Publications

Original Research Papers
Evaluating Chromatographic Approaches for the Quantitative Analysis of a Human Proteome on Orbitrap-Based Mass Spectrometry Systems
Zhang Y, Wen Z, Washburn MP, Florens L. J Proteome Res. 2019;18:1857-1869.
Original Data
DYRK1A regulates the recruitment of 53BP1 to the sites of DNA damage in part through interaction with RNF169
V RM, Ananthapadmanabhan V, Swanson S, Saini S, Sesay F, Yakovlev V, Florens L, DeCaprio JA, M PW, Dozmorov M, Litovchick L. Cell Cycle. 2019; 18:531-551.
Original Data
A Hox-TALE regulatory circuit for neural crest patterning is conserved across vertebrates
Parker HJ, De Kumar B, Green SA, Prummel KD, Hess C, Kaufman CK, Mosimann C, Wiedemann LM, Bronner ME, Krumlauf R. Nat Commun. 2019;10:1189. doi: 1110.1038/s41467-41019-09197-41468.
Original Data
Yeast centrosome components Mps2 and Mps3 form a non-canonical LINC complex at the nuclear envelope insertion site
Chen J, Gardner JM, Yu Z, Smith SE, McKinney S, Slaughter BD, Unruh JR, Jaspersen SL. [published ahead of print March 14 2019]. J Cell Biol. 2019.
Original Data
Topological Scoring of Protein Interaction Networks
Sardiu ME, Gilmore JM, Groppe BD, Dutta A, Florens L, Washburn MP.  Nat Commun. 2019;10:1118. doi: 1110.1038/s41467-41019-09123-y.
Original Data
The transcriptome of the Veiled Chameleon (Chamaeleo calyptratus): a resource for studying the evolution and development of vertebrates
Pinto BJ, Card DC, Castoe TA, Diaz RE, Jr., Nielsen SV, Trainor PA, Gamble T. [published ahead of print March 7 2019] Dev Dyn. 2019.
Imaging-based assays for investigating functions of the RNA polymerase II elongation factor Elongin and the Elongin ubiquitin ligase
Weems JC, Unruh JR, Slaughter BD, Conaway RC, Conaway JW. [published ahead of print February 15 2019]. Methods. 2019.​
Original Data
RUNX proteins desensitize multiple myeloma to lenalidomide via protecting IKZFs from degradation
Zhou N, Gutierrez-Uzquiza A, Zheng XY, Chang R, Vogl DT, Garfall AL, Bernabei L, Saraf A, Florens L, Washburn MP, Illendula A, Bushweller JH, Busino L. [published ahead of print February 15 2019]. Leukemia. 2019.
Original Data
Set1-catalyzed H3K4 trimethylation antagonizes the HIR/Asf1/Rtt106 repressor complex to promote histone gene expression and chronological life span
Mei Q, Xu C, Gogol M, Tang J, Chen W, Yu X, Workman JL, Li S. Nucleic Acids Res. 2019.
Characterization of a metazoan ADA acetyltransferase complex
Soffers JHM, Li X, Saraf A, Seidel CW, Florens L, Washburn MP, Abmayr SM, Workman JL. [published ahead of print February 5 2019]. Nucleic Acids Res. 2019.
Original Data
A chemoproteomic portrait of the oncometabolite fumarate
Kulkarni RA, Bak DW, Wei D, Bergholtz SE, Briney CA, Shrimp JH, Alpsoy A, Thorpe AL, Bavari AE, Crooks DR, Levy M, Florens L, Washburn MP, Frizzell N, Dykhuizen EC, Weerapana E, Linehan WM, Meier JL. Nat Chem Biol. 2019;15:391-400
Original Data
Host Vesicle Fusion Protein VAPB Is Required for the Nuclear Egress Stage of Herpes Simplex Virus Type-1 (HSV-1) Replication
Saiz-Ros N, Czapiewski R, Epifano I, Stevenson A, Swanson SK, Dixon CR, Zamora DB, McElwee M, Vijayakrishnan S, Richardson CA, Dong L, Kelly DA, Pytowski L, Goldberg MW, Florens L, Graham SV, Schirmer EC. Cells. 2019;8 E120. doi: 110.3390/cells8020120.
Original Data
Distribution of Proteins at the Inner Nuclear Membrane Is Regulated by the Asi1 E3 Ligase in Saccharomyces cerevisiae
Smoyer CJ, Smith SE, Gardner JM, McCroskey S, Unruh JR, Jaspersen SL. [published ahead of print February 2 2019]. Genetics. 2019.
