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Research Output 2000 2019

2015
23 Citations (Scopus)

Reassess the t test: Interact with all your data via ANOVA

Brady, S. M., Burow, M., Busch, W., Carlborg, Õ., Denby, K. J., Glazebrook, J., Hamilton, E. S., Harmer, S. L., Haswell, E. S., Maloof, J. N., Springer, N. M. & Kliebenstein, D. J., Aug 1 2015, In : Plant Cell. 27, 8, p. 2088-2094 7 p.

Research output: Contribution to journalArticle

Analysis of Variance
analysis of variance
Genotype
genotype
plant biology
65 Citations (Scopus)

RNA-directed DNA methylation enforces boundaries between heterochromatin and euchromatin in the maize genome

Li, Q., Gent, J. I., Zynda, G., Song, J., Makarevitch, I., Hirsch, C. D., Hirsch, C. N., Dawe, R. K., Madzima, T. F., McGinnis, K. M., Lisch, D., Schmitz, R. J., Vaughn, M. W. & Springer, N. M., Nov 24 2015, In : Proceedings of the National Academy of Sciences of the United States of America. 112, 47, p. 14728-14733 6 p.

Research output: Contribution to journalArticle

Euchromatin
Heterochromatin
DNA Methylation
Islands
Zea mays
120 Citations (Scopus)

Transposable Elements Contribute to Activation of Maize Genes in Response to Abiotic Stress

Makarevitch, I., Waters, A. J., West, P. T., Stitzer, M., Hirsch, C. N., Ross-Ibarra, J. & Springer, N. M., Jan 1 2015, In : PLoS genetics. 11, 1, e1004915.

Research output: Contribution to journalArticle

DNA Transposable Elements
transposons
Transcriptional Activation
abiotic stress
Zea mays
2014
29 Citations (Scopus)

Consistent and heritable alterations of DNA methylation are induced by tissue culture in maize

Stelpflug, S. C., Eichten, S. R., Hermanson, P. J., Springer, N. M. & Kaeppler, S. M., Apr 11 2014, In : Genetics. 198, 1, p. 209-218 10 p.

Research output: Contribution to journalArticle

DNA Methylation
Zea mays
Epigenomics
Methylation
Genome
2 Citations (Scopus)

Correction: Maize gene atlas developed by RNA sequencing and comparative evaluation of transcriptomes based on RNA sequencing and microarrays (PLoS ONE)

Sekhon, R. S., Briskine, R., Hirsch, C. N., Myers, C. L., Springer, N. M., Buell, C. R., De Leon, N. & Kaeppler, S. M., Jan 3 2014, In : PloS one. 9, 1

Research output: Contribution to journalComment/debate

Microarrays
Genes
RNA
18 Citations (Scopus)

Discovering functional modules across diverse maize transcriptomes using COB, the co-expression browser

Schaefer, R. J., Briskine, R., Springer, N. M. & Myers, C. L., Jun 12 2014, In : PloS one. 9, 6, e99193.

Research output: Contribution to journalArticle

Atlases
Transcriptome
transcriptome
Zea mays
Genes
63 Citations (Scopus)

Epigenetics: Beyond chromatin modifications and complex genetic regulation

Eichten, S. R., Schmitz, R. J. & Springer, N. M., Jul 2014, In : Plant physiology. 165, 3, p. 933-947 15 p.

Research output: Contribution to journalArticle

Epigenomics
epigenetics
Chromatin
chromatin
histones
8 Citations (Scopus)

Genetic control of maize shoot apical meristem architecture

Thompson, A. M., Crants, J., Schnable, P. S., Yu, J., Timmermans, M. C. P., Springer, N. M., Scanlon, M. J. & Muehlbauer, G. J., Jan 1 2014, In : G3: Genes, Genomes, Genetics. 4, 7, p. 1327-1337 11 p.

Research output: Contribution to journalArticle

Meristem
Zea mays
Growth
Population
Chromosomes, Human, Pair 8
30 Citations (Scopus)

Genetic Determinants for Enzymatic Digestion of Lignocellulosic Biomass are Independent of Those for Lignin abundance in a maize Recombinant Inbred population

Penning, B. W., Sykes, R. W., Babcock, N. C., Dugard, C. K., Held, M. A., Klimek, J. F., Shreve, J. T., Fowler, M., Ziebell, A., Davis, M. F., Decker, S. R., Turner, G. B., Mosier, N. S., Springer, N. M., Thimmapuram, J., Weil, C. F., Mccann, M. C. & Carpita, N. C., Aug 2014, In : Plant physiology. 165, 4, p. 1475-1487 13 p.

