Hector Bravo - Related publications

2012-2019 Anatomy and Neurobiology UPR School of Medicine 
NOTE: We are testing a new system for identifying relevant work based on semantic analysis that identifies similarities between recently published papers and the current author's publications. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches.
50 most relevant papers in past 60 days:
Year Citation  Score
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 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 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 Zhao Y, Fang LT, Shen TW, Choudhari S, Talsania K, Chen X, Shetty J, Kriga Y, Tran B, Zhu B, Chen Z, Chen W, Wang C, Jaeger E, Meerzaman D, et al. Whole genome and exome sequencing reference datasets from a multi-center and cross-platform benchmark study. Scientific Data. 8: 296. PMID 34753956 DOI: 10.1038/s41597-021-01077-5   
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 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 Yin Y, Yu R, Chen H. [Shotgun metagenome sequencing of Chinese gut microbiota: a review]. Sheng Wu Gong Cheng Xue Bao = Chinese Journal of Biotechnology. 37: 3717-3733. PMID 34841779 DOI: 10.13345/j.cjb.210556   
2021 Libbrecht MW, Chan RCW, Hoffman MM. Segmentation and genome annotation algorithms for identifying chromatin state and other genomic patterns. Plos Computational Biology. 17: e1009423. PMID 34648491 DOI: 10.1371/journal.pcbi.1009423   
2021 Cantó-Pastor A, Mason GA, Brady SM, Provart NJ. Arabidopsis bioinformatics: tools and strategies. The Plant Journal : For Cell and Molecular Biology. PMID 34695270 DOI: 10.1111/tpj.15547   
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 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 DeMaere MZ, Darling AE. qc3C: Reference-free quality control for Hi-C sequencing data. Plos Computational Biology. 17: e1008839. PMID 34634030 DOI: 10.1371/journal.pcbi.1008839   
2021 Song Y, Yang L, Jiang L, Hao Z, Yang R, Xu P. Optimizing genomic control in mixed model associations with binary diseases. Briefings in Bioinformatics. PMID 34643219 DOI: 10.1093/bib/bbab426   
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 Caicedo-Montoya C, Manzo-Ruiz M, Ríos-Estepa R. Pan-Genome of the Genus and Prioritization of Biosynthetic Gene Clusters With Potential to Produce Antibiotic Compounds. Frontiers in Microbiology. 12: 677558. PMID 34659136 DOI: 10.3389/fmicb.2021.677558   
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 Hawley JR, Zhou S, Arlidge C, Grillo G, Kron KJ, Hugh-White R, van der Kwast TH, Fraser M, Boutros PC, Bristow RG, Lupien M. Reorganization of the 3D genome pinpoints non-coding drivers of primary prostate tumors. Cancer Research. PMID 34642184 DOI: 10.1158/0008-5472.CAN-21-2056   
2021 Amundson SA. The transcriptomic revolution and radiation biology. International Journal of Radiation Biology. 1-39. PMID 34586968 DOI: 10.1080/09553002.2021.1987562   
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 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 Yu Z, Zhang W, Fu H, Zou X, Zhao M, Liang S, Gu C, Yang Q, He M, Xiao Q, Xiao W, He L, Lü M. Genomic analysis of Poxviridae and exploring qualified gene sequences for phylogenetics. Computational and Structural Biotechnology Journal. 19: 5479-5486. PMID 34712393 DOI: 10.1016/j.csbj.2021.09.031   
2021 Stephens Z, O'Brien D, Dehankar M, Roberts LR, Iyer RK, Kocher JP. Exogene: A performant workflow for detecting viral integrations from paired-end next-generation sequencing data. Plos One. 16: e0250915. PMID 34550971 DOI: 10.1371/journal.pone.0250915   
2021 Arshinoff BI, Cary GA, Karimi K, Foley S, Agalakov S, Delgado F, Lotay VS, Ku CJ, Pells TJ, Beatman TR, Kim E, Cameron RA, Vize PD, Telmer CA, Croce JC, et al. Echinobase: leveraging an extant model organism database to build a knowledgebase supporting research on the genomics and biology of echinoderms. Nucleic Acids Research. PMID 34791383 DOI: 10.1093/nar/gkab1005   
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 Yeoh KG, Tan P. Mapping the genomic diaspora of gastric cancer. Nature Reviews. Cancer. PMID 34702982 DOI: 10.1038/s41568-021-00412-7   
2021 Busconi M, Wischnitzki E, Del Corvo M, Colli L, Soffritti G, Stagnati L, Fluch S, Sehr EM, de Los Mozos Pascual M, Fernández JA. Epigenetic Variability Among Saffron Crocus ( L.) Accessions Characterized by Different Phenotypes. Frontiers in Plant Science. 12: 642631. PMID 33747022 DOI: 10.3389/fpls.2021.642631   
2021 Wei X, Wang Y, Ji C, Luan J, Yao L, Zhang X, Wang S, Yao B, Qin C, Song N. Genomic Instability Promotes the Progression of Clear Cell Renal Cell Carcinoma Through Influencing the Immune Microenvironment. Frontiers in Genetics. 12: 706661. PMID 34712264 DOI: 10.3389/fgene.2021.706661   