Original Data
Defining gene networks controlling the maintenance and function of the differentiation niche by an in vivo systematic RNAi screen
Gao Y, Mao Y, Xu RG, Zhu R, Zhang M, Sun J, Shen D, Peng P, Xie T, Ni JQ. J Genet Genome. 2019;46:19-30.
scRNA-Seq reveals distinct stem cell populations that drive hair cell regeneration after loss of Fgf and Notch signaling
Lush ME, Diaz DC, Koenecke N, Baek S, Boldt H, St Peter MK, Gaitan-Escudero T, Romero-Carvajal A, Busch-Nentwich EM, Perera AG, Hall KE, Peak A, Haug JS, Piotrowski T.  Elife. 2019;8:e44431. doi: 44410.47554/eLife.44431.
Original Data
N-Cadherin-Expressing Bone and Marrow Stromal Progenitor Cells Maintain Reserve Hematopoietic Stem Cells
Zhao M, Tao F, Venkatraman A, Li Z, Smith SE, Unruh J, Chen S, Ward C, Qian P, Perry JM, Marshall H, Wang J, He XC, Li L. Cell Rep. 2019;26:652-669 e656.
Original Data
The Drosophila Dbf4 ortholog Chiffon forms a complex with Gcn5 that is necessary for histone acetylation and viability
Torres-Zelada EF, Stephenson RE, Alpsoy A, Anderson BD, Swanson SK, Florens L, Dykhuizen EC, Washburn MP, Weake VM. J Cell Sci. 2019;132:jcs.214072.
Original Data
Electroporation of short hairpin RNAs for rapid and efficient gene knockdown in the starlet sea anemone, Nematostella vectensis.
Karabulut A, He S, Chen CY, McKinney SA, Gibson MC. Dev Biol. 2019;448:7-15.
Original Data
ClusterMap: Compare multiple Single Cell RNA-Seq datasets across different experimental conditions
Gao X, Hu D, Gogol M, Li H. [published ahead of print January 17 2019]. Bioinformatics. 2019;Epub.
Original Data
Oocyte-specific deletion of Hdac8 in mice reveals stage-specific effects on fertility
Singh VP, Yueh WT, Gerton JL, Duncan FE. Reproduction. 2019;157:305-316.
Original Data
Narya, a RING finger domain-containing protein, is required for both meiotic DNA double-strand break formation and crossover maturation in Drosophila melanogaster
Lake CM, Nielsen RJ, Bonner AM, Eche S, White-Brown S, McKim KS, Hawley RS. PLoS Genet. 2019;15:e1007886. doi: 1007810.1001371/journal.pgen.1007886.​
Original Data
Shh plays an inhibitory role in cusp patterning by regulation of Sostdc1
Kim J, Ahn Y, Adasooriya D, Woo EJ, Kim HJ, Hu KS, Krumlauf R, Cho SW.  J Dent Res. 2019;98:98-106.
Original Data
Functional consequences of the evolution of matrimony, a meiosis-specific inhibitor of Polo kinase
Bonner AM, Hawley RS. Mol Biol Evol. 2019;36:69-83.
Original Data
Reviews, Commentaries, Chapters or Books
Sweet fish: Fish models for the study of hyperglycemia and diabetes
Krishnan J, Rohner N. J Diabetes. 2019;11:193-203.
Ribosomal DNA instability and genome adaptability
Salim D, Gerton JL. Chromosome Res. 2019;27:73-87.
Ribosomal DNA and the nucleolus in the context of genome organization
Potapova TA, Gerton JL. Chromosome Res. 2019;27:109-127.
Cornelia de Lange syndrome, related disorders, and the Cohesin complex: Abstracts from the 8th biennial scientific and educational symposium 2018
Kline AD, Krantz ID, Bando M, Shirahige K, Chea S, Sakata T, Rao S, Dorsett D, Singh VP, Gerton JL, Horsfield JA, Calof AL, Katz O, Grados M, Raible S, Baranano K, Lyon G, Musio A, Carrico CS, Clemens DK, Caudill P, Massa V, McGill BE, Dommestrup A, O'Connor J, Haaland RE. [published ahead of print March 16 2019]. Am J Med Genet A. 2019.
The Society for Craniofacial Genetics and Developmental Biology 41st Annual Meeting
​Taneyhill LA, Moody SA, Cox T, Klein OD, Marcucio R, Schneider RA, Trainor PA. Am J Med Genet A. 2019.
Manipulation of developmental function in turtles with notes on alligators
Moustakas-Verho JE, McLennan R, Spengler J, Kulesa PM, Cebra-Thomas JA. Methods Mol Biol. 2019;1920:247-263.
Original Data
Ribosomal DNA-connecting ribosome biogenesis and chromosome biology
Porokhovnik L, Gerton JL. Chromosome Res. 2019;27:1-3.
Recent advances in understanding intestinal stem cell regulation
Hu D, Yan H, He XC, Li L.  F1000Res. 2019;8:F1000 Faculty Rev-72. Published 2019 Jan 18. doi:10.12688/f1000research.16793.1