Research output: Contribution to journalArticle

Lignin
Biomass
Quantitative Trait Loci
Zea mays
Digestion
68 Citations (Scopus)

Genetic perturbation of the maize methylome

Li, Q., Eichten, S. R., Hermanson, P. J., Zaunbrecher, V. M., Song, J., Wendt, J., Rosenbaum, H., Madzima, T. F., Sloan, A. E., Huang, J., Burgess, D. L., Richmond, T. A., McGinnis, K. M., Meeley, R. B., Danilevskaya, O. N., Vaughn, M. W., Kaeppler, S. M., Jeddeloh, J. A. & Springer, N. M., Jan 1 2014, In : Plant Cell. 26, 12, p. 4602-4616 15 p.

Research output: Contribution to journalArticle

DNA Methylation
Zea mays
DNA methylation
Methylation
methylation
198 Citations (Scopus)

Genome-wide discovery and characterization of maize long non-coding RNAs

Li, L., Eichten, S. R., Shimizu, R., Petsch, K., Yeh, C. T., Wu, W., Chettoor, A. M., Givan, S. A., Cole, R. A., Fowler, J. E., Evans, M. M. S., Scanlon, M. J., Yu, J., Schnable, P. S., Timmermans, M. C. P., Springer, N. M. & Muehlbauer, G. J., Feb 27 2014, In : Genome biology. 15, 2, R40.

Research output: Contribution to journalArticle

Long Noncoding RNA
Zea mays
RNA
genome
maize
69 Citations (Scopus)

Genomic distribution of H3K9me2 and DNA methylation in a maize genome

West, P. T., Li, Q., Ji, L., Eichten, S. R., Song, J., Vaughn, M. W., Schmitz, R. J. & Springer, N. M., Aug 14 2014, In : PloS one. 9, 8, e105267.

Research output: Contribution to journalArticle

DNA methylation
DNA Methylation
Zea mays
transposons
Genes
30 Citations (Scopus)

Inheritance patterns and stability of DNA methylation variation in maize near-isogenic lines

Li, Q., Eichten, S. R., Hermanson, P. J. & Springer, N. M., Mar 2014, In : Genetics. 196, 3, p. 667-676 10 p.

Research output: Contribution to journalArticle

Inheritance Patterns
DNA Methylation
Zea mays
Epigenomics
Genotype
21 Citations (Scopus)

Insights into the effects of long-term artificial selection on seed size in maize

Hirsch, C. N., Flint-Garcia, S. A., Beissinger, T. M., Eichten, S. R., Deshpande, S., Barry, K., McMullen, M. D., Holland, J. B., Buckler, E. S., Springer, N., Robin Buell, C., de Leon, N. & Kaeppler, S. M., Apr 11 2014, In : Genetics. 198, 1

Research output: Contribution to journalArticle

Zea mays
Seeds
Population
Genome
Single Nucleotide Polymorphism
5 Citations (Scopus)

Utilization of deletion bins to anchor and order sequences along the wheat 7B chromosome

Belova, T., Grønvold, L., Kumar, A., Kianian, S., He, X., Lillemo, M., Springer, N. M., Lien, S., Olsen, O. A. & Sandve, S. R., Sep 1 2014, In : Theoretical and Applied Genetics. 127, 9, p. 2029-2040 12 p.

Research output: Contribution to journalArticle

Triticum
Chromosomes
chromosomes
wheat
physical chromosome mapping
2013
61 Citations (Scopus)

Comprehensive analysis of imprinted genes in maize reveals allelic variation for imprinting and limited conservation with other species

Waters, A. J., Bilinski, P., Eichten, S. R., Vaughn, M. W., Ross-Ibarra, J., Gehring, M. & Springer, N. M., Nov 26 2013, In : Proceedings of the National Academy of Sciences of the United States of America. 110, 48, p. 19639-19644 6 p.

