Miguel A. Andrade-Navarro - Related publications

Affiliations: 
2003-2007 Ottawa Hospital Research Institute 
 2007-2014 Max Delbrück Center for Molecular Medicine, Berlin, Berlin, Germany 
 2014- Faculty of Biology Johannes Gutenberg University, Germany 
Website:
http://cbdm.uni-mainz.de/andrade/
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50 most relevant papers in past 60 days:
Year Citation  Score
2021 Huang D, Zhou Y, Yi X, Fan X, Wang J, Yao H, Sham PC, Hao J, Chen K, Li MJ. VannoPortal: multiscale functional annotation of human genetic variants for interrogating molecular mechanism of traits and diseases. Nucleic Acids Research. PMID 34570217 DOI: 10.1093/nar/gkab853   
2021 Peterson KA, Murray SA. Progress towards completing the mutant mouse null resource. Mammalian Genome : Official Journal of the International Mammalian Genome Society. PMID 34698892 DOI: 10.1007/s00335-021-09905-0   
2021 Jiang S, Du Q, Feng C, Ma L, Zhang Z. CompoDynamics: a comprehensive database for characterizing sequence composition dynamics. Nucleic Acids Research. PMID 34718745 DOI: 10.1093/nar/gkab979   
2021 Thaxton C, Good ME, DiStefano MT, Luo X, Andersen EF, Thorland E, Berg J, Martin CL, Rehm HL, Riggs ER, . Utilizing ClinGen Gene-Disease Validity and Dosage Sensitivity Curations to Inform Variant Classification. Human Mutation. PMID 34694049 DOI: 10.1002/humu.24291   
2021 Sun J, Wang Y, Garran TA, Qiao P, Wang M, Yuan Q, Guo L, Huang L. Heterogeneous Genetic Diversity Estimation of a Promising Domestication Medicinal Motherwort Based on Chloroplast Genome Resources. Frontiers in Genetics. 12: 721022. PMID 34603384 DOI: 10.3389/fgene.2021.721022   
2021 Zhou Q, Jiao L, Li W, Hu Z, Li Y, Zhang H, Yang M, Xu L, Yan Y. A Novel Cre/-Based Genetic Tool for Repeated, Targeted and Markerless Gene Integration in . International Journal of Molecular Sciences. 22. PMID 34639080 DOI: 10.3390/ijms221910739   
2021 Zhou P, Wang L, Liu H, Li C, Li Z, Wang J, Tan X. CyanoOmicsDB: an integrated omics database for functional genomic analysis of cyanobacteria. Nucleic Acids Research. PMID 34614159 DOI: 10.1093/nar/gkab891   
2021 Modlin SJ, Elghraoui A, Gunasekaran D, Zlotnicki AM, Dillon NA, Dhillon N, Kuo N, Robinhold C, Chan CK, Baughn AD, Valafar F. Structure-Aware Mycobacterium tuberculosis Functional Annotation Uncloaks Resistance, Metabolic, and Virulence Genes. Msystems. e0067321. PMID 34726489 DOI: 10.1128/mSystems.00673-21   
2021 Awan F, Ali MM, Hamid M, Awan MH, Mushtaq MH, Kalsoom S, Ijaz M, Mehmood K, Liu Y. Epi-Gene: An R-Package for Easy Pan-Genome Analysis. Biomed Research International. 2021: 5585586. PMID 34595238 DOI: 10.1155/2021/5585586   
2021 Fouladi F, Young JB, Fodor AA. HashSeq: a Simple, Scalable, and Conservative Variant Caller for 16S rRNA Gene Data Sets. Msystems. e0069721. PMID 34751586 DOI: 10.1128/mSystems.00697-21   
2021 Fang H, Knight JC. Priority index: database of genetic targets in immune-mediated disease. Nucleic Acids Research. PMID 34751399 DOI: 10.1093/nar/gkab994   
2021 Ma L, Li H, Lan J, Hao X, Liu H, Wang X, Huang Y. Comprehensive analyses of bioinformatics applications in the fight against COVID-19 pandemic. Computational Biology and Chemistry. 95: 107599. PMID 34773807 DOI: 10.1016/j.compbiolchem.2021.107599   
