modeling of Gene Regulatory Networks under Drought Stress Reveal Major Transcriptional Regulators in Arabidopsis. Int J Mol Sci 2023;24:ijms24087349. [PMID: 37108512 PMCID: PMC10139068 DOI: 10.3390/ijms24087349] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2022] [Revised: 04/02/2023] [Accepted: 04/11/2023] [Indexed: 04/29/2023]  Open
14
A binary interaction map between turnip mosaic virus and Arabidopsis thaliana proteomes. Commun Biol 2023;6:28. [PMID: 36631662 PMCID: PMC9834402 DOI: 10.1038/s42003-023-04427-8] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2022] [Accepted: 01/05/2023] [Indexed: 01/13/2023]  Open
15
Mohan B, Thingujam D, Pajerowska-Mukhtar KM. Cytotrap: An Innovative Approach for Protein-Protein Interaction Studies for Cytoplasmic Proteins. Methods Mol Biol 2023;2690:9-22. [PMID: 37450133 DOI: 10.1007/978-1-0716-3327-4_2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/18/2023]
16
Lau V, Provart NJ. AGENT for Exploring and Analyzing Gene Regulatory Networks from Arabidopsis. Methods Mol Biol 2023;2698:351-360. [PMID: 37682484 DOI: 10.1007/978-1-0716-3354-0_20] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/09/2023]
17
Fei W, Liu Y. Biotrophic Fungal Pathogens: a Critical Overview. Appl Biochem Biotechnol 2023;195:1-16. [PMID: 35951248 DOI: 10.1007/s12010-022-04087-0] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 07/15/2022] [Indexed: 01/13/2023]
18
Fakhar AZ, Liu J, Pajerowska-Mukhtar KM. Dynamic Enrichment for Evaluation of Protein Networks (DEEPN): A High Throughput Yeast Two-Hybrid (Y2H) Protocol to Evaluate Networks. Methods Mol Biol 2023;2690:179-192. [PMID: 37450148 DOI: 10.1007/978-1-0716-3327-4_17] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/18/2023]
19
Majeed A, Mukhtar S. Protein-Protein Interaction Network Exploration Using Cytoscape. Methods Mol Biol 2023;2690:419-427. [PMID: 37450163 DOI: 10.1007/978-1-0716-3327-4_32] [Citation(s) in RCA: 18] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/18/2023]
20
Kumar N, Mukhtar S. Building Protein-Protein Interaction Graph Database Using Neo4j. Methods Mol Biol 2023;2690:469-479. [PMID: 37450167 DOI: 10.1007/978-1-0716-3327-4_36] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/18/2023]
21
Hasan M, Kumar N, Majeed A, Ahmad A, Mukhtar S. Protein-Protein Interaction Network Analysis Using NetworkX. Methods Mol Biol 2023;2690:457-467. [PMID: 37450166 DOI: 10.1007/978-1-0716-3327-4_35] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/18/2023]
22
Diwan D, Pajerowska-Mukhtar KM. Preparation and Utilization of a Versatile GFP-Protein Trap-Like System for Protein Complex Immunoprecipitation in Plants. Methods Mol Biol 2023;2690:59-68. [PMID: 37450136 DOI: 10.1007/978-1-0716-3327-4_5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/18/2023]
23
Guo B, Lin B, Huang Q, Li Z, Zhuo K, Liao J. A nematode effector inhibits plant immunity by preventing cytosolic free Ca2+ rise. PLANT, CELL & ENVIRONMENT 2022;45:3070-3085. [PMID: 35880644 DOI: 10.1111/pce.14406] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/01/2022] [Revised: 07/20/2022] [Accepted: 07/21/2022] [Indexed: 06/15/2023]
24
Spears BJ, McInturf SA, Collins C, Chlebowski M, Cseke LJ, Su J, Mendoza-Cózatl DG, Gassmann W. Class I TCP transcription factor AtTCP8 modulates key brassinosteroid-responsive genes. PLANT PHYSIOLOGY 2022;190:1457-1473. [PMID: 35866682 PMCID: PMC9516767 DOI: 10.1093/plphys/kiac332] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/21/2021] [Accepted: 06/01/2022] [Indexed: 05/17/2023]
25
Xing B, Zheng Y, Zhang M, Liu X, Li L, Mou C, Wu Q, Guo H, Shao Q. Biocontrol: Endophytic bacteria could be crucial to fight soft rot disease in the rare medicinal herb, Anoectochilus roxburghii. Microb Biotechnol 2022;15:2929-2941. [PMID: 36099393 PMCID: PMC9733646 DOI: 10.1111/1751-7915.14142] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2022] [Revised: 08/21/2022] [Accepted: 08/26/2022] [Indexed: 12/14/2022]  Open
26
Kumar N, Mishra B, Mukhtar MS. A pipeline of integrating transcriptome and interactome to elucidate central nodes in host-pathogens interactions. STAR Protoc 2022;3:101608. [PMID: 35990739 PMCID: PMC9386103 DOI: 10.1016/j.xpro.2022.101608] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]  Open
27
Zhao C, Dong J, Deng L, Tan Y, Jiang W, Cai Z. Molecular network strategy in multi-omics and mass spectrometry imaging. Curr Opin Chem Biol 2022;70:102199. [PMID: 36027696 DOI: 10.1016/j.cbpa.2022.102199] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2022] [Revised: 06/01/2022] [Accepted: 07/10/2022] [Indexed: 11/30/2022]
