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Ann E. Loraine - Publications

Affiliations: 
Bioinformatics and Genomics University of North Carolina, Charlotte, Charlotte, NC, United States 
Area:
bioinformatics, plant biology, genomics, computer science, visualization, software engineering
Website:
https://cci.charlotte.edu/directory/ann-loraine
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44 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
2024 Ouonkap SVY, Palaniappan M, Pryze K, Jong E, Foteh Ali M, Styler B, Althiab Almasaud R, Harkey AF, Reid RW, Loraine AE, Smith SE, Pease JB, Muday GK, Palanivelu R, Johnson MA. Enhanced pollen tube performance at high temperature contributes to thermotolerant fruit and seed production in tomato. Current Biology : Cb. 34: 5319-5333.e5. PMID 39510073 DOI: 10.1016/j.cub.2024.10.025  0.592
2024 Yimga Ouonkap SV, Palaniappan M, Pryze K, Jong E, Ali MF, Styler B, Almasaud RA, Harkey AF, Reid RW, Loraine AE, Smith SE, Muday GK, Pease JB, Palanivelu R, Johnson MA. Enhanced pollen tube performance at high temperature contributes to thermotolerant fruit production in tomato. Biorxiv : the Preprint Server For Biology. PMID 39149357 DOI: 10.1101/2024.08.01.606234  0.566
2024 Postiglione AE, Delange AM, Ali MF, Wang EY, Houben M, Hahn SL, Khoury MG, Roark CM, Davis M, Reid RW, Pease JB, Loraine AE, Muday GK. Flavonols improve tomato pollen thermotolerance during germination and tube elongation by maintaining ROS homeostasis. The Plant Cell. PMID 39102899 DOI: 10.1093/plcell/koae222  0.603
2023 Postiglione AE, Delange AM, Ali MF, Houben M, Wang EY, Hahn SL, Roark CM, Davis M, Reid RW, Pease JB, Loraine AE, Muday GK. Flavonols improve thermotolerance in tomato pollen during germination and tube elongation by maintaining ROS homeostasis. Biorxiv : the Preprint Server For Biology. PMID 38187649 DOI: 10.1101/2023.12.23.573189  0.6
2020 Yeganeh PN, Richardson C, Saule E, Loraine A, Mostafavi MT. Revisiting the use of graph centrality models in biological pathway analysis. Biodata Mining. 13: 1-23. PMID 32549913 DOI: 10.1186/S13040-020-00214-X  0.305
2020 Krizek BA, Blakley IC, Ho YY, Freese N, Loraine AE. The Arabidopsis transcription factor AINTEGUMENTA orchestrates patterning genes and auxin signaling in the establishment of floral growth and form. The Plant Journal : For Cell and Molecular Biology. PMID 32279407 DOI: 10.1111/Tpj.14769  0.451
2019 Sullivan A, Purohit P, Freese NH, Pasha A, Esteban E, Waese J, Wu A, Chen M, Chin CY, Song R, Watharkar SR, Chan AP, Krishnakumar V, Vaughn MW, Town C, ... Loraine AE, et al. An "eFP-Seq Browser" for Visualizing and Exploring RNA-Seq Data. The Plant Journal : For Cell and Molecular Biology. PMID 31350781 DOI: 10.1111/Tpj.14468  0.38
2019 Freese NH, Estrada AR, Blakley IC, Duan J, Loraine AE. Many rice genes are differentially spliced between roots and shoots but cytokinin has minimal effect on splicing. Plant Direct. 3: e00136. PMID 31245776 DOI: 10.1002/pld3.136  0.365
2018 Zubo Y, Blakley IC, Franco-Zorrilla JM, Yamburenko MV, Solano R, Kieber JJ, Loraine AE, Schaller GE. Coordination of Chloroplast Development through the Action of the GNC and GLK Transcription Factor Families. Plant Physiology. PMID 30002259 DOI: 10.1104/Pp.18.00414  0.37
2018 Qin P, Loraine AE, McCormick S. Cell-specific cis-natural antisense transcripts (cis-NATs) in the sperm and the pollen vegetative cells of . F1000research. 7: 93. PMID 29770209 DOI: 10.12688/F1000Research.13311.1  0.37
2017 Vaneechoutte D, Estrada AR, Lin YC, Loraine AE, Vandepoele K. Genome-wide characterization of differential transcript usage in Arabidopsis thaliana. The Plant Journal : For Cell and Molecular Biology. PMID 29031026 DOI: 10.1111/Tpj.13746  0.451
2017 Luo Y, Reid R, Freese D, Li C, Watkins J, Shi H, Zhang H, Loraine A, Song BH. Salt tolerance response revealed by RNA-Seq in a diploid halophytic wild relative of sweet potato. Scientific Reports. 7: 9624. PMID 28852001 DOI: 10.1038/S41598-017-09241-X  0.43
