Julin N. Maloof

Julin Maloof

Position Title

Department of Plant Biology, College of Biological Sciences
Genome Center

2131 Life Sciences

Research Interests

How plants sense and respond to their neighbors

Light is essential for plant growth. Perhaps as a consequence, plants have an intricate set of photoreceptors and responses that they use to optimize their development and physiology to suit their light environment. We study the downstream mechanisms underlying these responses and how plants have evolved differences in their light perception and responses that allow them to thrive in different environments. We are interested in both the genetic and molecular basis of variation in light response as well as the adaptive consequences. A combination of molecular and quantitative genetics and genomics is used in Arabidopsis, Tomato, and Brassica

Grad Group Affiliations

  • Integrative Genetics and Genomics
  • Plant Biology

Specialties / Focus

  • Cell and Developmental Biology
  • Environmental and Integrative Biology
  • Integrated Genetics and Genomics
  • Model Plants
  • Molecular Biology, Biochemistry and Genomics
  • Plant Breeding
  • Quantitative and Population Genetics


  • BIS 181 Comparative Genomics, Fall Quarter
  • BIS 180L Genome Biology Lab, Spring Quarter


  • Maloof Lab http://malooflab.openwetware.org/

Honors and Awards

  • 2019 CBS Faculty Teaching Award
  • 2013 AAAS Fellow

    Professional Societies

    • Genetics Society of America
    • American Society of Plant Biologists
    • American Association for the Advancement of Science


    • 1989 BA Biology Haverford College
    • 1998 PhD Biochemistry University of California, San Francisco


    Nohales MA, Liu W, Duffy T, Nozue K, Sawa M, Pruneda-Paz JL, Maloof JN, Jacobsen SE, Kay SA. Multi-level Modulation of Light Signaling by GIGANTEA Regulates Both the Output and Pace of the Circadian Clock. Dev. Cell. 2019 Jun 17;49(6):840-851.e8.

    Baker RL, Leong WF, Brock MT, Rubin MJ, Markelz RJC, Welch S, Maloof JN, Weinig C. Integrating transcriptomic network reconstruction and eQTL analyses reveals mechanistic connections between genomic architecture and Brassica rapa development. PLOS Genetics. 2019 Sep 12;15(9):e1008367.

    Amini H, Naghavi MR, Shen T, Wang Y, Nasiri J, Khan IA, Fiehn O, Zerbe P, Maloof JN. Tissue-Specific Transcriptome Analysis Reveals Candidate Genes for Terpenoid and Phenylpropanoid Metabolism in the Medicinal Plant Ferula assafoetida. G3: Genes, Genomes, Genetics. 2019 Mar 1;9(3):807–16. 

    Schrager‐Lavelle A, Gath NN, Devisetty UK, Carrera E, López‐Díaz I, Blázquez MA, Maloof JN. The role of a class III gibberellin 2-oxidase in tomato internode elongation. The Plant Journal [Internet]. 2018 [cited 2019 Jan 17];0(0). Retrieved from: https://onlinelibrary.wiley.com/doi/abs/10.1111/tpj.14145

    Nozue K, Devisetty UK, Lekkala S, Mueller-Moulé P, Bak A, Casteel CL, Maloof JN. Network Analysis Reveals a Role for Salicylic Acid Pathway Components in Shade Avoidance. Plant Physiology. 2018 Dec 1;178(4):1720–32. 

    Li R, Jeong K, Davis JT, Kim S, Lee S, Michelmore RW, Kim S, Maloof JN. Integrated QTL and eQTL Mapping Provides Insights and Candidate Genes for Fatty Acid Composition, Flowering Time, and Growth Traits in a F2 Population of a Novel Synthetic Allopolyploid Brassica napus. Front. Plant Sci. [Internet]. 2018 [cited 2019 Jan 17];9. Retrieved from: https://www.frontiersin.org/articles/10.3389/fpls.2018.01632/full

    Wang Z, Yang R, Devisetty UK, Maloof JN, Zuo Y, Li J, Shen Y, Zhao J, Bao M, Ning G. The Divergence of Flowering Time Modulated by FT/TFL1 Is Independent to Their Interaction and Binding Activities. Front. Plant Sci. [Internet]. 2017 [cited 2017 Jun 19];8. Retrieved from: http://journal.frontiersin.org/article/10.3389/fpls.2017.00697/full

    Rubin Matthew J., Brock Marcus T., Davis Amanda M., German Zachary M., Knapp Mary, Welch Stephen M., Harmer Stacey L., Maloof Julin N., Davis Seth J., Weinig Cynthia. Circadian rhythms vary over the growing season and correlate with fitness components. Molecular Ecology. 2017 Aug 9;26(20):5528–40. 