2021 Schmitz RJ, Marand AP, Zhang X, Mosher RA, Turck F, Chen X, Axtell MJ, Zhong X, Brady SM, Megraw M, Meyers BC. Quality control and evaluation of plant epigenomics data. The Plant Cell. PMID 34648025 DOI: 10.1093/plcell/koab255   
2021 Yocca AE, Edger PP. Current status and future perspectives on the evolution of cis-regulatory elements in plants. Current Opinion in Plant Biology. 65: 102139. PMID 34837823 DOI: 10.1016/j.pbi.2021.102139   
2021 Ahmar S, Ballesta P, Ali M, Mora-Poblete F. Achievements and Challenges of Genomics-Assisted Breeding in Forest Trees: From Marker-Assisted Selection to Genome Editing. International Journal of Molecular Sciences. 22. PMID 34638922 DOI: 10.3390/ijms221910583   
2021 Colomer-Vilaplana A, Murga-Moreno J, Canalda-Baltrons A, Inserte C, Soto D, Coronado-Zamora M, Barbadilla A, Casillas S. PopHumanVar: an interactive application for the functional characterization and prioritization of adaptive genomic variants in humans. Nucleic Acids Research. PMID 34664660 DOI: 10.1093/nar/gkab925   
2021 Lai X, Zhou J, Wessely A, Heppt M, Maier A, Berking C, Vera J, Zhang L. A disease network-based deep learning approach for characterizing melanoma. International Journal of Cancer. PMID 34716589 DOI: 10.1002/ijc.33860   
2021 Zhao C, Teng J, Zhang X, Wang D, Zhang X, Li S, Jiang X, Li H, Ning C, Zhang Q. Towards a Cost-Effective Implementation of Genomic Prediction Based on Low Coverage Whole Genome Sequencing in Dezhou Donkey. Frontiers in Genetics. 12: 728764. PMID 34804115 DOI: 10.3389/fgene.2021.728764   
2021 White ND, Batz ZA, Braun EL, Braun MJ, Carleton KL, Kimball RT, Swaroop A. A novel exome probe set captures phototransduction genes across birds (Aves) enabling efficient analysis of vision evolution. Molecular Ecology Resources. PMID 34652059 DOI: 10.1111/1755-0998.13496   
2021 Kim P, Tan H, Liu J, Yang M, Zhou X. FusionAI: Predicting fusion breakpoint from DNA sequence with deep learning. Iscience. 24: 103164. PMID 34646994 DOI: 10.1016/j.isci.2021.103164   
2021 Hu ZL, Park CA, Reecy JM. Bringing the Animal QTLdb and CorrDB into the future: meeting new challenges and providing updated services. Nucleic Acids Research. PMID 34850103 DOI: 10.1093/nar/gkab1116   
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 Yates AD, Allen J, Amode RM, Azov AG, Barba M, Becerra A, Bhai J, Campbell LI, Carbajo Martinez M, Chakiachvili M, Chougule K, Christensen M, Contreras-Moreira B, Cuzick A, Da Rin Fioretto L, et al. Ensembl Genomes 2022: an expanding genome resource for non-vertebrates. Nucleic Acids Research. PMID 34791415 DOI: 10.1093/nar/gkab1007   
2021 Wan JN, Li Y, Guo T, Ji GY, Luo SZ, Ji KP, Cao Y, Tan Q, Bao DP, Yang RH. Whole-Genome and Transcriptome Sequencing of Reveals Its Associated Ectomycorrhizal Niche and Conserved Pathways Involved in Fruiting Body Development. Frontiers in Microbiology. 12: 732458. PMID 34659161 DOI: 10.3389/fmicb.2021.732458   
2021 Campbell JF, Athanassiou CG, Hagstrum DW, Zhu KY. : A Model Insect for Fundamental and Applied Research. Annual Review of Entomology. PMID 34614365 DOI: 10.1146/annurev-ento-080921-075157   
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 Abdel-Glil MY, Thomas P, Linde J, Jolley KA, Harmsen D, Wieler LH, Neubauer H, Seyboldt C. Establishment of a Publicly Available Core Genome Multilocus Sequence Typing Scheme for Clostridium perfringens. Microbiology Spectrum. 9: e0053321. PMID 34704797 DOI: 10.1128/Spectrum.00533-21   
2021 Pratt HE, Andrews GR, Phalke N, Purcaro MJ, van der Velde A, Moore JE, Weng Z. Factorbook: an updated catalog of transcription factor motifs and candidate regulatory motif sites. Nucleic Acids Research. PMID 34755879 DOI: 10.1093/nar/gkab1039   
2021 Martin R, Dreßler H, Hattab G, Hackl T, Fischer MG, Heider D. MOSGA 2: Comparative genomics and validation tools. Computational and Structural Biotechnology Journal. 19: 5504-5509. PMID 34712396 DOI: 10.1016/j.csbj.2021.09.024   
2021 Sharma R, Cockram J, Gardner KA, Russell J, Ramsay L, Thomas WTB, O'Sullivan DM, Powell W, Mackay IJ. Trends of genetic changes uncovered by Env- and Eigen-GWAS in wheat and barley. Tag. Theoretical and Applied Genetics. Theoretische Und Angewandte Genetik. PMID 34778903 DOI: 10.1007/s00122-021-03991-z   
2021 Liu Y, Hu Z, Deng Y, Shang L, Gobler CJ, Tang YZ. Dependence of genome size and copy number of rRNA gene on cell volume in dinoflagellates. Harmful Algae. 109: 102108. PMID 34815026 DOI: 10.1016/j.hal.2021.102108   
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 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 Collins B, Oluwadare O, Brown P. ChromeBat: A Bio-Inspired Approach to 3D Genome Reconstruction. Genes. 12. PMID 34828363 DOI: 10.3390/genes12111757   
2021 Decker KT, Gao Y, Rychel K, Al Bulushi T, Chauhan SM, Kim D, Cho BK, Palsson BO. proChIPdb: a chromatin immunoprecipitation database for prokaryotic organisms. Nucleic Acids Research. PMID 34791440 DOI: 10.1093/nar/gkab1043