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Research Output 1975 2019

89 Citations (Scopus)

Propagation and expression of cloned genes in yeast: 2-μm circle-based vectors

Rose, A. B. & Broach, J., Jan 1 1990, In : Methods in enzymology. 185, C, p. 234-279 46 p.

Research output: Contribution to journalArticle

Yeast
Genes
18 Citations (Scopus)

Propagation and expression of genes in yeast using 2-micron circle vectors.

Armstrong, K. A., Som, T., Volkert, F. C., Rose, A. & Broach, J. R., Jan 1 1989, In : Biotechnology (Reading, Mass.). 13, p. 165-192 28 p.

Research output: Contribution to journalReview article

5 Citations (Scopus)

Proper conditional analysis in the presence of missing data: Application to large scale meta-analysis of tobacco use phenotypes

Jiang, Y., Chen, S., McGuire, D., Chen, F., Liu, M., Iacono, W. G., Hewitt, J. K., Hokanson, J. E., Krauter, K., Laakso, M., Li, K. W., Lutz, S. M., McGue, M., Pandit, A., Zajac, G. J. M., Boehnke, M., Abecasis, G. R., Vrieze, S. I., Zhan, X., Jiang, B. & 1 others, Liu, D. J., Jul 2018, In : PLoS genetics. 14, 7, e1007452.

Research output: Contribution to journalArticle

tobacco use
meta-analysis
Tobacco Use
tobacco
Meta-Analysis
44 Citations (Scopus)

Properties of REP3: A cis-acting locus required for stable propagation of the Saccharomyces cerevisiae plasmid 2μm circle

Jayaram, M., Sutton, A. & Broach, J., Jan 1 1985, In : Molecular and Cellular Biology. 5, 9, p. 2466-2475 10 p.

Research output: Contribution to journalArticle

Fungal Genes
Genetic Transformation
Circular DNA
Replicon
Regulator Genes
5 Citations (Scopus)

Protein-coding variants implicate novel genes related to lipid homeostasis contributing to body-fat distribution

T2D-Genes Consortium, The MAGIC Investigators, CHD Exome+ Consortium, Cohorts for Heart and Aging Research in Genomic Epidemiology (CHARGE) Consortium, EPIC-CVD Consortium, ExomeBP Consortium, Global Lipids Genetic Consortium, GoT2D Genes Consortium, InterAct & ReproGen Consortium, Mar 1 2019, In : Nature Genetics. 51, 3, p. 452-469 18 p.

Research output: Contribution to journalArticle

Body Fat Distribution
Homeostasis
Lipids
Fats
Genes
164 Citations (Scopus)

Protein kinase A and Sch9 cooperatively regulate induction of autophagy in Saccharomyces cerevisiae

Yorimitsu, T., Zaman, S., Broach, J. R. & Klionsky, D. J., Oct 1 2007, In : Molecular biology of the cell. 18, 10, p. 4180-4189 10 p.

Research output: Contribution to journalArticle

Autophagy
Cyclic AMP-Dependent Protein Kinases
Saccharomyces cerevisiae
Phosphotransferases
Eukaryotic Cells
59 Citations (Scopus)
Cyclic AMP-Dependent Protein Kinases
Food
Genes
RNA Polymerase I
RNA Polymerase III

Publisher Correction: Protein-altering variants associated with body mass index implicate pathways that control energy intake and expenditure in obesity (Nature Genetics, (2018), 50, 1, (26-41), 10.1038/s41588-017-0011-x)

CHD Exome+ Consortium, EPIC-CVD Consortium, ExomeBP Consortium, Global Lipids Genetic Consortium, GoT2D Genes Consortium, EPIC InterAct Consortium, INTERVAL Study, ReproGen Consortium, T2D-Genes Consortium, The MAGIC Investigators & Understanding Society Scientific Group, Jan 1 2019, (Accepted/In press) In : Nature Genetics.

Research output: Contribution to journalComment/debate

Open Access
Energy Intake
Energy Metabolism
Body Mass Index
Obesity
Proteins
6 Citations (Scopus)
Tacrolimus
Tandem Mass Spectrometry
High Pressure Liquid Chromatography
Ions
Methanol
1 Citation (Scopus)

RAG1 high expression associated with IKZF1 dysfunction in adult B-cell acute lymphoblastic leukemia

Han, Q., Ma, J., Gu, Y., Song, H., Kapadia, M., Kawasawa, Y. I., Dovat, S., Song, C. & Ge, Z., Jan 1 2019, In : Journal of Cancer. 10, 16, p. 3842-3850 9 p.