    Markelz RJC, Covington MF, Brock MT, Devisetty UK, Kliebenstein DJ, Weinig C, Maloof JN. Using RNA-Seq for Genomic Scaffold Placement, Correcting Assemblies, and Genetic Map Creation in a Common Brassica rapa Mapping Population. G3: Genes, Genomes, Genetics. 2017 Jul 1;7(7):2259–70. 

    Filiault D, Seymour D, Maruthachalam R, Maloof J. The Generation of Doubled Haploid Lines for QTL Mapping. In: Busch W, editor. Plant Genomics [Internet]. Springer New York; 2017. p. 39–57. Retrieved from: http://dx.doi.org/10.1007/978-1-4939-7003-2_4

    Bucksch A, Atta-Boateng A, Azihou AF, Battogtokh D, Baumgartner A, Binder BM, Braybrook SA, Chang C, Coneva V, DeWitt TJ, Fletcher AG, Gehan MA, Diaz-Martinez DH, Hong L, Iyer-Pascuzzi AS, Klein LL, Leiboff S, Li M, Lynch JP, Maizel A, Maloof JN, Markelz RJC, Martinez CC, Miller LA, Mio W, Palubicki W, Poorter H, Pradal C, Price CA, Puttonen E, Reese JB, Rellán-Álvarez R, Spalding EP, Sparks EE, Topp CN, Williams JH, Chitwood DH. Morphological Plant Modeling: Unleashing Geometric and Topological Potential within the Plant Sciences. Front. Plant Sci. [Internet]. 2017 [cited 2018 Jan 29];8. Retrieved from: https://www.frontiersin.org/articles/10.3389/fpls.2017.00900/full

    Schrager-Lavelle A, Herrera LA, Maloof JN. Tomato phyE Is Required for Shade Avoidance in the Absence of phyB1 and phyB2. Frontiers in Plant Science. 2016;7:1275. 

    Ranjan A, Budke JM, Rowland SD, Chitwood DH, Kumar R, Carriedo L, Ichihashi Y, Zumstein K, Maloof JN, Sinha NR. eQTL Regulating Transcript Levels Associated with Diverse Biological Processes in Tomato. Plant Physiol. 2016 Sep 1;172(1):328–40. 

    Nguyen TT, Slaughter DC, Maloof JN, Sinha N. Plant phenotyping using multi-view stereo vision with structured lights. 2016 [cited 2016 May 27]. p. 986608-986608–9. Retrieved from: http://dx.doi.org/10.1117/12.2229513

    Müller-Moulé P, Nozue K, Pytlak ML, Palmer CM, Covington MF, Wallace AD, Harmer SL, Maloof JN. YUCCA auxin biosynthetic genes are required for Arabidopsis shade avoidance. PeerJ. 2016 Oct 13;4:e2574. 

    Müller NA, Wijnen CL, Srinivasan A, Ryngajllo M, Ofner I, Lin T, Ranjan A, West D, Maloof JN, Sinha NR, Huang S, Zamir D, Jiménez-Gómez JM. Domestication selected for deceleration of the circadian clock in cultivated tomato. Nat. Genet. 2016 Jan;48(1):89–93. 

    Kohnen MV, Schmid-Siegert E, Trevisan M, Petrolati LA, Sénéchal F, Müller-Moulé P, Maloof J, Xenarios I, Fankhauser C. Neighbor Detection Induces Organ-Specific Transcriptomes, Revealing Patterns Underlying Hypocotyl-Specific Growth. Plant Cell. 2016 Dec 1;28(12):2889–904. 

