Click for a full list of publications

Selected papers and preprints from the lab:

Preprint: NIPBL and WAPL balance cohesin activity to regulate chromatin folding and gene expression.
Luppino JM, Field A, Nguyen SC, Park DS, Shah PP, Lan Y, Yunker R, Jain R, Adelman K, Joyce EF. biorxiv. 2022

Preprint: High-throughput Oligopaint screen identifies druggable regulators of genome folding.
Park DS, Nguyen SC, Isenhart R, Shah PP, Kim W, Barnett RJ, Chandra A, Luppino JM, Harke J, Wai M, Yang R, Lan Y, Yoon S, Yunker R, Vahedi G, Phillips-Cremins JE, Jain R, Joyce EF. biorxiv. 2022

BRD4 orchestrates genome folding to promote neural crest differentiation.
Linares-Saldana R, Kim W, Bolar NA, Zhang H, Koch-Bojalad BA, Yoon S, Shah PP, Karnay A, Park DS, Luppino JM, Nguyen SC, Padmanabhan A, Smith CL, Poleshko A, Wang Q, Li L, Srivastava D, Vahedi G, Eom GH, Blobel GA, Joyce EF, Jain R. Nature Genetics. 2021 Oct 5. PMID: 34611363.

p53 mediates target gene association with nuclear speckles for amplified RNA expression.
Alexander KA, Coté A, Nguyen SC, Zhang L, Gholamalamdari O, Agudelo-Garcia P, Lin-Shiao E, Tanim KMA, Lim J, Biddle N, Dunagin MC, Good CR, Mendoza MR, Little SC, Belmont A, Joyce EF, Raj A, Berger SL. Molecular Cell. 2021 Apr 15. PMID: 33823140.

Large-Scale Topological Changes Restrain Malignant Progression in Colorectal Cancer.
Johnstone SE, Reyes A, Qi Y, Adriaens C, Hegazi E, Pelka K, Chen JH, Zou LS, Drier Y, Hecht V, Shoresh N, Selig MK, Lareau CA, Iyer S, Nguyen SC, Joyce EF, Hacohen N, Irizarry RA, Zhang B, Aryee MJ, Bernstein BE. Cell. 2020 Aug 18. PMID: 32841603.

Cohesin promotes stochastic domain intermingling to ensure proper regulation of boundary-proximal genes.
Luppino JM, Park DS, Nguyen SC, Lan Y, Xu Z, Yunker R, Joyce EF. Nature Genetics. 2020. Jun 22. PMID: 32572210.
Associated News & Views: TADs without borders. Farabella I, Marti-Renom MA. Nat Genet. 2020 Aug. PMID: 32747821

Single cell analysis pushes the boundaries of TAD formation and function.
Luppino JM and Joyce EF. Curr Opin Genet Dev.. 2020. Apr 14. PMID: 32302920.

Core components of the nuclear pore bind distinct states of chromatin and contribute to polycomb repression.
Gozalo A, Duke A, Lan Y, Pascual-Garcia P, Talamas JA, Nguyen SC, Shah PP, Jain R, Joyce EF, Capelson M. Mol Cell. 2019. Nov 20. PMID: 31784359.

Chromosome territory formation attenuates the translocation potential of cells.
Rosin LF, Crocker O, Isenhart RL, Nguyen SC, Xu Z, Joyce EF. Elife. 2019. Nov. PMID: 31682226.

H3K9me2 orchestrates inheritance of spatial positioning of peripheral heterochromatin through mitosis.
Poleshko A, Smith CL, Nguyen SC, Sivaramakrishnan P, Wong KG, Murray JI, Lakadamyali M, Joyce EF, Jain R, Epstein JA. Elife. 2019. Oct. PMID: 31573510.

Programmable Chromosome Painting with Oligopaints.
Nguyen SC and Joyce EF. Methods in Molecular Biology. 2019. Aug. PMID: 31407284

ARID1A spatially partitions interphase chromosomes.
Wu S, Fatkhutdinov N, Rosin L, Luppino JM, Iwasaki O, Tanizawa H, Tang HY, Kossenkov AV, Gardini A, Noma KI, Speicher DW, Joyce EF, Zhang R. Science Advances. 2019. May. PMID: 31131328.

Recurrent losses and rapid evolution of the condensin II complex in insects.
King TD, Leonard CJ, Cooper JC, Nguyen SC, Joyce EF, Phadnis N. Molecular Biology and Evolution. 2019. July. PMID: 31270536

Condensin II drives large-scale folding and spatial partitioning of interphase chromosomes in Drosophila nuclei.
Rosin LF, Nguyen SC, Joyce EF. PLoS Genetics. 2018. July. PMID: 30001329.