28
Kumar R, Khatri A, Acharya V. Deep learning uncovers distinct behavior of rice network to pathogens response. iScience 2022;25:104546. [PMID: 35754717 PMCID: PMC9218438 DOI: 10.1016/j.isci.2022.104546] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2022] [Revised: 05/06/2022] [Accepted: 06/02/2022] [Indexed: 12/15/2022]  Open
29
Discovering driver nodes in chronic kidney disease-related networks using Trader as a newly developed algorithm. Comput Biol Med 2022;148:105892. [PMID: 35932730 DOI: 10.1016/j.compbiomed.2022.105892] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2022] [Revised: 07/04/2022] [Accepted: 07/16/2022] [Indexed: 11/18/2022]
30
Rintala TJ, Ghosh A, Fortino V. Network approaches for modeling the effect of drugs and diseases. Brief Bioinform 2022;23:6608969. [PMID: 35704883 PMCID: PMC9294412 DOI: 10.1093/bib/bbac229] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2022] [Revised: 04/29/2022] [Accepted: 05/17/2021] [Indexed: 12/12/2022]  Open
31
Mapuranga J, Zhang N, Zhang L, Chang J, Yang W. Infection Strategies and Pathogenicity of Biotrophic Plant Fungal Pathogens. Front Microbiol 2022;13:799396. [PMID: 35722337 PMCID: PMC9201565 DOI: 10.3389/fmicb.2022.799396] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/22/2021] [Accepted: 04/19/2022] [Indexed: 01/01/2023]  Open
32
Tayal S, Bhatia V, Mehrotra T, Bhatnagar S. ImitateDB: A database for domain and motif mimicry incorporating host and pathogen protein interactions. Amino Acids 2022;54:923-934. [PMID: 35487995 PMCID: PMC9054641 DOI: 10.1007/s00726-022-03163-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/23/2021] [Accepted: 04/09/2022] [Indexed: 11/26/2022]
33
Mishra B, Kumar N, Shahid Mukhtar M. A Rice Protein Interaction Network Reveals High Centrality Nodes and Candidate Pathogen Effector Targets. Comput Struct Biotechnol J 2022;20:2001-2012. [PMID: 35521542 PMCID: PMC9062363 DOI: 10.1016/j.csbj.2022.04.027] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/13/2021] [Revised: 04/10/2022] [Accepted: 04/17/2022] [Indexed: 12/11/2022]  Open
34
Hussain A, Asif N, Pirzada AR, Noureen A, Shaukat J, Burhan A, Zaynab M, Ali E, Imran K, Ameen A, Mahmood MA, Nazar A, Mukhtar MS. Genome wide study of cysteine rich receptor like proteins in Gossypium sp. Sci Rep 2022;12:4885. [PMID: 35318409 PMCID: PMC8941122 DOI: 10.1038/s41598-022-08943-1] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2021] [Accepted: 03/11/2022] [Indexed: 02/08/2023]  Open
35
Velásquez-Zapata V, Palacio-Rúa K, Cano LE, Gaviria-Rivera A. Assessment of genotyping markers in the molecular characterization of a population of clinical isolates of Fusarium in Colombia. BIOMEDICA : REVISTA DEL INSTITUTO NACIONAL DE SALUD 2022;42:18-30. [PMID: 35471167 PMCID: PMC9059811 DOI: 10.7705/biomedica.5869] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/22/2020] [Accepted: 08/06/2021] [Indexed: 06/14/2023]
36
Selecting Graph Metrics with Ecological Significance for Deepening Landscape Characterization: Review and Applications. LAND 2022. [DOI: 10.3390/land11030338] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
37
Chai H, Gu Q, Hughes J, Robertson DL. In silico prediction of HIV-1-host molecular interactions and their directionality. PLoS Comput Biol 2022;18:e1009720. [PMID: 35134057 PMCID: PMC8856524 DOI: 10.1371/journal.pcbi.1009720] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2021] [Revised: 02/18/2022] [Accepted: 12/03/2021] [Indexed: 11/18/2022]  Open
38
Sharma N, Gadhave K, Kumar P, Giri R. Transactivation domain of Adenovirus Early Region 1A (E1A): Investigating folding dynamics and aggregation. Curr Res Struct Biol 2022;4:29-40. [PMID: 35146445 PMCID: PMC8801969 DOI: 10.1016/j.crstbi.2022.01.001] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/02/2021] [Revised: 12/05/2021] [Accepted: 01/04/2022] [Indexed: 02/06/2023]  Open
39
Li C, Gao Z, Su B, Xu G, Lin X. Data analysis methods for defining biomarkers from omics data. Anal Bioanal Chem 2021;414:235-250. [PMID: 34951658 DOI: 10.1007/s00216-021-03813-7] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/15/2021] [Revised: 11/26/2021] [Accepted: 11/29/2021] [Indexed: 02/01/2023]
40