    Fulop D, Ranjan A, Ofner I, Covington MF, Chitwood DH, West D, Ichihashi Y, Headland L, Zamir D, Maloof JN, Sinha NR. A New Advanced Backcross Tomato Population Enables High Resolution Leaf QTL Mapping and Gene Identification. G3. 2016 Oct 1;6(10):3169–84. 

    Carriedo LG, Maloof JN, Brady SM. Molecular control of crop shade avoidance. Curr. Opin. Plant Biol. 2016 Mar 23;30:151–8. 

    Brock MT, Lucas LK, Anderson NA, Rubin MJ, Cody Markelz RJ, Covington MF, Devisetty UK, Chapple C, Maloof JN, Weinig C. Genetic architecture, biochemical underpinnings and ecological impact of floral UV patterning. Mol. Ecol. 2016 Mar;25(5):1122–40. 

    Rellán-Álvarez R, Lobet G, Lindner H, Pradier P-L, Sebastian J, Yee M-C, Geng Y, Trontin C, LaRue T, Schrager-Lavelle A, Haney CH, Nieu R, Maloof J, Vogel JP, Dinneny JR. GLO-Roots: an imaging platform enabling multidimensional characterization of soil-grown root systems. eLife. 2015 Aug 19;4:e07597. 

    Nozue K, Tat AV, Kumar Devisetty U, Robinson M, Mumbach MR, Ichihashi Y, Lekkala S, Maloof JN. Shade Avoidance Components and Pathways in Adult Plants Revealed by Phenotypic Profiling. PLoS Genet. 2015 Apr 15;11(4):e1004953. 

    Nguyen TT, Slaughter DC, Max N, Maloof JN, Sinha N. Structured Light-Based 3D Reconstruction System for Plants. Sensors. 2015 Jul 29;15(8):18587–612. 

    Chitwood DH, Kumar R, Ranjan A, Pelletier JM, Townsley BT, Ichihashi Y, Martinez CC, Zumstein K, Harada JJ, Maloof JN, Sinha NR. Light-Induced Indeterminacy Alters Shade-Avoiding Tomato Leaf Morphology. Plant Physiol. 2015 Nov 1;169(3):2030–47. 

    Bush SM, Carriedo L, Daniel F, Ichihashi Y, Covington MF, Kumar R, Ranjan A, Chitwood DH, Headland L, Filiault DL, Jimenez-Gomez JM, Sinha NR, Maloof JN. Auxin signaling is a common factor underlying natural variation in tomato shade avoidance. bioRxiv. 2015 Nov 23;031088. 

    Brady SM, Burow M, Busch W, Carlborg Ö, Denby KJ, Glazebrook J, Hamilton ES, Harmer SL, Haswell ES, Maloof JN, Springer NM, Kliebenstein DJ. Reassess the t Test: Interact with All Your Data via ANOVA. Plant Cell. 2015 Jul 28;tpc.15.00238. 

    Baker RL, Leong WF, Brock MT, Markelz RJC, Covington MF, Devisetty UK, Edwards CE, Maloof J, Welch S, Weinig C. Modeling development and quantitative trait mapping reveal independent genetic modules for leaf size and shape. New Phytologist. 2015 Oct;208(1):257–68. 

    Ichihashi Y, Aguilar-Martínez JA, Farhi M, Chitwood DH, Kumar R, Millon LV, Peng J, Maloof JN, Sinha NR. Evolutionary developmental transcriptomics reveals a gene network module regulating interspecific diversity in plant leaf shape. Proceedings of the National Academy of Sciences. 2014 Jun;111(25):E2616–21. 

    Fitz Gerald JN, Carlson AL, Smith E, Maloof JN, Weigel D, Chory J, Borevitz JO, Swanson RJ. New Arabidopsis advanced intercross recombinant inbred lines reveal female control of nonrandom mating. PLANT PHYSIOLOGY. 2014 May;165(1):175–185. 

    Devisetty UK, Covington MF, Tat AV, Lekkala S, Maloof JN. Polymorphism Identification and Improved Genome Annotation of Brassica rapa Through Deep RNA Sequencing. G3. 2014 Nov 1;4(11):2065–78. 