Research output: Contribution to journalArticle

Zea mays
Genes
Endosperm
Alleles
Mothers
60 Citations (Scopus)

Distribution, functional impact, and origin mechanisms of copy number variation in the barley genome

Muñoz-Amatriaín, M., Eichten, S. R., Wicker, T., Richmond, T. A., Mascher, M., Steuernagel, B., Scholz, U., Ariyadasa, R., Spannagl, M., Nussbaumer, T., Mayer, K. F. X., Taudien, S., Platzer, M., Jeddeloh, J. A., Springer, N. M., Muehlbauer, G. J. & Stein, N., Jun 12 2013, In : Genome biology. 14, 6, R58.

Research output: Contribution to journalArticle

Hordeum
barley
genome
Genome
comparative genomic hybridization
118 Citations (Scopus)

Epigenetic and Genetic Influences on DNA Methylation Variation in Maize Populations

Eichten, S. R., Briskine, R., Song, J., Li, Q., Swanson-Wagner, R., Hermanson, P. J., Waters, A. J., Starr, E., West, P. T., Tiffin, P., Myers, C. L., Vaughn, M. W. & Springer, N. M., Aug 1 2013, In : Plant Cell. 25, 8, p. 2783-2797 15 p.

Research output: Contribution to journalArticle

DNA methylation
DNA Methylation
Epigenomics
epigenetics
Zea mays
61 Citations (Scopus)

Epigenetics and crop improvement

Springer, N. M., Apr 1 2013, In : Trends in Genetics. 29, 4, p. 241-247 7 p.

Research output: Contribution to journalReview article

Epigenomics
Developmental Genes
Transgenes
Gene Expression
48 Citations (Scopus)

Genomic distribution of maize facultative heterochromatin marked by trimethylation of H3K27

Makarevitch, I., Eichten, S. R., Briskine, R., Waters, A. J., Danilevskaya, O. N., Meeley, R. B., Myers, C. L., Vaughn, M. W. & Springer, N. M., Mar 1 2013, In : Plant Cell. 25, 3, p. 780-793 14 p.

Research output: Contribution to journalArticle

Heterochromatin
heterochromatin
Zea mays
genomics
corn
96 Citations (Scopus)

Maize Gene Atlas Developed by RNA Sequencing and Comparative Evaluation of Transcriptomes Based on RNA Sequencing and Microarrays

Sekhon, R. S., Briskine, R., Hirsch, C. N., Myers, C. L., Springer, N. M., Buell, C. R., de Leon, N. & Kaeppler, S. M., Apr 23 2013, In : PloS one. 8, 4, e61005.

Research output: Contribution to journalArticle

RNA Sequence Analysis
Atlases
Microarrays
Transcriptome
transcriptome
55 Citations (Scopus)

Mendelian and Non-Mendelian Regulation of Gene Expression in Maize

Li, L., Petsch, K., Shimizu, R., Liu, S., Xu, W. W., Ying, K., Yu, J., Scanlon, M. J., Schnable, P. S., Timmermans, M. C. P., Springer, N. M. & Muehlbauer, G. J., Jan 1 2013, In : PLoS genetics. 9, 1, e1003202.

Research output: Contribution to journalArticle

gene expression regulation
Gene Expression Regulation
Zea mays
gene expression
maize
165 Citations (Scopus)

Progress toward understanding heterosis in crop plants

Schnable, P. S. & Springer, N. M., Apr 1 2013, In : Annual Review of Plant Biology. 64, p. 71-88 18 p.

Research output: Contribution to journalReview article

Hybrid Vigor
heterosis
crops
loci
Agriculture
16 Citations (Scopus)

Variation in DNA methylation patterns is more common among maize inbreds than among tissues

Eichten, S. R., Vaughn, M. W., Hermanson, P. J. & Springer, N. M., Sep 17 2013, In : Plant Genome. 6, 2

Research output: Contribution to journalArticle

DNA methylation
DNA Methylation
Zea mays
corn
Genotype
2012
53 Citations (Scopus)

Brd1 gene in maize encodes a brassinosteroid C-6 oxidase

Makarevitch, I., Thompson, A., Muehlbauer, G. J. & Springer, N. M., Jan 26 2012, In : PloS one. 7, 1, e30798.

