Gramene's impact on plant research in 2015-2016
Gramene database (www.gramene.org) offers resources for conducting comparative studies on plant genomes and pathways. Over the years, we have made efforts to reach out to the various communities of plant scientists and have assisted many individuals in using various tools/and resources available from the Gramene. We have also established connection between ours and other publicly available data sources. In year 2015 and 2016, Gramene has been cited ~90 times by various researchers. Here we are listing some of the articles which cited Gramene and / or used Gramene resources for their research. We thank all of our users and collaborators.
Citation of Gramene in Year 2016 and 2015:
1. PoplarGene: poplar gene network and resource for mining functional information for genes from woody plants By: Liu, Qi; Ding, Changjun; Chu, Yanguang; et al., SCIENTIFIC REPORTS Volume: 6, Article Number: 31356, Published: AUG 12 2016
2. Identification of two novel powdery mildew resistance loci, Ren6 and Ren7, from the wild Chinese grape species Vitis piasezkii By: Pap, Daniel; Riaz, Summaira; Dry, Ian B.; et al., BMC PLANT BIOLOGY, Volume: 16, Article Number: 170, Published: JUL 29 2016.
3. A Sorghum Mutant Resource as an Efficient Platform for Gene Discovery in Grasses By: Jiao, Yinping; Burke, John; Chopra, Ratan; et al.PLANT CELL Volume: 28 Issue: 7, Pages: 1551-1562 Published: JUL 2016.
4. Fine mapping of qKW7, a major QTL for kernel weight and kernel width in maize, confirmed by the combined analytic approaches of linkage and association analysis By: Li, Xin; Li, Yong-xiang; Chen, Lin; et al., EUPHYTICA Volume: 210 Issue: 2 Pages: 221-232 Published: JUL 2016.
5. Unveiling the complexity of the maize transcriptome by single-molecule long-read sequencing By: Wang, Bo; Tseng, Elizabeth; Regulski, Michael; et al., NATURE COMMUNICATIONS Volume: 7 Article Number: 11708 Published: JUN 2016.
6. PGP repository: a plant phenomics and genomics data publication infrastructure By: Arend, Daniel; Junker, Astrid; Scholz, Uwe; et al., DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION Article Number: baw033 Published: APR 17 2016
7. The big five of the monocot genomes By: Haberer, Georg; Mayer, Klaus F. X.; Spannagl, Manuel, CURRENT OPINION IN PLANT BIOLOGY Volume: 30 Pages: 33-40 Published: APR 2016.
8. Translational genomics for plant breeding with the genome sequence explosion By: Kang, Yang Jae; Lee, Taeyoung; Lee, Jayern; et al., PLANT BIOTECHNOLOGY JOURNAL Volume: 14 Issue: 4 Pages: 1057-1069 Published: APR 2016.
9. Germplasm dynamics: the role of ecotypic diversity in shaping the patterns of genetic variation in Lolium perenne By: Blackmore, T.; Thorogood, D.; Skot, L.; et al., SCIENTIFIC REPORTS Volume: 6 Article Number: 22603 Published: MAR 3 2016
10. FragariaCyc: A Metabolic Pathway Database for Woodland Strawberry Fragaria vesca By: Naithani, Sushma; Partipilo, Christina M.; Raja, Rajani; et al., FRONTIERS IN PLANT SCIENCE Volume: 7 Article Number: 242 Published: MAR 4 2016
11. Variation in cooking and eating quality traits in Japanese rice germplasm accessions By: Hori, Kiyosumi; Suzuki, Keitaro; Iijima, Ken; et al., BREEDING SCIENCE Volume: 66 Issue: 2 Pages: 309-318 Published: MAR 2016
12. Ensembl comparative genomics resources By: Herrero, Javier; Muffato, Matthieu; Beal, Kathryn; et al., DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION Article Number: bav096 Published: FEB 20 2016