2021 Di Sera T, Velinder M, Ward A, Qiao Y, Georges S, Miller C, Pitman A, Richards W, Ekawade A, Viskochil D, Carey JC, Pace L, Bale J, Clardy SL, Andrews A, et al. Gene.iobio: an interactive web tool for versatile, clinically-driven variant interrogation and prioritization. Scientific Reports. 11: 20307. PMID 34645894 DOI: 10.1038/s41598-021-99752-5   
2021 Fan LQ, Hu XY, Chen YY, Peng XL, Fu YH, Zheng YP, Yu JM, He JS. Biological Significance of the Genomic Variation and Structural Dynamics of SARS-CoV-2 B.1.617. Frontiers in Microbiology. 12: 750725. PMID 34691002 DOI: 10.3389/fmicb.2021.750725   
2021 Kiran K, Rawal HC, Dubey H, Jaswal R, Bhardwaj SC, Deshmukh R, Sharma TR. Genome-Wide Analysis of Four Pathotypes of Wheat Rust Pathogen () Reveals Structural Variations and Diversifying Selection. Journal of Fungi (Basel, Switzerland). 7. PMID 34575739 DOI: 10.3390/jof7090701   
2021 Lyu JI, Ramekar R, Kim JM, Hung NN, Seo JS, Kim JB, Choi IY, Park KC, Kwon SJ. Unraveling the complexity of faba bean (Vicia faba L.) transcriptome to reveal cold-stress-responsive genes using long-read isoform sequencing technology. Scientific Reports. 11: 21094. PMID 34702863 DOI: 10.1038/s41598-021-00506-0   
2021 Gaikani H, Giaever G, Nislow C. Chemical-Genetic Interactions as a Means to Characterize Drug Synergy. Methods in Molecular Biology (Clifton, N.J.). 2381: 243-263. PMID 34590281 DOI: 10.1007/978-1-0716-1740-3_14   
2021 Barber AE, Sae-Ong T, Kang K, Seelbinder B, Li J, Walther G, Panagiotou G, Kurzai O. Aspergillus fumigatus pan-genome analysis identifies genetic variants associated with human infection. Nature Microbiology. 6: 1526-1536. PMID 34819642 DOI: 10.1038/s41564-021-00993-x   
2021 Senthamizhan V, Ravindran B, Raman K. NetGenes: A Database of Essential Genes Predicted Using Features From Interaction Networks. Frontiers in Genetics. 12: 722198. PMID 34630517 DOI: 10.3389/fgene.2021.722198   
2021 Lee SG, Na D, Park C. Comparability of reference-based and reference-free transcriptome analysis approaches at the gene expression level. Bmc Bioinformatics. 22: 310. PMID 34674628 DOI: 10.1186/s12859-021-04226-0   
2021 Avsec Ž, Agarwal V, Visentin D, Ledsam JR, Grabska-Barwinska A, Taylor KR, Assael Y, Jumper J, Kohli P, Kelley DR. Effective gene expression prediction from sequence by integrating long-range interactions. Nature Methods. 18: 1196-1203. PMID 34608324 DOI: 10.1038/s41592-021-01252-x   
2021 Leong PPT, Mihajlović A, Bogdanović N, Breberina L, Xi L. Reconstructing and counting genomic fragments through tagmentation-based haploid phasing. Scientific Reports. 11: 18907. PMID 34556684 DOI: 10.1038/s41598-021-97852-w   
2021 Chatterjee N, Zhang X. CRISPR approach in environmental chemical screening focusing on population variability. The Journal of Toxicological Sciences. 46: 499-507. PMID 34719552 DOI: 10.2131/jts.46.499   
2021 Wright BW, Molloy MP, Jaschke PR. Overlapping genes in natural and engineered genomes. Nature Reviews. Genetics. PMID 34611352 DOI: 10.1038/s41576-021-00417-w   
2021 Ren Z, Wang Z, Gu D, Ma H, Zhu Y, Cai M, Zhang J. Genome Instability and Long Noncoding RNA Reveal Biomarkers for Immunotherapy and Prognosis and Novel Competing Endogenous RNA Mechanism in Colon Adenocarcinoma. Frontiers in Cell and Developmental Biology. 9: 740455. PMID 34746134 DOI: 10.3389/fcell.2021.740455   