    Chitwood DH, Ranjan A, Kumar R, Ichihashi Y, Zumstein K, Headland LR, Ostria-Gallardo E, Aguilar-Martínez JA, Bush S, Carriedo L, Fulop D, Martinez CC, Peng J, Maloof JN, Sinha NR. Resolving Distinct Genetic Regulators of Tomato Leaf Shape within a Heteroblastic and Ontogenetic Context. Plant Cell. 2014 Sep 1;26(9):3616–29. 

    Chitwood DH, Ranjan A, Martinez CC, Headland LR, Thiem T, Kumar R, Covington MF, Hatcher T, Naylor DT, Zimmerman S, Downs N, Raymundo N, Buckler ES, Maloof JN, Aradhya M, Prins B, Li L, Myles S, Sinha NR. A modern ampelography: a genetic basis for leaf shape and venation patterning in grape. PLANT PHYSIOLOGY. 2014 Jan;164(1):259–272. 

    Bolger A, Scossa F, Bolger ME, Lanz C, Maumus F, Tohge T, Quesneville H, Alseekh S, Sørensen I, Lichtenstein G, Fich EA, Conte M, Keller H, Schneeberger K, Schwacke R, Ofner I, Vrebalov J, Xu Y, Osorio S, Aflitos SA, Schijlen E, Jiménez-Gómez JM, Ryngajllo M, Kimura S, Kumar R, Koenig D, Headland LR, Maloof JN, Sinha N, van Ham RCHJ, Lankhorst RK, Mao L, Vogel A, Arsova B, Panstruga R, Fei Z, Rose JKC, Zamir D, Carrari F, Giovannoni JJ, Weigel D, Usadel B, Fernie AR. The genome of the stress-tolerant wild tomato species Solanum pennellii. Nature Genetics. 2014 Sep;46(9):1034–1038. 

    Sharlach M, Dahlbeck D, Liu L, Chiu J, Jiménez-Gómez JM, Kimura S, Koenig D, Maloof JN, Sinha N, Minsavage GV, Jones JB, Stall RE, Staskawicz BJ. Fine genetic mapping of RXopJ4, a bacterial spot disease resistance locus from Solanum pennellii LA716. Theor Appl Genet. 2013 Mar 1;126(3):601–9. 

    Ron M, Dorrity MW, Lucas M de, Toal T, Hernandez RI, Little SA, Maloof JN, Kliebenstein DJ, Brady SM. Identification of Novel Loci Regulating Interspecific Variation in Root Morphology and Cellular Development in Tomato. Plant Physiol. 2013 Jun 1;162(2):755–68. 

    Maloof JN, Nozue K, Mumbach MR, Palmer CM. LeafJ: An ImageJ Plugin for Semi-automated Leaf Shape Measurement. Journal of Visualized Experiments [Internet]. 2013;(71). Retrieved from: http://www.jove.com/video/50028/leafj-an-imagej-plugin-for-semi-automated-leaf-shape-measurement

    Koenig D, Jiménez-Gómez JM, Kimura S, Fulop D, Chitwood DH, Headland LR, Kumar R, Covington MF, Devisetty UK, Tat AV, Tohge T, Bolger A, Schneeberger K, Ossowski S, Lanz C, Xiong G, Taylor-Teeples M, Brady SM, Pauly M, Weigel D, Usadel B, Fernie AR, Peng J, Sinha NR, Maloof JN. Comparative transcriptomics reveals patterns of selection in domesticated and wild tomato. PNAS. 2013 Jul 9;110(28):E2655–62. 

    Chitwood DH, Maloof JN, Sinha NR. Dynamic Transcriptomic Profiles between Tomato and a Wild Relative Reflect Distinct Developmental Architectures. Plant Physiol. 2013 Jun 1;162(2):537–52. 

    Chitwood DH, Kumar R, Headland LR, Ranjan A, Covington MF, Ichihashi Y, Fulop D, Jiménez-Gómez JM, Peng J, Maloof JN, Sinha NR. A Quantitative Genetic Basis for Leaf Morphology in a Set of Precisely Defined Tomato Introgression Lines. Plant Cell. 2013 Jul 1;25(7):2465–81. 