13. MaizeGDB update: new tools, data and interface for the maize model organism database By: Andorf, Carson M.; Cannon, Ethalinda K.; Portwood, John L., II; et al., NUCLEIC ACIDS RESEARCH Volume: 44 Issue: D1 Pages: D1195-D1201 Published: JAN 4 2016
14. Ensembl Genomes 2016: more genomes, more complexity By: Kersey, Paul Julian; Allen, James E.; Armean, Irina; et al., NUCLEIC ACIDS RESEARCH Volume: 44 Issue: D1 Pages: D574-D580 Published: JAN 4 2016
15. Information Commons for Rice (IC4R) By: Zhang, Zhang; Hu, Songnian; He, Hang; et al., Group Author(s): IC4R Project Consortium , NUCLEIC ACIDS RESEARCH Volume: 44 Issue: D1 Pages: D1172-D1180 Published: JAN 4 2016
16. Finding the Subcellular Location of Barley, Wheat, Rice and Maize Proteins: The Compendium of Crop Proteins with Annotated Locations (cropPAL) By: Hooper, Cornelia M.; Castleden, Ian R.; Aryamanesh, Nader; et al., PLANT AND CELL PHYSIOLOGY Volume: 57 Issue: 1 Published: JAN 2016
17. NABIC: A New Access Portal to Search, Visualize, and Share Agricultural Genomics Data By: Seol, Young-Joo; Lee, Tae-Ho; Park, Dong-Suk; et al., EVOLUTIONARY BIOINFORMATICS Volume: 12 Pages: 51-58 Published: 201
18. Defining the RNA-binding glycine-rich (RBG) gene superfamily: new insights into nomenclature, phylogeny, and evolutionary trends obtained by genome-wide comparative analysis of Arabidopsis, Chinese cabbage, rice and maize genomes By: Krishnamurthy, Panneerselvam; Kim, Jin A.; Jeong, Mi-; et al., MOLECULAR GENETICS AND GENOMICS Volume: 290 Issue: 6 Pages: 2279-2295 Published: DEC 2015
19. Genome-wide identification and evolutionary analyses of bZIP transcription factors in wheat and its relatives and expression profiles of anther development related TabZIP genes By: Li, Xueyin; Gao, Shiqing; Tang, Yimiao; et al., BMC GENOMICS Volume: 16 Article Number: 976 Published: NOV 18 2015
20. Quantitative trait loci (QTL) and candidate genes associated with trace element concentrations in perennial grasses grown on phytotoxic soil contaminated with heavy metalsBy: Yun, Lan; Larson, Steven R.; Jensen, Kevin B.; et al., PLANT AND SOIL Volume: 396 Issue: 1-2 Pages: 277-296 Published: NOV 2015
21. Genetics and physiology of cell wall polysaccharides in the model C-4 grass, Setaria viridis spp By: Ermawar, Riksfardini A.; Collins, Helen M.; Byrt, Caitlin S.; et al., BMC PLANT BIOLOGY Volume: 15 Article Number: 236 Published: OCT 2 2015
22. Small-scale gene duplications played a major role in the recent evolution of wheat chromosome 3B , By: Glover, Natasha M.; Daron, Josquin; Pingault, Lise; et al., GENOME BIOLOGY Volume: 16 Article Number: 188 Published: SEP 9 2015
23. Disease Resistance Gene Analogs (RGAs) in Plants By: Sekhwal, Manoj Kumar; Li, Pingchuan; Lam, Irene; et al., INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES Volume: 16 Issue: 8 Pages: 19248-19290 Published: AUG 2015
24. Characteristics of Plant Essential Genes Allow for within-and between-Species Prediction of Lethal Mutant Phenotypes By: Lloyd, John P.; Seddon, Alexander E.; Moghe, Gaurav D.; et al., PLANT CELL Volume: 27 Issue: 8 Pages: 2133-2147 Published: AUG 2015
25. Targeted Sequencing Reveals Large-Scale Sequence Polymorphism in Maize Candidate Genes for Biomass Production and Composition By: Muraya, Moses M.; Schmutzer, Thomas; Ulpinnis, Chris; et al., PLOS ONE Volume: 10 Issue: 7 Article Number: e0132120 Published: JUL 7 2015.