2021 Hao Z, Li Y, Jiang Y, Xu J, Li J, Luo L. Genome Sequence Analysis of the Fungal Pathogen Using Oxford Nanopore Technology. Journal of Fungi (Basel, Switzerland). 7. PMID 34575738 DOI: 10.3390/jof7090699   
2021 Kim P, Tan H, Liu J, Lee H, Jung H, Kumar H, Zhou X. FusionGDB 2.0: fusion gene annotation updates aided by deep learning. Nucleic Acids Research. PMID 34755868 DOI: 10.1093/nar/gkab1056   
2021 Zhou J, Wu P, Xiong Z, Liu N, Zhao N, Ji M, Qiu Y, Yang B. Chromosome-Level Genome Assembly Reveals Significant Gene Expansion in the Toll and IMD Signaling Pathways of . Frontiers in Genetics. 12: 728418. PMID 34777464 DOI: 10.3389/fgene.2021.728418   
2021 Tajima N, Kumagai T, Saito Y, Kameda T. Comparative analysis of the relationship between translation efficiency and sequence features of endogenous proteins in multiple organisms. Genomics. 113: 2675-2682. PMID 34058272 DOI: 10.1016/j.ygeno.2021.05.037   
2021 Hutter CR, Cobb KA, Portik DM, Travers SL, Wood PL, Brown RM. FrogCap: A modular sequence capture probe-set for phylogenomics and population genetics for all frogs, assessed across multiple phylogenetic scales. Molecular Ecology Resources. PMID 34569723 DOI: 10.1111/1755-0998.13517   
2021 Iqbal Qureshi AM, Sofi MU, Dar NA, Khan MH, Mahdi SS, Dar ZA, Bangroo S, El-Serehy HA, Hefft DI, Popescu SM. Insilco identification and characterization of superoxide dismutase gene family in . Saudi Journal of Biological Sciences. 28: 5526-5537. PMID 34588862 DOI: 10.1016/j.sjbs.2021.08.009   
2021 Huang Z, Zhou X, Stanton C, Ross RP, Zhao J, Zhang H, Yang B, Chen W. Comparative Genomics and Specific Functional Characteristics Analysis of . Microorganisms. 9. PMID 34576887 DOI: 10.3390/microorganisms9091992   
2021 Bao J, Wang R, Gao S, Wang Z, Fang Y, Wu L, Wang M. High-Quality Genome Sequence Resource of a Rice False Smut Fungus Isolate, UV-FJ-1. Phytopathology. PHYTO01210007A. PMID 34732059 DOI: 10.1094/PHYTO-01-21-0007-A   
2021 Liu Y, Hu H, Cai M, Liang X, Wu X, Wang A, Chen X, Li X, Xiao C, Huang L, Xie Y, Wu Q. Whole genome sequencing of an edible and medicinal mushroom, Russula griseocarnosa, and its association with mycorrhizal characteristics. Gene. 145996. PMID 34634440 DOI: 10.1016/j.gene.2021.145996   
2021 Jiang T, Yin Z, Cai R, Yu H, Lu Q, Zhao S, Tian Y, Yan Y, Chen X, Guo J. Chromosomal-level Genome Assembly of a True Bug, Aspongopus chinensis Dallas, 1851 (Hemiptera: Dinidoridae). Genome Biology and Evolution. PMID 34623414 DOI: 10.1093/gbe/evab232   
2021 Oh J, Lee SG, Park C. PIC-Me: paralogs and isoforms classifier based on machine-learning approaches. Bmc Bioinformatics. 22: 311. PMID 34674638 DOI: 10.1186/s12859-021-04229-x   
2021 Zhou J, Du Q, Jiang M, Liu S, Wang L, Chen H, Wang B, Liu C. Characterization and comparative analysis of the plastome sequence from (Lamiales: Acanthaceae). Mitochondrial Dna. Part B, Resources. 6: 2896-2902. PMID 34604529 DOI: 10.1080/23802359.2021.1922099   
2021 Huang DP, Liao MM, Tong JJ, Yuan WQ, Peng DT, Lai JP, Zeng YH, Qiu YJ, Tong GD. Construction of a genome instability-derived lncRNA based risk scoring system for the prognosis of hepatocellular carcinoma. Aging. 13. PMID 34799469 DOI: 10.18632/aging.203698   