    Seymour DK, Filiault DL, Henry IM, Monson-Miller J, Ravi M, Pang A, Comai L, Chan SWL, Maloof JN. Rapid creation of Arabidopsis doubled haploid lines for quantitative trait locus mapping. Proceedings of the National Academy of Sciences of the United States of America. 2012 Mar;109(11):4227–4232. 

    Palmer CM, Bush SM, Maloof JN. Phenotypic and Developmental Plasticity in Plants. eLS [Internet]. John Wiley & Sons. Ltd: Chichester; 2012. p. 1–9. Retrieved from: http://onlinelibrary.wiley.com/store/10.1002/9780470015902.a0002092.pub2/asset/a0002092.pdf?v=1&t=h98v932v&s=207c34561dbf8ad8be1d4db3bec3e429e7148429

    Kumar R, Ichihashi Y, Kimura S, Chitwood DH, Headland LR, Peng J, Maloof JN, Sinha NR. A High-Throughput Method for Illumina RNA-Seq Library Preparation. Frontiers in plant science. 2012;3:202. 

    Filiault DL, Maloof JN. A Genome-Wide Association Study Identifies Variants Underlying the Arabidopsis thaliana Shade Avoidance Response. PLoS Genetics. 2012 Mar;8(3):e1002589. 

    Chitwood DH, Headland LR, Kumar R, Peng J, Maloof JN, Sinha NR. The Developmental Trajectory of Leaflet Morphology in Wild Tomato Species. Plant Physiol. 2012 Mar 1;158(3):1230–40. 

    Chitwood DH, Headland LR, Filiault DL, Kumar R, Jiménez-Gómez JM, Schrager AV, Park DS, Peng J, Sinha NR, Maloof JN. Native Environment Modulates Leaf Size and Response to Simulated Foliar Shade across Wild Tomato Species. PloS one. 2012;7(1):e29570. 

    Stewart JL, Maloof JN, Nemhauser JL. PIF genes mediate the effect of sucrose on seedling growth dynamics. PloS one. 2011;6(5):e19894. 

    Nozue K, Harmer SL, Maloof JN. Genomic analysis of circadian clock-, light-, and growth-correlated genes reveals PHYTOCHROME-INTERACTING FACTOR5 as a modulator of auxin signaling in Arabidopsis. PLANT PHYSIOLOGY. 2011 May;156(1):357–372. 

    Kim K, Shin J, Lee S-H, Kweon H-S, Maloof JN, Choi G. Phytochromes inhibit hypocotyl negative gravitropism by regulating the development of endodermal amyloplasts through phytochrome-interacting factors. Proceedings of the National Academy of Sciences of the United States of America. 2011 Jan;108(4):1729–1734. 

    Kerwin RE, Jiménez-Gómez JM, Fulop D, Harmer SL, Maloof JN, Kliebenstein DJ. Network quantitative trait loci mapping of circadian clock outputs identifies metabolic pathway-to-clock linkages in Arabidopsis. THE PLANT CELL. 2011 Feb;23(2):471–485. 

    Jiménez-Gómez JM, Corwin JA, Joseph B, Maloof JN, Kliebenstein DJ. Genomic analysis of QTLs and genes altering natural variation in stochastic noise. PLoS Genetics. 2011 Sep;7(9):e1002295. 

    Holtan HE, Bandong S, Marion CM, Adam L, Tiwari S, Shen Y, Maloof JN, Maszle DR, Ohto M-A, Preuss S, Meister R, Petracek M, Repetti PP, Reuber TL, Ratcliffe OJ, Khanna R. BBX32, an Arabidopsis B-Box protein, functions in light signaling by suppressing HY5-regulated gene expression and interacting with STH2/BBX21. PLANT PHYSIOLOGY. 2011 Aug;156(4):2109–2123. 

    Chang C-SJ, Maloof JN, Wu S-H. COP1-mediated degradation of BBX22/LZF1 optimizes seedling development in Arabidopsis. PLANT PHYSIOLOGY. 2011 May;156(1):228–239. 

    Arana MV, Marín-de la Rosa N, Maloof JN, Blázquez MA, Alabadí D. Circadian oscillation of gibberellin signaling in Arabidopsis. Proceedings of the National Academy of Sciences of the United States of America. 2011 May;108(22):9292–9297. 