Research output: Contribution to journalArticle

Open Access
Precursor Cell Lymphoblastic Leukemia-Lymphoma
B-Lymphocytes
Genetic Recombination
Clonal Evolution
Carcinogenesis
25 Citations (Scopus)

Rap1p and other transcriptional regulators can function in defining distinct domains of gene expression

Yu, Q., Qiu, R., Foland, T. B., Griesen, D., Galloway, C. S., Chiu, Y. H., Sandmeier, J., Broach, J. & Bi, X., Feb 15 2003, In : Nucleic acids research. 31, 4, p. 1224-1233 10 p.

Research output: Contribution to journalReview article

Insulator Elements
Chromatin
Gene Expression
Ribosomes
Transcriptional Activation
179 Citations (Scopus)

Rare and low-frequency coding variants alter human adult height

MAGIC Investigators, The EPIC-InterAct Consortium, EPIC-CVD Consortium, CHD Exome+ Consortium, ExomeBP Consortium, T2D-Genes Consortium, GoT2D Genes Consortium, Global Lipids Genetics Consortium & ReproGen Consortium, Feb 9 2017, In : Nature. 542, 7640, p. 186-190 5 p.

Research output: Contribution to journalArticle

Alleles
Insulin-Like Growth Factor Binding Protein 4
Pregnancy-Associated Plasma Protein-A
Growth Disorders
Multifactorial Inheritance
4 Citations (Scopus)

Rare loss of function variants in candidate genes and risk of colorectal cancer

NHLBI GO Exome Sequencing Project, Pulmonary Arterial Hypertension (PAH), Severe Asthma Research Program (SARP), Women’s Health Initiative (WHI), Anthropometry Project Team, Blood Count/Hematology Project Team, Blood Pressure Project Team, Data Flow Working Group, Early MI Project Team, ELSI Working Group, Executive Committee, Family Study Project Team, Lipids Project Team, Lung Project Team, Personal Genomics Project Team, Phenotype and Harmonization Working Group, Population Genetics and Statistical Analysis Working Group, Publications and Presentations Working Group, Quantitative Analysis Ad Hoc Task Group, Sequencing and Genotyping Working Group & 15 others, Steering Committee, Stroke Project Team, Structural Variation Working Group, Subclinical/Quantitative Project Team, Acute Lung Injury (ALI), Atherosclerosis Risk in Communities (ARIC), Cardiovascular Health Study (CHS), Chronic Obstructive Pulmonary Disease (COPDGene), Coronary Artery Risk Development in Young Adults (CARDIA), Cystic Fibrosis (CF), Early Pseudomonas Infection Control (EPIC), Framingham Heart Study (FHS), Jackson Heart Study (JHS), Lung Health Study (LHS) & Multi-Ethnic Study of Atherosclerosis (MESA), Oct 1 2018, In : Human genetics. 137, 10, p. 795-806 12 p.

Research output: Contribution to journalArticle

Polyps
Colorectal Neoplasms
Genes
Penetrance
Genetic Testing
54 Citations (Scopus)

RAS2 protein of Saccharomyces cerevisiae is methyl-esterified at its carboxyl terminus

Deschenes, R. J., Stimmel, J. B., Clarke, S., Stock, J. & Broach, J., 1989, In : Journal of Biological Chemistry. 264, 20, p. 11865-11873 9 p.

Research output: Contribution to journalArticle

Saccharomyces cerevisiae Proteins
Cysteine
Esterification
ras Proteins
Proteins
109 Citations (Scopus)

Ras and Gpa2 mediate one branch of a redundant glucose signaling pathway in yeast

Wang, Y., Pierce, M., Schneper, L., Güldal, C. G., Zhang, X., Tavazoie, S. & Broach, J. R., Sep 27 2004, In : PLoS biology. 2, 5

Research output: Contribution to journalArticle

Yeast
Yeasts
yeasts
cAMP-dependent protein kinase
Glucose
163 Citations (Scopus)

RAS genes in Saccharomyces cerevisiae: signal transduction in search of a pathway

Broach, J. R., Jan 1991, In : Trends in Genetics. 7, 1, p. 28-33 6 p.

Research output: Contribution to journalArticle

ras Proteins
Saccharomycetales
Saccharomyces cerevisiae
Signal Transduction
Cell Cycle
67 Citations (Scopus)

Ras membrane targeting is essential for glucose signaling but not for viability in yeast

Bhattacharya, S., Chen, L., Broach, J. R. & Powers, S., Mar 28 1995, In : Proceedings of the National Academy of Sciences of the United States of America. 92, 7, p. 2984-2988 5 p.

