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Research Output 1975 2019

Article
1 Citation (Scopus)

Spatial-temporal analysis of prostate cancer incidence from the Pennsylvania cancer registry, 2000-2011

Wang, M., Matthews, S. A., Iskandarani, K., Li, Y., Li, Z., Chinchilli, V. M. & Zhang, L., Jan 1 2017, In : Geospatial Health. 12, 2, p. 369-375 7 p., 611.

Research output: Contribution to journalArticle

Spatio-Temporal Analysis
temporal analysis
Registries
cancer
Prostatic Neoplasms
837 Citations (Scopus)

Spatio-temporal transcriptome of the human brain

Kang, H. J., Kawasawa, Y. I., Cheng, F., Zhu, Y., Xu, X., Li, M., Sousa, A. M. M., Pletikos, M., Meyer, K. A., Sedmak, G., Guennel, T., Shin, Y., Johnson, M. B., Krsnik, Ž., Mayer, S., Fertuzinhos, S., Umlauf, S., Lisgo, S. N., Vortmeyer, A., Weinberger, D. R. & 6 others, Mane, S., Hyde, T. M., Huttner, A., Reimers, M., Kleinman, J. E. & Šestan, N., Oct 27 2011, In : Nature. 478, 7370, p. 483-489 7 p.

Research output: Contribution to journalArticle

Transcriptome
Brain
Exons
Gene Expression
Gene Expression Regulation
16 Citations (Scopus)

Spatiotemporal transcriptomic divergence across human and macaque brain development

Zhu, Y., Sousa, A. M. M., Gao, T., Skarica, M., Li, M., Santpere, G., Esteller-Cucala, P., Juan, D., Ferrández-Peral, L., Gulden, F. O., Yang, M., Miller, D. J., Marques-Bonet, T., Imamura, Y., Zhao, H. & Sestan, N., Dec 14 2018, In : Science. 362, 6420, 1267.

Research output: Contribution to journalArticle

Macaca
Brain
Human Development
Prefrontal Cortex
Macaca mulatta
221 Citations (Scopus)

Sphingoid base 1-phosphate phosphatase: A key regulator of sphingolipid metabolism and stress response

Mandala, S. M., Thornton, R., Tu, Z., Kurtz, M. B., Nickels, J., Broach, J., Menzeleev, R. & Spiegel, S., Jan 6 1998, In : Proceedings of the National Academy of Sciences of the United States of America. 95, 1, p. 150-155 6 p.

Research output: Contribution to journalArticle

Sphingolipids
Ceramides
Phosphoric Monoester Hydrolases
Yeasts
Phosphates
179 Citations (Scopus)

SRV2, a gene required for RAS activation of adenylate cyclase in yeast

Fedor-Chaiken, M., Deschenes, R. J. & Broach, J., Apr 20 1990, In : Cell. 61, 2, p. 329-340 12 p.

Research output: Contribution to journalArticle

Adenylyl Cyclases
Yeast
Genes
Yeasts
Chemical activation
8 Citations (Scopus)

Stage-dependent loss of cortical gyrification as Parkinson disease "unfolds"

Sterling, N. W., Wang, M., Zhang, L., Lee, E. Y., Du, G., Lewis, M., Styner, M. & Huang, X., Mar 22 2016, In : Neurology. 86, 12, p. 1143-1151 9 p.

Research output: Contribution to journalArticle

Parkinson Disease
Dementia
Disease Progression
Linear Models
Pathology
6 Citations (Scopus)

"Stealth dissemination" of macrophage-tumor cell fusions cultured from blood of patients with pancreatic ductal adenocarcinoma

Clawson, G. A., Matters, G. L., Xin, P., McGovern, C., Wafula, E., DePamphilis, C., Meckley, M., Wong, J., Stewart, L., D’Jamoos, C., Altman, N., Kawasawa, Y. I., Du, Z., Honaas, L. & Abraham, T., Sep 2017, In : PloS one. 12, 9, e0184451.

Research output: Contribution to journalArticle

cell fusion
Cell Fusion
Macrophages
adenocarcinoma
Tumors
10 Citations (Scopus)

Structure of the SAD mutation and the location of control sites at silent mating type genes in Saccharomyces cerevisiae

Hicks, J., Strathern, J., Klar, A., Ismail, S. & Broach, J., Jan 1 1984, In : Molecular and cellular biology. 4, 7, p. 1278-1285 8 p.