    Maloof JN. Recent advances in regulation of flowering. F1000 biology reports [Internet]. 2010;2. Retrieved from: http://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pubmed&id=20948781&retmode=ref&cmd=prlinks

    Jiménez-Gómez JM, Wallace AD, Maloof JN. Network analysis identifies ELF3 as a QTL for the shade avoidance response in Arabidopsis. PLoS Genetics. 2010 Sep;6(9):e1001100. 

    Brock MT, Maloof JN, Weinig C. Genes underlying quantitative variation in ecologically important traits: PIF4 (phytochrome interacting factor 4) is associated with variation in internode length, flowering time, and fruit set in Arabidopsis thaliana. Molecular ecology. 2010 Mar;19(6):1187–1199. 

    Brock MT, Dechaine JM, Iniguez-Luy FL, Maloof JN, Stinchcombe JR, Weinig C. Floral genetic architecture: an examination of QTL architecture underlying floral (co)variation across environments. Genetics. 2010 Dec;186(4):1451–1465. 

    Schwartz C, Balasubramanian S, Warthmann N, Michael TP, Lempe J, Sureshkumar S, Kobayashi Y, Maloof JN, Borevitz JO, Chory J, Weigel D. Cis-regulatory changes at FLOWERING LOCUS T mediate natural variation in flowering responses of Arabidopsis thaliana. Genetics. 2009 Oct;183(2):723–32, 1SI–7SI. 

    Jiménez-Gómez JM, Maloof JN. Sequence diversity in three tomato species: SNPs, markers, and molecular evolution. BMC plant biology. 2009;9:85. 

    Jiménez-Gómez JM, Maloof JN. Plant research accelerates along the (bio)informatics superhighway: symposium on plant sensing, response and adaptation to the environment. EMBO reports [Internet]. Department of Plant Biology, College of Biological Sciences, University of California, Davis, California 95616, USA.; 2009. p. 568–572. Retrieved from: http://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pubmed&id=19465891&retmode=ref&cmd=prlinks

    Balasubramanian S, Schwartz C, Singh A, Warthmann N, Kim MC, Maloof JN, Loudet O, Trainer GT, Dabi T, Borevitz JO, Chory J, Weigel D. QTL mapping in new Arabidopsis thaliana advanced intercross-recombinant inbred lines. PloS one. 2009;4(2):e4318. 

    Filiault DL, Wessinger CA, Dinneny JR, Lutes J, Borevitz JO, Weigel D, Chory J, Maloof JN. Amino acid polymorphisms in Arabidopsis phytochrome B cause differential responses to light. Proceedings of the National Academy of Sciences of the United States of America. 2008 Feb;105(8):3157–3162. 

    Covington MF, Maloof JN, Straume M, Kay SA, Harmer SL. Global transcriptome analysis reveals circadian regulation of key pathways in plant growth and development. Genome biology. 2008;9(8):R130. 

    Weinig C, Johnston JA, Willis CG, Maloof JN. Antagonistic multilevel selection on size and architecture in variable density settings. Evolution; international journal of organic evolution. 2007 Jan;61(1):58–67. 

    Nozue K, Covington MF, Duek PD, Lorrain S, Fankhauser C, Harmer SL, Maloof JN. Rhythmic growth explained by coincidence between internal and external cues. Nature. 2007 Jul;448(7151):358–361. 

    Nozue K, Maloof JN. Diurnal regulation of plant growth. Plant, cell & environment. 2006 Mar;29(3):396–408. 

    Maloof JN. Small but not forgotten. Heredity. 2006 Jan;96(1):1–2. 

    Balasubramanian S, Sureshkumar S, Agrawal M, Michael TP, Wessinger C, Maloof JN, Clark R, Warthmann N, Chory J, Weigel D. The PHYTOCHROME C photoreceptor gene mediates natural variation in flowering and growth responses of Arabidopsis thaliana. Nature Genetics. 2006 Jun;38(6):711–715. 

    Lu L, Lee Y-RJ, Pan R, Maloof JN, Liu B. An internal motor kinesin is associated with the Golgi apparatus and plays a role in trichome morphogenesis in Arabidopsis. Molecular biology of the cell. 2005 Feb;16(2):811–823. 