Research output: Contribution to journalArticle

Brassinosteroids
brassinosteroids
Zea mays
Oxidoreductases
Genes
14 Citations (Scopus)

Changes in genome content generated via segregation of non-allelic homologs

Liu, S., Ying, K., Yeh, C. T., Yang, J., Swanson-Wagner, R., Wu, W., Richmond, T., Gerhardt, D. J., Lai, J., Springer, N., Nettleton, D., Jeddeloh, J. A. & Schnable, P. S., Nov 1 2012, In : Plant Journal. 72, 3, p. 390-399 10 p.

Research output: Contribution to journalArticle

Exome
Quantitative Trait Loci
Sequence Homology
inbred lines
Zea mays
396 Citations (Scopus)

Comparative population genomics of maize domestication and improvement

Hufford, M. B., Xu, X., Van Heerwaarden, J., Pyhäjärvi, T., Chia, J. M., Cartwright, R. A., Elshire, R. J., Glaubitz, J. C., Guill, K. E., Kaeppler, S. M., Lai, J., Morrell, P. L., Shannon, L. M., Song, C., Springer, N. M., Swanson-Wagner, R. A., Tiffin, P. L., Wang, J., Zhang, G., Doebley, J. & 5 others, McMullen, M. D., Ware, D., Buckler, E. S., Yang, S. & Ross-Ibarra, J., Jul 1 2012, In : Nature Genetics. 44, 7, p. 808-811 4 p.

Research output: Contribution to journalArticle

Metagenomics
Zea mays
Genes
Gene Expression Profiling
Breeding
77 Citations (Scopus)

Reshaping of the maize transcriptome by domestication

Swanson-Wagner, R., Briskine, R., Schaefer, R., Hufford, M. B., Ross-Ibarra, J., Myers, C. L., Tiffin, P. L. & Springer, N. M., Jul 17 2012, In : Proceedings of the National Academy of Sciences of the United States of America. 109, 29, p. 11878-11883 6 p.

Research output: Contribution to journalArticle

Transcriptome
Zea mays
Genes
Population Genetics
Domestication
91 Citations (Scopus)

Spreading of Heterochromatin Is Limited to Specific Families of Maize Retrotransposons

Eichten, S. R., Ellis, N. A., Makarevitch, I., Yeh, C. T., Gent, J. I., Guo, L., McGinnis, K. M., Zhang, X., Schnable, P. S., Vaughn, M. W., Dawe, R. K. & Springer, N. M., Dec 1 2012, In : PLoS genetics. 8, 12, e1003127.

Research output: Contribution to journalArticle

Retroelements
Heterochromatin
retrotransposons
heterochromatin
transposons
2011
47 Citations (Scopus)

B73-Mo17 near-isogenic lines demonstrate dispersed structural variation in maize

Eichten, S. R., Foerster, J. M., de Leon, N., Kai, Y., Yeh, C. T., Liu, S., Jeddeloh, J. A., Schnable, P. S., Kaeppler, S. M. & Springer, N. M., Aug 1 2011, In : Plant physiology. 156, 4, p. 1679-1690 12 p.

Research output: Contribution to journalArticle

isogenic lines
Zea mays
Quantitative Trait Loci
corn
Genome
308 Citations (Scopus)

Differentiation of the maize subgenomes by genome dominance and both ancient and ongoing gene loss

Schnable, J. C., Springer, N. M. & Freeling, M., Mar 8 2011, In : Proceedings of the National Academy of Sciences of the United States of America. 108, 10, p. 4069-4074 6 p.

Research output: Contribution to journalArticle

Tetraploidy
Zea mays
Genome
Duplicate Genes
Genes
105 Citations (Scopus)

Heritable epigenetic variation among maize inbreds

Eichten, S. R., Swanson-Wagner, R. A., Schnable, J. C., Waters, A. J., Hermanson, P. J., Liu, S., Yeh, C. T., Jia, Y., Gendler, K., Freeling, M., Schnable, P. S., Vaughn, M. W. & Springer, N. M., Nov 1 2011, In : PLoS genetics. 7, 11, e1002372.