2017 Zubo YO, Blakley IC, Yamburenko MV, Worthen JM, Street IH, Franco-Zorrilla JM, Zhang W, Hill K, Raines T, Solano R, Kieber JJ, Loraine AE, Schaller GE. Cytokinin induces genome-wide binding of the type-B response regulator ARR10 to regulate growth and development in Arabidopsis. Proceedings of the National Academy of Sciences of the United States of America. PMID 28673986 DOI: 10.1073/Pnas.1620749114  0.377
2016 Raines T, Blakley IC, Tsai YC, Worthen JM, Franco-Zorrilla JM, Solano R, Schaller GE, Loraine AE, Kieber JJ. Characterization of the cytokinin-responsive transcriptome in rice. Bmc Plant Biology. 16: 260. PMID 27931185 DOI: 10.1186/S12870-016-0932-Z  0.441
2016 Krizek BA, Bequette CJ, Xu K, Blakley IC, Fu ZQ, Stratmann J, Loraine AE. RNA-Seq links AINTEGUMENTA and AINTEGUMENTA-LIKE6 to cell wall remodeling and plant defense pathways in Arabidopsis. Plant Physiology. PMID 27208279 DOI: 10.1104/Pp.15.01625  0.465
2016 Freese NH, Norris DC, Loraine AE. Integrated genome browser: visual analytics platform for genomics. Bioinformatics (Oxford, England). PMID 27153568 DOI: 10.1093/Bioinformatics/Btw069  0.3
2016 Mall T, Eckstein J, Norris D, Vora H, Freese NH, Loraine AE. ProtAnnot: an App for Integrated Genome Browser to display how alternative splicing and transcription affect proteins. Bioinformatics (Oxford, England). PMID 27153567 DOI: 10.1093/Bioinformatics/Btw068  0.411
2015 Lambirth KC, Whaley AM, Blakley IC, Schlueter JA, Bost KL, Loraine AE, Piller KJ. A Comparison of transgenic and wild type soybean seeds: analysis of transcriptome profiles using RNA-Seq. Bmc Biotechnology. 15: 89. PMID 26427366 DOI: 10.1186/S12896-015-0207-Z  0.387
2015 Estrada AD, Freese NH, Blakley IC, Loraine AE. Analysis of pollen-specific alternative splicing in Arabidopsis thaliana via semi-quantitative PCR. Peerj. 3: e919. PMID 25945312 DOI: 10.7717/Peerj.919  0.414
2015 Gupta V, Estrada AD, Blakley I, Reid R, Patel K, Meyer MD, Andersen SU, Brown AF, Lila MA, Loraine AE. RNA-Seq analysis and annotation of a draft blueberry genome assembly identifies candidate genes involved in fruit ripening, biosynthesis of bioactive compounds, and stage-specific alternative splicing. Gigascience. 4: 5. PMID 25830017 DOI: 10.1186/S13742-015-0046-9  0.45
2015 Loraine AE, Blakley IC, Jagadeesan S, Harper J, Miller G, Firon N. Analysis and visualization of RNA-Seq expression data using RStudio, Bioconductor, and Integrated Genome Browser. Methods in Molecular Biology (Clifton, N.J.). 1284: 481-501. PMID 25757788 DOI: 10.1007/978-1-4939-2444-8_24  0.367
2015 Ben-Tov D, Abraham Y, Stav S, Thompson K, Loraine A, Elbaum R, de Souza A, Pauly M, Kieber JJ, Harpaz-Saad S. COBRA-LIKE2, a member of the glycosylphosphatidylinositol-anchored COBRA-LIKE family, plays a role in cellulose deposition in arabidopsis seed coat mucilage secretory cells. Plant Physiology. 167: 711-24. PMID 25583925 DOI: 10.1104/Pp.114.240671  0.347
2014 Liu R, Loraine AE, Dickerson JA. Comparisons of computational methods for differential alternative splicing detection using RNA-seq in plant systems. Bmc Bioinformatics. 15: 364. PMID 25511303 DOI: 10.1186/S12859-014-0364-4  0.366
2014 Gulledge AA, Vora H, Patel K, Loraine AE. A protocol for visual analysis of alternative splicing in RNA-Seq data using integrated genome browser. Methods in Molecular Biology (Clifton, N.J.). 1158: 123-37. PMID 24792048 DOI: 10.1007/978-1-4939-0700-7_8  0.396
2013 Loraine AE, McCormick S, Estrada A, Patel K, Qin P. RNA-seq of Arabidopsis pollen uncovers novel transcription and alternative splicing. Plant Physiology. 162: 1092-109. PMID 23590974 DOI: 10.1104/Pp.112.211441  0.48
2013 Bhargava A, Clabaugh I, To JP, Maxwell BB, Chiang YH, Schaller GE, Loraine A, Kieber JJ. Identification of cytokinin-responsive genes using microarray meta-analysis and RNA-seq in Arabidopsis Plant Physiology. 162: 272-294. PMID 23524861 DOI: 10.1104/Pp.113.217026  0.445
2012 Gulledge AA, Roberts AD, Vora H, Patel K, Loraine AE. Mining Arabidopsis thaliana RNA-seq data with Integrated Genome Browser reveals stress-induced alternative splicing of the putative splicing regulator SR45a. American Journal of Botany. 99: 219-31. PMID 22291167 DOI: 10.3732/Ajb.1100355  0.421