Research output: Contribution to journalArticle

Fungal Mating Type Genes
Fungal Genes
Genetic Crosses
Lethal Genes
Species Specificity
2 Citations (Scopus)

Suppression of p16 Induces mTORC1-Mediated Nucleotide Metabolic Reprogramming

Buj, R., Chen, C. W., Dahl, E. S., Leon, K. E., Kuskovsky, R., Maglakelidze, N., Navaratnarajah, M., Zhang, G., Doan, M. T., Jiang, H., Zaleski, M., Kutzler, L., Lacko, H., Lu, Y., Mills, G. B., Gowda, R., Robertson, G., Warrick, J., Herlyn, M., Imamura, Y. & 4 others, Kimball, S., Degraff, D., Snyder, N. W. & Aird, K., Aug 20 2019, In : Cell Reports. 28, 8, p. 1971-1980.e8

Research output: Contribution to journalArticle

Open Access
Nucleotides
Metabolism
Carcinogenesis
Up-Regulation
Neoplasms
6 Citations (Scopus)

Survival strategies of the yeast plasmid two-micron circle.

Volkert, F. C., Wu, L. C., Fisher, P. A. & Broach, J., Dec 1 1986, In : Basic life sciences. 40, p. 375-396 22 p.

Research output: Contribution to journalArticle

Plasmids
Yeasts
Cell Division
Centromere
Mitosis
1 Citation (Scopus)

Systems biology and TOR. past, present, and future

Lippman, S. I. & Broach, J., Oct 5 2010, In : Enzymes. 28, C, p. 317-348 32 p.

Research output: Contribution to journalArticle

Systems Biology
Genes
Genome
Yeast
Yeasts
13 Citations (Scopus)

Targeting a non-oncogene addiction to the ATR/CHK1 axis for the treatment of small cell lung cancer

Doerr, F., George, J., Schmitt, A., Beleggia, F., Rehkämper, T., Hermann, S., Walter, V., Weber, J. P., Thomas, R. K., Wittersheim, M., Büttner, R., Persigehl, T. & Christian Reinhardt, H., Dec 1 2017, In : Scientific reports. 7, 1, 15511.

Research output: Contribution to journalArticle

Small Cell Lung Carcinoma
Therapeutics
Cell Cycle Checkpoints
Lung Neoplasms
Drug Therapy

Targeting IDH1 as a prosenescent therapy in high-grade serous ovarian cancer

Dahl, E. S., Buj, R., Leon, K. E., Newell, J. M., Imamura, Y., Bitler, B. G., Snyder, N. W. & Aird, K. M., Aug 1 2019, In : Molecular Cancer Research. 17, 8, p. 1710-1720 11 p.

Research output: Contribution to journalArticle

Ovarian Neoplasms
Carcinoma
Therapeutics
Neoplasms
Epigenomics
99 Citations (Scopus)

Temporal specification and bilaterality of human neocortical topographic gene expression

Pletikos, M., Sousa, A. M. M., Sedmak, G., Meyer, K. A., Zhu, Y., Cheng, F., Li, M., Imamura, Y. & Šestan, N., Jan 22 2014, In : Neuron. 81, 2, p. 321-332 12 p.

Research output: Contribution to journalArticle

Neocortex
Macaca
Human Development
Gene Expression
Transcriptome
32 Citations (Scopus)

The 3D Genome Browser: A web-based browser for visualizing 3D genome organization and long-range chromatin interactions

Wang, Y., Song, F., Zhang, B., Zhang, L., Xu, J., Kuang, D., Li, D., Choudhary, M. N. K., Li, Y., Hu, M., Hardison, R., Wang, T. & Yue, F., Oct 4 2018, In : Genome biology. 19, 1, 151.