2021 Zhang L, Wang S, Su C, Harris AJ, Zhao L, Su N, Wang JR, Duan L, Chang ZY. Comparative Chloroplast Genomics and Phylogenetic Analysis of (Zygophyllaceae) of China. Frontiers in Plant Science. 12: 723622. PMID 34630471 DOI: 10.3389/fpls.2021.723622   
2021 Yamamoto T. Genomic Aberrations Associated with the Pathophysiological Mechanisms of Neurodevelopmental Disorders. Cells. 10. PMID 34571966 DOI: 10.3390/cells10092317   
2021 Wu S, Jiang C, Feng X, Yang C, Yu Z. The complete chloroplast genome of Hemsl. and its phylogenetic analysis. Mitochondrial Dna. Part B, Resources. 6: 3151-3153. PMID 34746389 DOI: 10.1080/23802359.2021.1987167   
2021 Fang Y, Li M, Li X, Yang Y. GFICLEE: ultrafast tree-based phylogenetic profile method inferring gene function at the genomic-wide level. Bmc Genomics. 22: 774. PMID 34715785 DOI: 10.1186/s12864-021-08070-7   
2021 Battistella E, Vakalopoulou M, Sun R, Estienne T, Lerousseau M, Nikolaev S, Alvarez Andres E, Carre A, Niyoteka S, Robert C, Paragios N, Deutsch E. COMBING: Clustering in Oncology for Mathematical and Biological Identification of Novel Gene Signatures. Ieee/Acm Transactions On Computational Biology and Bioinformatics. PMID 34714749 DOI: 10.1109/TCBB.2021.3123910   
2021 Tariq MU, Haseeb M, Aledhari M, Razzak R, Parizi RM, Saeed F. Methods for Proteogenomics Data Analysis, Challenges, and Scalability Bottlenecks: A Survey. Ieee Access : Practical Innovations, Open Solutions. 9: 5497-5516. PMID 33537181 DOI: 10.1109/ACCESS.2020.3047588   
2021 Liu Y, Xu Y, Jia X. The complete chloroplast genome of , an edible oil Camellia. Mitochondrial Dna. Part B, Resources. 6: 3169-3170. PMID 34660893 DOI: 10.1080/23802359.2021.1987169   
2021 Wang Q, Zhao X, Ren C, Meng F, Wang H, Liu Y, Liu B, Yang E. The determination and analysis of the complete mitochondrial genome of (Anabantiformes: Badidae). Mitochondrial Dna. Part B, Resources. 6: 3073-3075. PMID 34595340 DOI: 10.1080/23802359.2021.1981164   
2021 Liu Y, Huang L, Hu H, Cai M, Liang X, Li X, Zhang Z, Xie Y, Xiao C, Chen S, Chen D, Yong T, Pan H, Gao X, Wu Q. Whole-genome assembly of Ganoderma leucocontextum (Ganodermataceae, Fungi) discovered from the Tibetan Plateau of China. G3 (Bethesda, Md.). PMID 34586388 DOI: 10.1093/g3journal/jkab337   
2021 Pyasi S, Gupta A, Hegde NR, Nayak D. Complete genome sequencing and assessment of mutation-associated protein dynamics of the first Indian bovine ephemeral fever virus (BEFV) isolate. The Veterinary Quarterly. 1-16. PMID 34663182 DOI: 10.1080/01652176.2021.1995909   
2021 Barbon L, Offord V, Radford EJ, Butler AP, Gerety SS, Adams DJ, Tan HK, Waters AJ. Variant Library Annotation Tool (VaLiAnT): an oligonucleotide library design and annotation tool for Saturation Genome Editing and other Deep Mutational Scanning experiments. Bioinformatics (Oxford, England). PMID 34791067 DOI: 10.1093/bioinformatics/btab776   
2021 Ye MS, Zhang JY, Yu DD, Xu M, Xu L, Lv LB, Zhu QY, Fan Y, Yao YG. Comprehensive annotation of the Chinese tree shrew genome by large-scale RNA sequencing and long-read isoform sequencing. Zoological Research. 42: 692-709. PMID 34581030 DOI: 10.24272/j.issn.2095-8137.2021.272