Research output: Contribution to journalArticle

methylation
Epigenomics
epigenetics
Zea mays
maize
131 Citations (Scopus)

Parent-of-origin effects on gene expression and DNA methylation in the maize endosperm

Waters, A. J., Makarevitch, I., Eichten, S. R., Swanson-Wagner, R. A., Yeh, C. T., Xu, W., Schnable, P. S., Vaughn, M. W., Gehring, M. & Springer, N. M., Dec 1 2011, In : Plant Cell. 23, 12, p. 4221-4233 13 p.

Research output: Contribution to journalArticle

Endosperm
DNA methylation
DNA Methylation
endosperm
Zea mays
85 Citations (Scopus)

The composition and origins of genomic variation among individuals of the soybean reference cultivar williams 82

Haun, W. J., Hyten, D. L., Xu, W. W., Gerhardt, D. J., Albert, T. J., Richmond, T., Jeddeloh, J. A., Jia, G., Springer, N. M., Vance, C. P. & Stupar, R. M., Feb 1 2011, In : Plant physiology. 155, 2, p. 645-655 11 p.

Research output: Contribution to journalArticle

Soybeans
soybeans
genomics
nucleotides
cultivars
2010
315 Citations (Scopus)

Genome-wide patterns of genetic variation among elite maize inbred lines

Lai, J., Li, R., Xu, X., Jin, W., Xu, M., Zhao, H., Xiang, Z., Song, W., Ying, K., Zhang, M., Jiao, Y., Ni, P., Zhang, J., Li, D., Guo, X., Ye, K., Jian, M., Wang, B., Zheng, H., Liang, H. & 11 others, Zhang, X., Wang, S., Chen, S., Li, J., Fu, Y., Springer, N. M., Yang, H., Wang, J., Dai, J., Schnable, P. S. & Wang, J., Nov 1 2010, In : Nature Genetics. 42, 11, p. 1027-1030 4 p.

Research output: Contribution to journalArticle

Zea mays
Single Nucleotide Polymorphism
DNA Shuffling
Genome
Hybrid Vigor
9 Citations (Scopus)

High-resolution genotyping via whole genome hybridizations to microarrays containing long oligonucleotide probes

Fu, Y., Springer, N. M., Ying, K., Yeh, C. T., Iniguez, A. L., Richmond, T., Wu, W., Barbazuk, B., Nettleton, D., Jeddeloh, J. & Schnable, P. S., Dec 15 2010, In : PloS one. 5, 12, e14178.

Research output: Contribution to journalArticle

oligonucleotide probes
Oligonucleotide Probes
Microarrays
genotyping
hybridization
51 Citations (Scopus)

High-throughput genetic mapping of mutants via quantitative single nucleotide polymorphism typing

Liu, S., Chen, H. D., Makarevitch, I., Shirmer, R., Emrich, S. J., Dietrich, C. R., Barbazuk, W. B., Springer, N. M. & Schnable, P. S., Jan 1 2010, In : Genetics. 184, 1, p. 19-26 8 p.

Research output: Contribution to journalArticle

Single Nucleotide Polymorphism
Genetic Markers
Zea mays
Technology
Population
21 Citations (Scopus)
Plant DNA
Polymerase Chain Reaction
cetrimonium
177 Citations (Scopus)

Pervasive gene content variation and copy number variation in maize and its undomesticated progenitor

Swanson-Wagner, R. A., Eichten, S. R., Kumari, S., Tiffin, P., Stein, J. C., Ware, D. & Springer, N. M., Dec 1 2010, In : Genome research. 20, 12, p. 1689-1699 11 p.

Research output: Contribution to journalArticle

Zea mays
Genotype
Genome
Genes
Gene Dosage
48 Citations (Scopus)

Ragged seedling2 encodes an ARGONAUTE7-like protein required for mediolateral expansion, but not dorsiventrality, of maize leaves

Douglas, R. N., Wiley, D., Sarkar, A., Springer, N., Timmermans, M. C. P. & Scanlon, M. J., May 1 2010, In : Plant Cell. 22, 5, p. 1441-1451 11 p.

Research output: Contribution to journalArticle

Zea mays
Indoleacetic Acids
corn
auxins
leaves
3 Citations (Scopus)

Realizing the potential of genomics for crop improvement

Springer, N. M. & Jackson, S. A., Mar 20 2010, In : Briefings in Functional Genomics and Proteomics. 9, 2, p. 93-94 2 p., elq006.

