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Eva Huala, Ph.D. - Publications

Affiliations: 
1999- TAIR 
 2013- Phoenix Bioinformatics 
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24/40 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2017 Reiser L, Subramaniam S, Li D, Huala E. Using the Arabidopsis Information Resource (TAIR) to Find Information About Arabidopsis Genes. Current Protocols in Bioinformatics. 60: 1.11.1-1.11.45. PMID 29220077 DOI: 10.1002/Cpbi.36  0.398
2015 Berardini TZ, Reiser L, Li D, Mezheritsky Y, Muller R, Strait E, Huala E. The arabidopsis information resource: Making and mining the 'gold standard' annotated reference plant genome. Genesis (New York, N.Y. : 2000). PMID 26201819 DOI: 10.1002/Dvg.22877  0.366
2015 Oellrich A, Walls RL, Cannon EK, Cannon SB, Cooper L, Gardiner J, Gkoutos GV, Harper L, He M, Hoehndorf R, Jaiswal P, Kalberer SR, Lloyd JP, Meinke D, Menda N, ... ... Huala E, et al. An ontology approach to comparative phenomics in plants. Plant Methods. 11: 10. PMID 25774204 DOI: 10.1186/S13007-015-0053-Y  0.323
2014 Li D, Dreher K, Knee E, Brkljacic J, Grotewold E, Berardini TZ, Lamesch P, Garcia-Hernandez M, Reiser L, Huala E. Arabidopsis database and stock resources. Methods in Molecular Biology (Clifton, N.J.). 1062: 65-96. PMID 24057361 DOI: 10.1007/978-1-62703-580-4_4  0.311
2013 Cooper L, Walls RL, Elser J, Gandolfo MA, Stevenson DW, Smith B, Preece J, Athreya B, Mungall CJ, Rensing S, Hiss M, Lang D, Reski R, Berardini TZ, Li D, ... Huala E, et al. The plant ontology as a tool for comparative plant anatomy and genomic analyses. Plant & Cell Physiology. 54: e1. PMID 23220694 DOI: 10.1093/Pcp/Pcs163  0.37
2012 Li D, Berardini TZ, Muller RJ, Huala E. Building an efficient curation workflow for the Arabidopsis literature corpus. Database : the Journal of Biological Databases and Curation. 2012: bas047. PMID 23221298 DOI: 10.1093/Database/Bas047  0.338
2012 Wei CH, Harris BR, Li D, Berardini TZ, Huala E, Kao HY, Lu Z. Accelerating literature curation with text-mining tools: a case study of using PubTator to curate genes in PubMed abstracts. Database : the Journal of Biological Databases and Curation. 2012: bas041. PMID 23160414 DOI: 10.1093/Database/Bas041  0.303
2012 Berardini TZ, Li D, Muller R, Chetty R, Ploetz L, Singh S, Wensel A, Huala E. Assessment of community-submitted ontology annotations from a novel database-journal partnership. Database : the Journal of Biological Databases and Curation. 2012: bas030. PMID 22859749 DOI: 10.1093/Database/Bas030  0.33
2012 Lamesch P, Berardini TZ, Li D, Swarbreck D, Wilks C, Sasidharan R, Muller R, Dreher K, Alexander DL, Garcia-Hernandez M, Karthikeyan AS, Lee CH, Nelson WD, Ploetz L, Singh S, ... ... Huala E, et al. The Arabidopsis Information Resource (TAIR): improved gene annotation and new tools. Nucleic Acids Research. 40: D1202-10. PMID 22140109 DOI: 10.1093/Nar/Gkr1090  0.393
2008 Swarbreck D, Wilks C, Lamesch P, Berardini TZ, Garcia-Hernandez M, Foerster H, Li D, Meyer T, Muller R, Ploetz L, Radenbaugh A, Singh S, Swing V, Tissier C, Zhang P, ... Huala E, et al. The Arabidopsis Information Resource (TAIR): gene structure and function annotation. Nucleic Acids Research. 36: D1009-14. PMID 17986450 DOI: 10.1093/Nar/Gkm965  0.693
2005 Schlueter SD, Wilkerson MD, Huala E, Rhee SY, Brendel V. Community-based gene structure annotation. Trends in Plant Science. 10: 9-14. PMID 15642518 DOI: 10.1016/J.Tplants.2004.11.002  0.321
2004 Berardini TZ, Mundodi S, Reiser L, Huala E, Garcia-Hernandez M, Zhang P, Mueller LA, Yoon J, Doyle A, Lander G, Moseyko N, Yoo D, Xu I, Zoeckler B, Montoya M, et al. Functional annotation of the Arabidopsis genome using controlled vocabularies. Plant Physiology. 135: 745-55. PMID 15173566 DOI: 10.1104/Pp.104.040071  0.399