    Maloof JN. Plant development: slowing root growth naturally. 2004 May;14(10):R395–6. 

    Nemhauser JL, Maloof JN, Chory J. Building integrated models of plant growth and development. PLANT PHYSIOLOGY. 2003 Jun;132(2):436–439. 

    Maloof JN. QTL for plant growth and morphology. Current opinion in plant biology. 2003 Feb;6(1):85–90. 

    Maloof JN. Genomic approaches to analyzing natural variation in Arabidopsis thaliana. Current opinion in genetics & development. 2003 Dec;13(6):576–582. 

    Nordborg M, Borevitz JO, Bergelson J, Berry CC, Chory J, Hagenblad J, Kreitman M, Maloof JN, Noyes T, Oefner PJ, Stahl EA, Weigel D. The extent of linkage disequilibrium in Arabidopsis thaliana. Nature Genetics. 2002 Feb;30(2):190–193. 

    Friedrichsen DM, Nemhauser J, Muramitsu T, Maloof JN, Alonso J, Ecker JR, Furuya M, Chory J. Three redundant brassinosteroid early response genes encode putative bHLH transcription factors required for normal growth. Genetics. 2002 Nov;162(3):1445–1456. 

    Borevitz JO, Maloof JN, Lutes J, Dabi T, Redfern JL, Trainer GT, Werner JD, Asami T, Berry CC, Weigel D, Chory J. Quantitative trait loci controlling light and hormone response in two accessions of Arabidopsis thaliana. Genetics. 2002 Feb;160(2):683–696. 

    Maloof JN, Borevitz JO, Dabi T, Lutes J, Nehring RB, Redfern JL, Trainer GT, Wilson JM, Asami T, Berry CC, Weigel D, Chory J. Natural variation in light sensitivity of Arabidopsis. Nature Genetics. 2001 Dec;29(4):441–446. 

    Maloof JN, Borevitz JO, Weigel D, Chory J. Natural variation in phytochrome signaling. Seminars in cell & developmental biology. 2000 Dec;11(6):523–530. 

    Schlesinger A, Shelton CA, Maloof JN, Meneghini M, Bowerman B. Wnt pathway components orient a mitotic spindle in the early Caenorhabditis elegans embryo without requiring gene transcription in the responding cell. Genes & development. 1999 Aug;13(15):2028–2038. 

    Maloof JN, Whangbo J, Harris JM, Jongeward GD, Kenyon C. A Wnt signaling pathway controls hox gene expression and neuroblast migration in C. elegans. Development (Cambridge, England). 1999 Jan;126(1):37–49. 

    Hunter CP, Harris JM, Maloof JN, Kenyon C. Hox gene expression in a single Caenorhabditis elegans cell is regulated by a caudal homolog and intercellular signals that inhibit wnt signaling. Development (Cambridge, England). 1999 Feb;126(4):805–814. 

    Maloof JN, Kenyon C. The Hox gene lin-39 is required during C. elegans vulval induction to select the outcome of Ras signaling. Development (Cambridge, England). 1998 Jan;125(2):181–190. 

    Eisenmann DM, Maloof JN, Simske JS, Kenyon C, Kim SK. The beta-catenin homolog BAR-1 and LET-60 Ras coordinately regulate the Hox gene lin-39 during Caenorhabditis elegans vulval development. Development (Cambridge, England). 1998 Sep;125(18):3667–3680. 

    Kenyon CJ, Austin J, Costa M, Cowing DW, Harris JM, Honigberg L, Hunter CP, Maloof JN, Muller-Immerglück MM, Salser SJ, Waring DA, Wang BB, Wrischnik LA. The dance of the Hox genes: patterning the anteroposterior body axis of Caenorhabditis elegans. Cold Spring Harbor symposia on quantitative biology. 1997;62:293–305. 

    Chavez RA, Maloof J, Beeson D, Newsom-Davis J, Hall ZW. Subunit folding and alpha delta heterodimer formation in the assembly of the nicotinic acetylcholine receptor. Comparison of the mouse and human alpha subunits. The Journal of biological chemistry. 1992 Nov;267(32):23028–23034.