Research output: Contribution to journalArticle

Web Browser
Chromatin
chromatin
genome
Genome
20 Citations (Scopus)

The 45- and 104-kDa forms of phosphatidate phosphatase from Saccharomyces cerevisiae are regulated differentially by phosphorylation via cAMP-dependent protein kinase

Quinlan, J. J., Nickels, J. T., Wu, W. I., Lin, Y. P., Broach, J. & Carman, G. M., Jan 1 1992, In : Journal of Biological Chemistry. 267, 25, p. 18013-18020 8 p.

Research output: Contribution to journalArticle

Phosphatidate Phosphatase
Phosphorylation
Cyclic AMP-Dependent Protein Kinases
Yeast
Saccharomyces cerevisiae
1 Citation (Scopus)

The 7q11.23 Protein DNAJC30 Interacts with ATP Synthase and Links Mitochondria to Brain Development

Tebbenkamp, A. T. N., Varela, L., Choi, J., Paredes, M. I., Giani, A. M., Song, J. E., Sestan-Pesa, M., Franjic, D., Sousa, A. M. M., Liu, Z. W., Li, M., Bichsel, C., Koch, M., Szigeti-Buck, K., Liu, F., Li, Z., Kawasawa, Y. I., Paspalas, C. D., Mineur, Y. S., Prontera, P. & 5 others, Merla, G., Picciotto, M. R., Arnsten, A. F. T., Horvath, T. L. & Sestan, N., Nov 1 2018, In : Cell. 175, 4, p. 1088-1104.e23

Research output: Contribution to journalArticle

Mitochondrial Proton-Translocating ATPases
Williams Syndrome
Mitochondria
Machinery
Brain
1 Citation (Scopus)

The accuracy of the sysmex uf-1000i in urine bacterial detection compared with the standard urine analysis and culture

Erdman, P., Anderson, B., Zacko, J. C., Taylor, K. & Donaldson, K., Nov 1 2017, In : Archives of Pathology and Laboratory Medicine. 141, 11, p. 1540-1543 4 p.

Research output: Contribution to journalArticle

Urine
Agar
Bacteria
Sensitivity and Specificity
Urinalysis
129 Citations (Scopus)

The CDC25 Protein of Saccharomyces cerevisiae Promotes Exchange of Guanine Nucleotides Bound to Ras

Jones, S., Vignais, M. L. & Broach, J., Jan 1 1991, In : Molecular and Cellular Biology. 11, 5, p. 2641-2646 6 p.

Research output: Contribution to journalArticle

ras-GRF1
Saccharomyces cerevisiae Proteins
Guanine Nucleotides
Galactosidases
Guanosine Triphosphate
14 Citations (Scopus)

The circadian pattern of cardiac autonomic modulation and obesity in adolescents

Rodríguez-Colón, S., He, F., Bixler, E., Fernandez-Mendoza, J., Vgontzas, A., Berg, A., Imamura, Y. & Liao, D., Dec 5 2014, In : Clinical Autonomic Research. 24, 6, p. 265-273 9 p.

Research output: Contribution to journalArticle

Pediatric Obesity
Heart Rate
Obesity
Population
Electrocardiography
4 Citations (Scopus)

The DGCR5 long noncoding RNA may regulate expression of several schizophrenia-related genes

Meng, Q., Wang, K., Brunetti, T., Xia, Y., Jiao, C., Dai, R., Fitzgerald, D., Thomas, A., Jay, L., Eckart, H., Grennan, K., Imamura, Y., Li, M., Sestan, N., White, K. P., Chen, C. & Liu, C., Dec 19 2018, In : Science Translational Medicine. 10, 472, eaat6912.

Research output: Contribution to journalArticle

Long Noncoding RNA
Schizophrenia
Genes
RNA Sequence Analysis
Induced Pluripotent Stem Cells
21 Citations (Scopus)

The dynamics of homologous pairing during mating type interconversion in budding yeast

Houston, P. L. & Broach, J., Jan 1 2006, In : PLoS Genetics. 2, 6, p. 896-905 10 p.

Research output: Contribution to journalArticle

Saccharomycetales
recombination
yeast
repair
yeasts

The expression of TTF1, CDX2 and ISL1 in 74 poorly differentiated neuroendocrine carcinomas

Lee, H., Fu, Z., Koo, B. H., Sheehan, C. E., Young, G. Q., Lin, J., Patil, D. T. & Yang, Z., Dec 1 2018, In : Annals of Diagnostic Pathology. 37, p. 30-34 5 p.