2003 Rhee SY, Beavis W, Berardini TZ, Chen G, Dixon D, Doyle A, Garcia-Hernandez M, Huala E, Lander G, Montoya M, Miller N, Mueller LA, Mundodi S, Reiser L, Tacklind J, et al. The Arabidopsis Information Resource (TAIR): a model organism database providing a centralized, curated gateway to Arabidopsis biology, research materials and community. Nucleic Acids Research. 31: 224-8. PMID 12519987 DOI: 10.1093/Nar/Gkg076  0.39
2002 Garcia-Hernandez M, Berardini TZ, Chen G, Crist D, Doyle A, Huala E, Knee E, Lambrecht M, Miller N, Mueller LA, Mundodi S, Reiser L, Rhee SY, Scholl R, Tacklind J, et al. TAIR: a resource for integrated Arabidopsis data. Functional & Integrative Genomics. 2: 239-53. PMID 12444417 DOI: 10.1007/S10142-002-0077-Z  0.397
2001 Huala E, Dickerman AW, Garcia-Hernandez M, Weems D, Reiser L, LaFond F, Hanley D, Kiphart D, Zhuang M, Huang W, Mueller LA, Bhattacharyya D, Bhaya D, Sobral BW, Beavis W, et al. The Arabidopsis Information Resource (TAIR): a comprehensive database and web-based information retrieval, analysis, and visualization system for a model plant. Nucleic Acids Research. 29: 102-5. PMID 11125061 DOI: 10.1093/Nar/29.1.102  0.346
1999 Briggs WR, Huala E. Blue-light photoreceptors in higher plants. Annual Review of Cell and Developmental Biology. 15: 33-62. PMID 10611956 DOI: 10.1146/Annurev.Cellbio.15.1.33  0.612
1997 Huala E, Oeller PW, Liscum E, Han IS, Larsen E, Briggs WR. Arabidopsis NPH1: a protein kinase with a putative redox-sensing domain. Science (New York, N.Y.). 278: 2120-3. PMID 9405347 DOI: 10.1126/Science.278.5346.2120  0.545
1993 Huala E, Sussex IM. Determination and Cell Interactions in Reproductive Meristems. The Plant Cell. 5: 1157-1165. PMID 12271019 DOI: 10.1105/Tpc.5.10.1157  0.557
1992 Huala E, Sussex IM. LEAFY Interacts with Floral Homeotic Genes to Regulate Arabidopsis Floral Development. The Plant Cell. 4: 901-913. PMID 12297664 DOI: 10.1105/Tpc.4.8.901  0.625
1992 Huala E, Stigter J, Ausubel FM. The central domain of Rhizobium leguminosarum DctD functions independently to activate transcription. Journal of Bacteriology. 174: 1428-31. PMID 1735730 DOI: 10.1128/Jb.174.4.1428-1431.1992  0.555
1991 Huala E, Moon AL, Ausubel FM. Aerobic inactivation of Rhizobium meliloti NifA in Escherichia coli is mediated by lon and two newly identified genes, snoB and snoC. Journal of Bacteriology. 173: 382-90. PMID 1846139 DOI: 10.1128/Jb.173.1.382-390.1991  0.537
1989 Huala E, Ausubel FM. The central domain of Rhizobium meliloti NifA is sufficient to activate transcription from the R. meliloti nifH promoter. Journal of Bacteriology. 171: 3354-65. PMID 2722751 DOI: 10.1128/Jb.171.6.3354-3365.1989  0.546
1989 Albright LM, Huala E, Ausubel FM. Prokaryotic signal transduction mediated by sensor and regulator protein pairs. Annual Review of Genetics. 23: 311-36. PMID 2694934 DOI: 10.1146/Annurev.Ge.23.120189.001523  0.503
1984 Mandoli DF, Tepperman J, Huala E, Briggs WR. Photobiology of diagravitropic maize roots. Plant Physiology. 75: 359-63. PMID 16663626 DOI: 10.1104/Pp.75.2.359  0.693
Low-probability matches (unlikely to be authored by this person)
2015 Deans AR, Lewis SE, Huala E, Anzaldo SS, Ashburner M, Balhoff JP, Blackburn DC, Blake JA, Burleigh JG, Chanet B, Cooper LD, Courtot M, Csösz S, Cui H, Dahdul W, et al. Finding our way through phenotypes. Plos Biology. 13: e1002033. PMID 25562316 DOI: 10.1371/Journal.Pbio.1002033  0.295
2012 Hirschman L, Burns GA, Krallinger M, Arighi C, Cohen KB, Valencia A, Wu CH, Chatr-Aryamontri A, Dowell KG, Huala E, Lourenço A, Nash R, Veuthey AL, Wiegers T, Winter AG. Text mining for the biocuration workflow. Database : the Journal of Biological Databases and Curation. 2012: bas020. PMID 22513129 DOI: 10.1093/Database/Bas020  0.293
2017 Petrov AI, Kay SJE, Kalvari I, Howe KL, Gray KA, Bruford EA, Kersey PJ, Cochrane G, Finn RD, Bateman A, Kozomara A, Griffiths-Jones S, Frankish A, Zwieb CW, ... ... Huala E, et al. RNAcentral: a comprehensive database of non-coding RNA sequences. Nucleic Acids Research. 45: D128-D134. PMID 27794554 DOI: 10.1093/Nar/Gkw1008  0.291