26. Transcriptome Response Signatures Associated with the Overexpression of a Mitochondrial Uncoupling Protein (AtUCP1) in Tobacco By: Nunes Laitz, Alessandra Vasconcellos; Acencio, Marcio Luis; Budzinski, Ilara G. F.; et al., PLOS ONE Volume: 10 Issue: 6 Article Number: e0130744 Published: JUN 24 2015
27. Getting the 'MOST' out of crop improvement By: Hu, Songlin; Luebberstedt, Thomas, TRENDS IN PLANT SCIENCE Volume: 20 Issue: 6 Pages: 372-379 Published: JUN 2015
28. Reduced susceptibility to Fusarium head blight in Brachypodium distachyon through priming with the Fusarium mycotoxin deoxynivalenol By: Bluemke, Antje; Sode, Bjoern; Ellinger, Dorothea; et al., MOLECULAR PLANT PATHOLOGY Volume: 16 Issue: 5 Pages: 472-483 Published: JUN 2015
29. QTLMiner: QTL database curation by mining tables in literature By: Peng, Jing; Shi, Xinyi; Sun, Yiming; et al., BIOINFORMATICS Volume: 31 Issue: 10 Pages: 1689-1691 Published: MAY 15 201
30. Genetic mapping of leaf blast resistance gene in landrace rice cultivar 'GS19769' By: Parinthawong, Nonglak; Tansian, Pennapar; Sreewongchai, Tanee, MAEJO INTERNATIONAL JOURNAL OF SCIENCE AND TECHNOLOGY Volume: 9 Issue: 2 Pages: 278-287 Published: MAY-AUG 2015
31. Enrichment of Triticum aestivum gene annotations using ortholog cliques and gene ontologies in other plants By: Tulpan, Dan; Leger, Serge; Tchagang, Alain; et al., BMC GENOMICS Volume: 16 Article Number: 299 Published: APR 15 2015
32. Patterns of Metabolite Changes Identified from Large-Scale Gene Perturbations in Arabidopsis Using a Genome-Scale Metabolic Network By: Kim, Taehyong; Dreher, Kate; Nilo-Poyanco, Ricardo; et al., PLANT PHYSIOLOGY Volume: 167 Issue: 4 Pages: 1685-U890 Published: APR 2015
33. RIG: Recalibration and Interrelation of Genomic Sequence Data with the GATK By: McCormick, Ryan F.; Truong, Sandra K.; Mullet, John E., G3-GENES GENOMES GENETICS Volume: 5 Issue: 4 Pages: 655-665 Published: APR 1 2015
34. Distribution, structure and biosynthetic gene families of (1,3;1,4)-beta-glucan in Sorghum bicolor By: Ermawar, Riksfardini A.; Collins, Helen M.; Byrt, Caitlin S.; et al., JOURNAL OF INTEGRATIVE PLANT BIOLOGY Volume: 57 Issue: 4 Special Issue: SI Pages: 429-445 Published: APR 2015
35. Genetic and Genomic Toolbox of Zea mays By: Nannas, Natalie J.; Dawe, R. Kelly GENETICS Volume: 199 Issue: 3 Pages: 655-+ Published: MAR 2015
36. Comparative genomics of grass EST libraries reveals previously uncharacterized splicing events in crop plants By: Chuang, Trees-Juen; Yang, Min-Yu; Lin, Chuang-Chieh; et al., BMC PLANT BIOLOGY Volume: 15 Article Number: 39 Published: FEB 5 2015
37. Multidimensional approaches for studying plant defence against insects: from ecology to omics and synthetic biology By: Barah, Pankaj; Bones, Atle M., JOURNAL OF EXPERIMENTAL BOTANY Volume: 66 Issue: 2 Special Issue: SI Pages: 479-493 Published: FEB 2015
38. The OMA orthology database in 2015: function predictions, better plant support, synteny view and other improvements By: Altenhoff, Adrian M.; Skunca, Nives; Glover, Natasha; et al., NUCLEIC ACIDS RESEARCH Volume: 43 Issue: D1 Pages: D240-D249 Published: JAN 28 2015