Research output: Contribution to journalArticle

Neuroendocrine Carcinoma
Small Cell Carcinoma
Staining and Labeling
Lung
Students
158 Citations (Scopus)

The function of ras genes in: Saccharomyces cerevisiae

Broach, J. & Deschenes, R. J., Jan 1 1990, In : Advances in Cancer Research. 54, C, p. 79-139 61 p.

Research output: Contribution to journalArticle

ras Genes
Saccharomyces cerevisiae
Proteins
Adenylyl Cyclases
Yeasts
186 Citations (Scopus)

The high-grade (WHO G3) pancreatic neuroendocrine tumor category is morphologically and biologically heterogenous and includes both well differentiated and poorly differentiated neoplasms

Basturk, O., Yang, Z., Tang, L. H., Hruban, R. H., Adsay, V., McCall, C. M., Krasinskas, A. M., Jang, K. T., Frankel, W. L., Balci, S., Sigel, C. & Klimstra, D. S., Apr 28 2015, In : American Journal of Surgical Pathology. 39, 5, p. 683-690 8 p.

Research output: Contribution to journalArticle

Neuroendocrine Tumors
Neoplasms
Neuroendocrine Carcinoma
Survival
78 Citations (Scopus)

The HML mating-type cassette of Saccharomyces cerevisiae is regulated by two separate but functionally equivalent silencers

Mahoney, D. J. & Broach, J., Jan 1 1989, In : Molecular and cellular biology. 9, 11, p. 4621-4630 10 p.

Research output: Contribution to journalArticle

Fungal Gene Expression Regulation
Fungal Chromosomes
Fungal RNA
Fungal Genes
Genetic Transcription
22 Citations (Scopus)

The Integrated Genomic Landscape of Thymic Epithelial Tumors

The Cancer Genome Atlas Network, Feb 12 2018, In : Cancer Cell. 33, 2, p. 244-258.e10

Research output: Contribution to journalArticle

Thymoma
Myasthenia Gravis
Autoantigens
Aneuploidy
Mutation
8 Citations (Scopus)

The MYC 3′ Wnt-responsive element drives oncogenic MYC expression in human colorectal cancer cells

Rennoll, S. A., Eshelman, M. A., Raup-Konsavage, W. M., Kawasawa, Y. I. & Yochum, G. S., May 23 2016, In : Cancers. 8, 5, 52.

Research output: Contribution to journalArticle

TCF Transcription Factors
Catenins
Colorectal Neoplasms
DNA
Clustered Regularly Interspaced Short Palindromic Repeats
20 Citations (Scopus)

The origin recognition complex interacts with a subset of metabolic genes tightly linked to origins of replication

Shor, E., Warren, C. L., Tietjen, J., Hou, Z., Müller, U., Alborelli, I., Gohard, F. H., Yemm, A. I., Borisov, L., Broach, J. R., Weinreich, M., Nieduszynski, C. A., Ansari, A. Z. & Fox, C. A., Dec 1 2009, In : PLoS genetics. 5, 12, e1000755.

Research output: Contribution to journalArticle

Origin Recognition Complex
replication origin
Replication Origin
open reading frames
gene
20 Citations (Scopus)

The pattern of gray matter atrophy in Parkinson’s disease differs in cortical and subcortical regions

Lewis, M., Du, G., Lee, E. Y., Nasralah, Z., Sterling, N. W., Zhang, L., Wagner, D., Kong, L., Tröster, A. I., Styner, M., Eslinger, P., Mailman, R. & Huang, X., Jan 1 2016, In : Journal of Neurology. 263, 1, p. 68-75 8 p.

Research output: Contribution to journalArticle

Atrophy
Parkinson Disease
Corpus Striatum
Putamen
Gray Matter
29 Citations (Scopus)

The Ras/Protein Kinase A Pathway Acts in Parallel with the Mob2/Cbk1 Pathway to Effect Cell Cycle Progression and Proper Bud Site Selection

Schneper, L., Krauss, A., Miyamoto, R., Fang, S. & Broach, J., Feb 1 2004, In : Eukaryotic Cell. 3, 1, p. 108-120 13 p.