2016 Reiser L, Berardini TZ, Li D, Muller R, Strait EM, Li Q, Mezheritsky Y, Vetushko A, Huala E. Sustainable funding for biocuration: The Arabidopsis Information Resource (TAIR) as a case study of a subscription-based funding model. Database : the Journal of Biological Databases and Curation. 2016. PMID 26989150 DOI: 10.1093/Database/Baw018  0.29
2010 Lamesch P, Dreher K, Swarbreck D, Sasidharan R, Reiser L, Huala E. Using the Arabidopsis information resource (TAIR) to find information about Arabidopsis genes. Current Protocols in Bioinformatics. Unit1.11. PMID 20521243 DOI: 10.1002/0471250953.bi0111s30  0.288
2009 Salwinski L, Licata L, Winter A, Thorneycroft D, Khadake J, Ceol A, Aryamontri AC, Oughtred R, Livstone M, Boucher L, Botstein D, Dolinski K, Berardini T, Huala E, Tyers M, et al. Recurated protein interaction datasets. Nature Methods. 6: 860-1. PMID 19935838 DOI: 10.1038/Nmeth1209-860  0.282
2015 Thessen AE, Bunker DE, Buttigieg PL, Cooper LD, Dahdul WM, Domisch S, Franz NM, Jaiswal P, Lawrence-Dill CJ, Midford PE, Mungall CJ, Ramírez MJ, Specht CD, Vogt L, Vos RA, ... ... Huala E, et al. Emerging semantics to link phenotype and environment. Peerj. 3: e1470. PMID 26713234 DOI: 10.7717/Peerj.1470  0.278
2011 Arighi CN, Roberts PM, Agarwal S, Bhattacharya S, Cesareni G, Chatr-Aryamontri A, Clematide S, Gaudet P, Giglio MG, Harrow I, Huala E, Krallinger M, Leser U, Li D, Liu F, et al. BioCreative III interactive task: an overview. Bmc Bioinformatics. 12: S4. PMID 22151968 DOI: 10.1186/1471-2105-12-S8-S4  0.275
2020 Zhang P, Berardini TZ, Ebert D, Li Q, Mi H, Muruganujan A, Prithvi T, Reiser L, Sawant S, Thomas PD, Huala E. PhyloGenes: An online phylogenetics and functional genomics resource for plant gene function inference. Plant Direct. 4: e00293. PMID 33392435 DOI: 10.1002/pld3.293  0.273
2012 Sasidharan R, Nepusz T, Swarbreck D, Huala E, Paccanaro A. GFam: a platform for automatic annotation of gene families. Nucleic Acids Research. 40: e152. PMID 22790981 DOI: 10.1093/Nar/Gks631  0.269
2010 Schofield PN, Eppig J, Huala E, de Angelis MH, Harvey M, Davidson D, Weaver T, Brown S, Smedley D, Rosenthal N, Schughart K, Aidinis V, Tocchini-Valentini G, Hancock JM. Research funding. Sustaining the data and bioresource commons. Science (New York, N.Y.). 330: 592-3. PMID 21030633 DOI: 10.1126/Science.1191506  0.244
2012 Mabee P, Deans A, Huala E, Lewis SE. Phenotype Ontology Research Coordination Network meeting report: creating a community network for comparing and leveraging phenotype-genotype knowledge across species. Standards in Genomic Sciences. 6: 440-3. PMID 23409218 DOI: 10.4056/Sigs.2926219  0.243
2017 Reiser L, Berardini TZ, Li D, Li Q, Muller R, Strait E, Vetushko A, Huala E. Employing user driven development principles to inform design of biological database interfaces and resources F1000research. 6. DOI: 10.7490/F1000Research.1113835.1  0.236
2004 Weems D, Miller N, Garcia-Hernandez M, Huala E, Rhee SY. Design, implementation and maintenance of a model organism database for Arabidopsis thaliana. Comparative and Functional Genomics. 5: 362-9. PMID 18629167 DOI: 10.1002/cfg.408  0.229
2012 Van Auken K, Fey P, Berardini TZ, Dodson R, Cooper L, Li D, Chan J, Li Y, Basu S, Muller HM, Chisholm R, Huala E, Sternberg PW. Text mining in the biocuration workflow: applications for literature curation at WormBase, dictyBase and TAIR. Database : the Journal of Biological Databases and Curation. 2012: bas040. PMID 23160413 DOI: 10.1093/Database/Bas040  0.228
2013 Blake JA, Dolan M, Drabkin H, Hill DP, Li N, Sitnikov D, Bridges S, Burgess S, Buza T, McCarthy F, Peddinti D, Pillai L, Carbon S, Dietze H, ... ... Huala E, et al. Gene Ontology annotations and resources. Nucleic Acids Research. 41: D530-5. PMID 23161678 DOI: 10.1093/nar/gks1050  0.197
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