Toward High-Throughput and Multiplexed Imaging of Genome Organization.
Joyce EF. Assay and Drug Development Technologies. 2017 Jan. PMID: 28092459.

Selected earlier papers:

Investigating the Interplay between Sister Chromatid Cohesion and Homolog Pairing in Drosophila Nuclei.
Senaratne TN, Joyce EF, Nguyen SC, Wu CT. PLoS Genetics. 2016 Aug 19. PMID: 27541002.

Dynamic and Stable Cohesins Regulate Synaptonemal Complex Assembly and Chromosome Segregation.
Gyuricza MR, Manheimer KB, Apte V, Krishnan B, Joyce EF, McKee BD, McKim KS. Current Biology. 2016 Jul 11. PubMed PMID: 27291057.

Pairing and anti-pairing: a balancing act in the diploid genome.
Joyce EF, Erceg J, Wu CT. Curr Opin Genet Dev. 2016 Apr PMID: 27065367.

Single-molecule super-resolution imaging of chromosomes and in situ haplotype visualization using Oligopaint FISH probes.
Beliveau BJ, Boettiger AN, Avendaño MS, Jungmann R, McCole RB, Joyce EF, Kim-Kiselak C, Bantignies F, Fonseka CY, Erceg J, Hannan MA, Hoang HG, Colognori D, Lee JT, Shih WM, Yin P, Zhuang X, Wu CT. Nature Communications. 2015 May 12 PMID: 25962338.

Germline progenitors escape the widespread phenomenon of homolog pairing during Drosophila development.
Joyce EF, Apostolopoulos N, Beliveau BJ, Wu CT. PLoS Genetics. 2013 PMID: 24385920.

Versatile design and synthesis platform for visualizing genomes with Oligopaint FISH probes.
*Beliveau BJ, *Joyce EF, Apostolopoulos N, Yilmaz F, Fonseka CY, McCole RB, Chang Y, Li JB, Senaratne TN, Williams BR, Rouillard JM, Wu CT. PNAS. 2012 Dec 26. PMID: 23236188. *co-first authors

Identification of genes that promote or antagonize somatic homolog pairing using a high-throughput FISH-based screen.
Joyce EF, Williams BR, Xie T, Wu CT. PLoS Genetics. 2012 PMID: 22589731.

Multiple barriers to nonhomologous DNA end joining during meiosis in Drosophila.
Joyce EF, Paul A, Chen KE, Tanneti N, McKim KS. Genetics. 2012 Jul PMID: 22542963.

A pathway for synapsis initiation during zygotene in Drosophila oocytes.
Tanneti NS, Landy K, Joyce EF, McKim KS. Current Biology. 2011 Nov 8. PMID: 22036181.

Drosophila ATM and ATR have distinct activities in the regulation of meiotic DNA damage and repair.
Joyce EF, Pedersen M, Tiong S, White-Brown SK, Paul A, Campbell SD, McKim KS. Journal of Cell Biology. 2011 Oct 31. PMID: 22024169.

Meiotic checkpoints and the interchromosomal effect on crossing over in Drosophila females.
Joyce EF, McKim KS. Fly. 2011 Apr PMID: 21339705.

Drosophila I-R hybrid dysgenesis is associated with catastrophic meiosis and abnormal zygote formation.
Orsi GA, Joyce EF, Couble P, McKim KS, Loppin B. Journal of Cell Science. 2010 Oct 15. PMID: 20841382.

Chromosome axis defects induce a checkpoint-mediated delay and interchromosomal effect on crossing over during Drosophila meiosis.
Joyce EF, McKim KS. PLoS Genetics. 2010 Aug 12. PMID: 20711363.

Cytological analysis of meiosis in fixed Drosophila ovaries.
McKim KS, Joyce EF, Jang JK. Methods Mol Biol. 2009 PMID: 19685326.

Drosophila hold’em is required for a subset of meiotic crossovers and interacts with the dna repair endonuclease complex subunits MEI-9 and ERCC1.
Joyce EF, Tanneti SN, McKim KS. Genetics. 2009 Jan PMID: 18957705.

Drosophila PCH2 is required for a pachytene checkpoint that monitors double-strand-break-independent events leading to meiotic crossover formation. 
Joyce EF, McKim KS. Genetics. 2009 Jan PMID: 18957704.

When specialized sites are important for synapsis and the distribution of crossovers.
Joyce EF, McKim KS. Bioessays. 2007 Mar PMID: 17295219.