Research output: Contribution to journalArticle

ras Proteins
cAMP-dependent protein kinase
Cyclic AMP-Dependent Protein Kinases
cell cycle
Cell Cycle
15 Citations (Scopus)
Homologous Recombination
Genetic Recombination
Saccharomyces cerevisiae
Gene Conversion
Saccharomyces
101 Citations (Scopus)

The Saccharomyces cerevisiae YAK1 gene encodes a protein kinase that is induced by arrest early in the cell cycle

Garrett, S., Menold, M. M. & Broach, J., Jan 1 1991, In : Molecular and Cellular Biology. 11, 8, p. 4045-4052 8 p.

Research output: Contribution to journalArticle

Protein Kinases
Saccharomyces cerevisiae
Cell Cycle
Adenosine Monophosphate
Genes
3 Citations (Scopus)
Cholangiocarcinoma
Carcinoma, Ductal, Breast
Differential Diagnosis
Estrogen Receptors
Breast Neoplasms
43 Citations (Scopus)

The Yeast Environmental Stress Response Regulates Mutagenesis Induced by Proteotoxic Stress

Shor, E., Fox, C. A. & Broach, J., Aug 1 2013, In : PLoS genetics. 9, 8, e1003680.

Research output: Contribution to journalArticle

environmental stress
mutagenesis
Mutagenesis
yeast
stress response
30 Citations (Scopus)

The yeast genome undergoes significant topological reorganization in quiescence

Rutledge, M. T., Russo, M., Belton, J. M., Dekker, J. & Broach, J. R., Sep 30 2015, In : Nucleic Acids Research. 43, 17, p. 8299-8313 15 p.

Research output: Contribution to journalArticle

Chromosomes
Yeasts
Genome
Centromere
Spindle Pole Bodies
56 Citations (Scopus)

The yeast HML I silencer defines a heterochromatin domain boundary by directional establishment of silencing

Bi, X., Braunstein, M., Shei, G. J. & Broach, J. R., Oct 12 1999, In : Proceedings of the National Academy of Sciences of the United States of America. 96, 21, p. 11934-11939 6 p.

Research output: Contribution to journalArticle

Heterochromatin
Chromatin
Yeasts
Chromosomes
Insulator Elements
47 Citations (Scopus)

The yeast plasmid 2μ circle

Broach, J., Jan 1 1982, In : Cell. 28, 2, p. 203-204 2 p.

Research output: Contribution to journalArticle

Circular DNA
DNA Replication
Genetic Recombination
Saccharomyces cerevisiae
Cell Cycle
99 Citations (Scopus)

The yeast plasmid 2μ circle encodes components required for its high copy propagation

Jayaram, M., Li, Y. Y. & Broach, J., Jan 1 1983, In : Cell. 34, 1, p. 95-104 10 p.

Research output: Contribution to journalArticle

Yeast
Plasmids
Yeasts
Replication Origin
Nucleic Acid Repetitive Sequences
2338 Citations (Scopus)

Topological domains in mammalian genomes identified by analysis of chromatin interactions

Dixon, J. R., Selvaraj, S., Yue, F., Kim, A., Li, Y., Shen, Y., Hu, M., Liu, J. S. & Ren, B., May 17 2012, In : Nature. 485, 7398, p. 376-380 5 p.

Research output: Contribution to journalArticle

Chromatin
Genome
Chromosomes
Retroelements
Heterochromatin
336 Citations (Scopus)

Topologically associating domains are stable units of replication-timing regulation

Pope, B. D., Ryba, T., Dileep, V., Yue, F., Wu, W., Denas, O., Vera, D. L., Wang, Y., Hansen, R. S., Canfield, T. K., Thurman, R. E., Cheng, Y., Gülsoy, G., Dennis, J. H., Snyder, M. P., Stamatoyannopoulos, J. A., Taylor, J., Hardison, R. C., Kahveci, T., Ren, B. & 1 others, Gilbert, D. M., Nov 20 2014, In : Nature. 515, 7527, p. 402-405 4 p.