Research output: Contribution to journalEditorial

Agricultural Crops
Plant Genome
Plant Genes
Gene Knockout Techniques
Cytogenetic Analysis
59 Citations (Scopus)

Repeat subtraction-mediated sequence capture from a complex genome

Fu, Y., Springer, N. M., Gerhardt, D. J., Ying, K., Yeh, C. T., Wu, W., Swanson-Wagner, R., D'Ascenzo, M., Millard, T., Freeberg, L., Aoyama, N., Kitzman, J., Burgess, D., Richmond, T., Albert, T. J., Barbazuk, W. B., Jeddeloh, J. A. & Schnable, P. S., Jun 1 2010, In : Plant Journal. 62, 5, p. 898-909 12 p.

Research output: Contribution to journalArticle

Single Nucleotide Polymorphism
Genome
Technology
application coverage
genome
13 Citations (Scopus)

Shaping a better rice plant

Springer, N. M., Jun 1 2010, In : Nature Genetics. 42, 6, p. 475-476 2 p.

Research output: Contribution to journalShort survey

Genes
Oryza
2009
32 Citations (Scopus)

A recommendation for naming transcription factor proteins in the grasses

Gray, J., Bevan, M., Brutnell, T., Buell, C. R., Cone, K., Hake, S., Jackson, D., Kellogg, E., Lawrence, C., McCouch, S., Mockler, T., Moose, S., Paterson, A., Peterson, T., Rokshar, D., Souza, G. M., Springer, N., Stein, N., Timmermans, M., Wang, G. L. & 1 others, Grotewold, E., Jan 1 2009, In : Plant physiology. 149, 1, p. 4-6 3 p.

Research output: Contribution to journalLetter

Plant Proteins
plant proteins
Poaceae
Transcription Factors
transcription factors
2 Citations (Scopus)

Characterization of a novel maize retrotransposon family sprite that shows high levels of variability among maize inbred lines

Springer, N. M., Eichten, S., Smith, A., Papa, C. M., Steinway, S. & Kaeppler, S. M., Dec 1 2009, In : Maydica. 54, 4, p. 417-428 12 p.

Research output: Contribution to journalArticle

Retroelements
decitabine
retrotransposons
inbred lines
Zea mays
8 Citations (Scopus)

Developmental origins of cancer

Johnson, K. J., Springer, N. M., Bielinsky, A. K., Largaespada, D. A. & Ross, J. A., Aug 15 2009, In : Cancer Research. 69, 16, p. 6375-6377 3 p.

Research output: Contribution to journalArticle

Developmental Gene Expression Regulation
Genetic Epigenesis
Developmental Genes
Animal Disease Models
Neoplasms
11 Citations (Scopus)

Disruption of imprinting by Mutator transposon insertions in the 5′ proximal regions of the Zea mays Mez1 locus

Haun, W. J., Danilevskaya, O. N., Meeley, R. B. & Springer, N. M., Apr 1 2009, In : Genetics. 181, 4, p. 1229-1237 9 p.

Research output: Contribution to journalArticle

Zea mays
Alleles
Endosperm
Mothers
Epigenomics
2 Citations (Scopus)

Epigenetic phenomena and epigenomics in maize

Hollick, J. B. & Springer, N., Jan 1 2009, Epigenomics. Springer Netherlands, p. 119-147 29 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Epigenomics
Zea mays
Genome
Research
DNA Transposable Elements
98 Citations (Scopus)

Heterosis Is Prevalent for Multiple Traits in Diverse Maize Germplasm

Flint-Garcia, S. A., Buckler, E. S., Tiffin, P., Ersoz, E. & Springer, N. M., Dec 1 2009, In : PloS one. 4, 10, e0007433.

Research output: Contribution to journalArticle

Hybrid Vigor
heterosis
Zea mays
germplasm
corn
6 Citations (Scopus)

Imprinting in maize

Springer, N. M. & Gutierrez-Marcos, J. F., Jan 1 2009, Handbook of Maize: Genetics and Genomics. Springer New York, p. 429-440 12 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

genomic imprinting
Polymorphism
Zea mays
Chromatin
Genes