Silva JMF, Nagata T, Melo FL, Elena SF. Heterogeneity in the Response of Different Subtypes of Drosophila melanogaster Midgut Cells to Viral Infections. Viruses 2021;13:2284. [PMID: 34835089 PMCID: PMC8623525 DOI: 10.3390/v13112284] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/15/2021] [Revised: 11/05/2021] [Accepted: 11/13/2021] [Indexed: 11/29/2022]  Open
41
Singh N, Bhatnagar S. Machine Learning for Prediction of Drug Targets in Microbe Associated Cardiovascular Diseases by Incorporating Host-pathogen Interaction Network Parameters. Mol Inform 2021;41:e2100115. [PMID: 34676983 DOI: 10.1002/minf.202100115] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2021] [Accepted: 10/01/2021] [Indexed: 12/20/2022]
42
Ceulemans E, Ibrahim HMM, De Coninck B, Goossens A. Pathogen Effectors: Exploiting the Promiscuity of Plant Signaling Hubs. TRENDS IN PLANT SCIENCE 2021;26:780-795. [PMID: 33674173 DOI: 10.1016/j.tplants.2021.01.005] [Citation(s) in RCA: 31] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/06/2020] [Revised: 01/21/2021] [Accepted: 01/29/2021] [Indexed: 05/27/2023]
43
Mishra B, Kumar N, Mukhtar MS. Network biology to uncover functional and structural properties of the plant immune system. CURRENT OPINION IN PLANT BIOLOGY 2021;62:102057. [PMID: 34102601 DOI: 10.1016/j.pbi.2021.102057] [Citation(s) in RCA: 22] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/06/2020] [Revised: 04/15/2021] [Accepted: 04/18/2021] [Indexed: 06/12/2023]
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Ayukawa Y, Asai S, Gan P, Tsushima A, Ichihashi Y, Shibata A, Komatsu K, Houterman PM, Rep M, Shirasu K, Arie T. A pair of effectors encoded on a conditionally dispensable chromosome of Fusarium oxysporum suppress host-specific immunity. Commun Biol 2021;4:707. [PMID: 34108627 PMCID: PMC8190069 DOI: 10.1038/s42003-021-02245-4] [Citation(s) in RCA: 23] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/23/2020] [Accepted: 05/18/2021] [Indexed: 11/29/2022]  Open
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Ambrós S, Gómez-Muñoz N, Giménez-Santamarina S, Sánchez-Vicente J, Navarro-López J, Martínez F, Daròs JA, Rodrigo G. Molecular signatures of silencing suppression degeneracy from a complex RNA virus. PLoS Comput Biol 2021;17:e1009166. [PMID: 34181647 PMCID: PMC8270454 DOI: 10.1371/journal.pcbi.1009166] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/07/2020] [Revised: 07/09/2021] [Accepted: 06/09/2021] [Indexed: 11/21/2022]  Open
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Plant virus-interactions: unraveling novel defense mechanisms under immune-suppressing pressure. Curr Opin Biotechnol 2021;70:108-114. [PMID: 33866213 DOI: 10.1016/j.copbio.2021.03.007] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2021] [Revised: 03/18/2021] [Accepted: 03/24/2021] [Indexed: 11/22/2022]
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Mishra B, Athar M, Mukhtar MS. Transcriptional circuitry atlas of genetic diverse unstimulated murine and human macrophages define disparity in population-wide innate immunity. Sci Rep 2021;11:7373. [PMID: 33795737 PMCID: PMC8016976 DOI: 10.1038/s41598-021-86742-w] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/09/2020] [Accepted: 03/12/2021] [Indexed: 02/07/2023]  Open
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Wang Y, Zhou M, Zou Q, Xu L. Machine learning for phytopathology: from the molecular scale towards the network scale. Brief Bioinform 2021;22:6204793. [PMID: 33787847 DOI: 10.1093/bib/bbab037] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2020] [Revised: 01/09/2021] [Accepted: 01/26/2021] [Indexed: 01/16/2023]  Open
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Santamaria ME, Garcia A, Arnaiz A, Rosa‐Diaz I, Romero‐Hernandez G, Diaz I, Martinez M. Comparative transcriptomics reveals hidden issues in the plant response to arthropod herbivores. JOURNAL OF INTEGRATIVE PLANT BIOLOGY 2021;63:312-326. [PMID: 33085192 PMCID: PMC7898633 DOI: 10.1111/jipb.13026] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/13/2020] [Accepted: 10/18/2020] [Indexed: 05/04/2023]
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Acharya D, Dutta TK. Elucidating the network features and evolutionary attributes of intra- and interspecific protein-protein interactions between human and pathogenic bacteria. Sci Rep 2021;11:190. [PMID: 33420198 PMCID: PMC7794237 DOI: 10.1038/s41598-020-80549-x] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/24/2020] [Accepted: 12/09/2020] [Indexed: 01/08/2023]  Open
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