Research output: Contribution to journalArticle

Replicon
Chromatin
Chromosome Structures
Chromosomes, Human, Pair 7
Heterochromatin
254 Citations (Scopus)

Tor proteins and protein phosphatase 2A reciprocally regulate Tap42 in controlling cell growth in yeast

Jiang, Y. & Broach, J. R., May 17 1999, In : EMBO Journal. 18, 10, p. 2782-2792 11 p.

Research output: Contribution to journalArticle

Protein Phosphatase 2
Cell growth
Sirolimus
Yeast
Phosphorylation
50 Citations (Scopus)

TPD1 of Saccharomyces cerevisiae encodes a protein phosphatase 2C-like activity implicated in tRNA splicing and cell separation

Robinson, M. K., Van Zyl, W. H., Phizicky, E. M. & Broach, J., Jan 1 1994, In : Molecular and Cellular Biology. 14, 6, p. 3634-3645 12 p.

Research output: Contribution to journalArticle

Cell Separation
Transfer RNA
Saccharomyces cerevisiae
RNA Precursors
Genes
678 Citations (Scopus)

Transcriptional silencing in yeast is associated with reduced nucleosome acetylation

Braunstein, M., Rose, A. B., Holmes, S. G., David Allis, C. & Broach, J., Jan 1 1993, In : Genes and Development. 7, 4, p. 592-604 13 p.

Research output: Contribution to journalArticle

Nucleosomes
Acetylation
Yeasts
Telomere
Histones

Transdifferentiation of Human Circulating Monocytes Into Neuronal-Like Cells in 20 Days and Without Reprograming

Bellon, A., Wegener, A., Lescallette, A. R., Valente, M., Yang, S. K., Gardette, R., Matricon, J., Mouaffak, F., Watts, P., Vimeux, L., Yun, J. K., Kawasawa, Y. I., Clawson, G. A., Blandin, E., Chaumette, B., Jay, T. M., Krebs, M. O., Feuillet, V. & Hosmalin, A., Sep 19 2018, In : Frontiers in Molecular Neuroscience. 11, 323.

Research output: Contribution to journalArticle

Monocytes
Neurons
Neuronal Plasticity
Electrophysiology
Dopamine Receptors
657 Citations (Scopus)

Transformation in yeast: Development of a hybrid cloning vector and isolation of the can1 gene

Broach, J., Strathern, J. N. & Hicks, J. B., Jan 1 1979, In : Gene. 8, 1, p. 121-133 13 p.

Research output: Contribution to journalArticle

Genetic Vectors
Yeasts
Genes
Plasmids
Replication Origin

Tristetraprolin targets Nos2 expression in the colonic epithelium

Eshelman, M. A., Matthews, S. M., Schleicher, E. M., Fleeman, R. M., Kawasawa, Y. I., Stumpo, D. J., Blackshear, P. J., Koltun, W. A., Ishmael, F. T. & Yochum, G. S., Dec 1 2019, In : Scientific reports. 9, 1, 14413.

Research output: Contribution to journalArticle

Open Access
Tristetraprolin
Epithelium
Epithelial Cells
3' Untranslated Regions
Colitis
1 Citation (Scopus)

Tumor molecular profiling for an individualized approach to the treatment of hepatocellular carcinoma: A patient case study

Posadas, K., Ankola, A., Yang, Z. & Yee, N. S., Jun 1 2018, In : Biomedicines. 6, 2, 46.

Research output: Contribution to journalArticle

Tumors
Hepatocellular Carcinoma
oxaliplatin
Chemotherapy
Catenins
112 Citations (Scopus)

UAS(rpg) can function as a heterochromatin boundary element in yeast

Bi, X. & Broach, J., May 1 1999, In : Genes and Development. 13, 9, p. 1089-1101 13 p.

Research output: Contribution to journalArticle

Insulator Elements
Heterochromatin
Ribosomes
Yeasts
Genes
15 Citations (Scopus)

Unexpected similarities between C9ORF72 and sporadic forms of ALS/FTD suggest a common disease mechanism

The New York Genome Center ALS Consortium, Jul 13 2018, In : eLife. 7, e37754.

Research output: Contribution to journalArticle

Frontotemporal Dementia
Heterogeneous-Nuclear Ribonucleoprotein Group F-H
Brain
RNA-Binding Proteins
Genes