39. Gene Ontology Consortium: going forward By: Blake, J. A.; Christie, K. R.; Dolan, M. E.; et al. Group Author(s): Gene Ontology Consortium , NUCLEIC ACIDS RESEARCH Volume: 43 Issue: D1 Pages: D1049-D1056 Published: JAN 28 2015
40. The coffee genome hub: a resource for coffee genomes By: Dereeper, Alexis; Bocs, Stephanie; Rouard, Mathieu; et al., NUCLEIC ACIDS RESEARCH Volume: 43 Issue: D1 Pages: D1028-D1035 Published: JAN 28 2015
41. PLAZA 3.0: an access point for plant comparative genomics By: Proost, Sebastian; Van Bel, Michiel; Vaneechoutte, Dries; et al. NUCLEIC ACIDS RESEARCH Volume: 43 Issue: D1 Pages: D974-D981 Published: JAN 28 2015
42. EXPath: a database of comparative expression analysis inferring metabolic pathways for plants By: Chien, Chia-Hung; Chow, Chi-Nga; Wu, Nai-Yun; et al., BMC GENOMICS Volume: 16 Supplement: 2 Article Number: S6 Published: JAN 21 2015
43. Triticeae Resources in Ensembl Plants By: Bolser, Dan M.; Kerhornou, Arnaud; Walts, Brandon; et al. PLANT AND CELL PHYSIOLOGY Volume: 56 Issue: 1 Article Number: UNSP e3 Published: JAN 201
44. A Maize Database Resource that Captures Tissue-Specific and Subcellular-Localized Gene Expression, via Fluorescent Tags and Confocal Imaging (Maize Cell Genomics Database) By: Krishnakumar, Vivek; Choi, Yongwook; Beck, Erin; et al. PLANT AND CELL PHYSIOLOGY Volume: 56 Issue: 1 Article Number: UNSP e12 Published: JAN 2015
45. MOROKOSHI: Transcriptome Database in Sorghum bicolor By: Makita, Yuko; Shimada, Setsuko; Kawashima, Mika; et al., PLANT AND CELL PHYSIOLOGY Volume: 56 Issue: 1 Article Number: UNSP e6 Published: JAN 2015
46. The Bimodal Distribution of Genic GC Content Is Ancestral to Monocot Species By: Clement, Yves; Fustier, Margaux-Alison; Nabholz, Benoit; et al., GENOME BIOLOGY AND EVOLUTION Volume: 7 Issue: 1 Pages: 336-348 Published: JAN 2015
47. Automated Update, Revision, and Quality Control of the Maize Genome Annotations Using MAKER-P Improves the B73 RefGen_v3 Gene Models and Identifies New Genes By: Law, MeiYee; Childs, Kevin L.; Campbell, Michael S.; et al. PLANT PHYSIOLOGY Volume: 167 Issue: 1 Pages: 25-39 Published: JAN 2015
48. Fine mapping of qHd1, a minor heading date QTL with pleiotropism for yield traits in rice (Oryza sativa L.) By: Chen, Jun-Yu; Guo, Liang; Ma, Huan; et al., THEORETICAL AND APPLIED GENETICS Volume: 127 Issue: 11 Pages: 2515-2524 Published: NOV 2014
49. GC content evolution in coding regions of angiosperm genomes: a unifying hypothesis By: Glemin, Sylvain; Clement, Yves; David, Jacques; et al., TRENDS IN GENETICS Volume: 30 Issue: 7 Pages: 263-270 Published: JUL 2014
50. Unique Genotypic Differences Discovered among Indigenous Bangladeshi Rice Landraces By: Yesmin, Nusrat; Elias, Sabrina M.; Rahman, Md. Sazzadur; et al., INTERNATIONAL JOURNAL OF GENOMICS Article Number: 210328 Published: 2014
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