2010 Humphry M, Bednarek P, Kemmerling B, Koh S, Stein M, Göbel U, Stüber K, Pislewska-Bednarek M, Loraine A, Schulze-Lefert P, Somerville S, Panstruga R. A regulon conserved in monocot and dicot plants defines a functional module in antifungal plant immunity. Proceedings of the National Academy of Sciences of the United States of America. 107: 21896-901. PMID 21098265 DOI: 10.1073/Pnas.1003619107  0.422
2010 English AC, Patel KS, Loraine AE. Prevalence of alternative splicing choices in Arabidopsis thaliana. Bmc Plant Biology. 10: 102. PMID 20525311 DOI: 10.1186/1471-2229-10-102  0.43
2009 Nicol JW, Helt GA, Blanchard SG, Raja A, Loraine AE. The Integrated Genome Browser: free software for distribution and exploration of genome-scale datasets. Bioinformatics (Oxford, England). 25: 2730-1. PMID 19654113 DOI: 10.1093/Bioinformatics/Btp472  0.32
2009 Loraine A. Co-expression Analysis of Metabolic Pathways in Plants Methods of Molecular Biology. 553: 247-264. PMID 19588109 DOI: 10.1007/978-1-60327-563-7_12  0.398
2009 Cui X, Loraine AE. Consistency analysis of redundant probe sets on affymetrix three-prime expression arrays and applications to differential mRNA processing. Plos One. 4: e4229. PMID 19165320 DOI: 10.1371/Journal.Pone.0004229  0.359
2008 Dybvig K, Zuhua C, Lao P, Jordan DS, French CT, Tu AH, Loraine AE. Genome of Mycoplasma arthritidis. Infection and Immunity. 76: 4000-8. PMID 18573899 DOI: 10.1128/Iai.00516-08  0.35
2008 Srinivasasainagendra V, Page GP, Mehta T, Coulibaly I, Loraine AE. CressExpress: a tool for large-scale mining of expression data from Arabidopsis. Plant Physiology. 147: 1004-16. PMID 18467456 DOI: 10.1104/Pp.107.115535  0.364
2008 French CT, Lao P, Loraine AE, Matthews BT, Yu H, Dybvig K. Large-scale transposon mutagenesis of Mycoplasma pulmonis. Molecular Microbiology. 69: 67-76. PMID 18452587 DOI: 10.1111/J.1365-2958.2008.06262.X  0.337
2008 Shriner D, Baye TM, Padilla MA, Zhang S, Vaughan LK, Loraine AE. Commonality of functional annotation: a method for prioritization of candidate genes from genome-wide linkage studies. Nucleic Acids Research. 36: e26. PMID 18263617 DOI: 10.1093/Nar/Gkn007  0.366
2006 Wei H, Persson S, Mehta T, Srinivasasainagendra V, Chen L, Page GP, Somerville C, Loraine A. Transcriptional coordination of the metabolic network in Arabidopsis Plant Physiology. 142: 762-774. PMID 16920875 DOI: 10.1104/Pp.106.080358  0.382
2003 Loraine AE, Helt GA, Cline MS, Siani-Rose MA. Exploring alternative transcript structure in the human genome using blocks and InterPro. Journal of Bioinformatics and Computational Biology. 1: 289-306. PMID 15290774 DOI: 10.1142/S0219720003000113  0.424
2003 Liu G, Loraine AE, Shigeta R, Cline M, Cheng J, Valmeekam V, Sun S, Kulp D, Siani-Rose MA. NetAffx: Affymetrix probesets and annotations. Nucleic Acids Research. 31: 82-6. PMID 12519953 DOI: 10.1093/Nar/Gkg121  0.319
2002 Loraine AE, Helt GA, Cline MS, Siani-Rose MA. Protein-based analysis of alternative splicing in the human genome. Proceedings / Ieee Computer Society Bioinformatics Conference. Ieee Computer Society Bioinformatics Conference. 1: 118-24. PMID 15838129 DOI: 10.1109/CSB.2002.1039335  0.321
2002 Loraine AE, Helt GA. Visualizing the genome: techniques for presenting human genome data and annotations. Bmc Bioinformatics. 3: 19. PMID 12149135 DOI: 10.1186/1471-2105-3-19  0.32
1998 Helt GA, Lewis S, Loraine AE, Rubin GM. BioViews: Java-based tools for genomic data visualization. Genome Research. 8: 291-305. PMID 9521932 DOI: 10.1101/Gr.8.3.291  0.318
1996 Yalovsky S, Loraine AE, Gruissem W. Specific Prenylation of Tomato Rab Proteins by Geranylgeranyl Type-II Transferase Requires a Conserved Cysteine-Cysteine Motif. Plant Physiology. 110: 1349-1359. PMID 12226265 DOI: 10.1104/Pp.110.4.1349  0.55
1996 Loraine AE, Yalovsky S, Fabry S, Gruissem W. Tomato Rab1A homologs as molecular tools for studying Rab geranylgeranyl transferase in plant cells. Plant Physiology. 110: 1337-47. PMID 8934628 DOI: 10.1104/Pp.110.4.1337  0.569
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