Research output: Contribution to journalArticle

ras Proteins
Yeasts
Cell Membrane
Glucose
Membranes
39 Citations (Scopus)

Ras-regulated signaling processes in Saccharomyces cerevisiae

Broach, J., Jan 1 1991, In : Current Opinion in Genetics and Development. 1, 3, p. 370-377 8 p.

Research output: Contribution to journalArticle

ras Proteins
Guanine Nucleotides
GTP Phosphohydrolases
Post Translational Protein Processing
Saccharomyces cerevisiae
153 Citations (Scopus)

Recombination within the yeast plasmid 2μ circle is site-specific

Broach, J., Guarascio, V. R. & Jayaram, M., Jan 1 1982, In : Cell. 29, 1, p. 227-234 8 p.

Research output: Contribution to journalArticle

Yeast
Genetic Recombination
Plasmids
Genes
Yeasts
10 Citations (Scopus)

Regorafenib with a fluoropyrimidine for metastatic colorectal cancer after progression on multiple 5-FU-containing combination therapies and regorafenib monotherapy

Marks, E. I., Tan, C., Zhang, J., Zhou, L., Yang, Z., Scicchitano, A. & El-Deiry, W. S., Dec 2 2015, In : Cancer Biology and Therapy. 16, 12, p. 1710-1719 10 p.

Research output: Contribution to journalArticle

Fluorouracil
Colorectal Neoplasms
Therapeutics
Mutation
regorafenib
55 Citations (Scopus)
UDPglucose-Hexose-1-Phosphate Uridylyltransferase
Galactose
Saccharomyces cerevisiae
Messenger RNA
Genes
102 Citations (Scopus)

Regulation of transcription in expressed and unexpressed mating type cassettes of yeast

Klar, A. J. S., Strathern, J. N., Broach, J. & Hicks, J. B., Dec 1 1981, In : Nature. 289, 5795, p. 239-244 6 p.

Research output: Contribution to journalArticle

Saccharomyces
DNA Transposable Elements
Yeasts
Genes
41 Citations (Scopus)

Regulation of Yeast Pyruvate Kinase by Ultrasensitive Allostery Independent of Phosphorylation

Xu, Y. F., Zhao, X., Glass, D. S., Absalan, F., Perlman, D. H., Broach, J. R. & Rabinowitz, J. D., Oct 12 2012, In : Molecular cell. 48, 1, p. 52-62 11 p.

Research output: Contribution to journalArticle

Pyruvate Kinase
Yeasts
Phosphorylation
Glucose
Phosphoenolpyruvate
1 Citation (Scopus)

Replicating sequencing-based association studies of rare variants

Liu, D. & Leal, S. M., Jan 1 2015, Assessing Rare Variation in Complex Traits: Design and Analysis of Genetic Studies. Springer New York, p. 201-213 13 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Exome
Genes
Chromosome Mapping
Genetic Models
Population Genetics
171 Citations (Scopus)

Replication and recombination functions associated with the yeast plasmid, 2μ circle

Broach, J. & Hicks, J. B., Jan 1 1980, In : Cell. 21, 2, p. 501-508 8 p.

Research output: Contribution to journalArticle

Yeast
Genetic Recombination
Plasmids
Genes
Yeasts
1 Citation (Scopus)

Repository corticotrophin injection exerts direct acute effects on human B cell gene expression distinct from the actions of glucocorticoids

Benko, A. L., McAloose, C. A., Becker, P. M., Wright, D., Sunyer, T., Kawasawa, Y. I., Olsen, N. J. & Kovacs, W. J., Apr 2018, In : Clinical and Experimental Immunology. 192, 1, p. 68-81 14 p.

Research output: Contribution to journalArticle

Adrenocorticotropic Hormone
Glucocorticoids
B-Lymphocytes
Gene Expression
Messenger RNA

Repository corticotropin injection reverses critical elements of the TLR9/B cell receptor activation response in human B cells in vitro

Olsen, N., Benko, A. L., McAloose, C. A., Becker, P. M., Wright, D., Sunyer, T., Imamura, Y. & Kovacs, W., Apr 1 2019, In : Clinical Immunology. 201, p. 70-78 9 p.

Research output: Contribution to journalArticle

Adrenocorticotropic Hormone
B-Lymphocytes
Messenger RNA
Injections
Immunoglobulin M
4 Citations (Scopus)

RNA-seq analysis of developing olfactory bulb projection neurons

Imamura, Y., Salzberg, A. C., Li, M., Šestan, N., Greer, C. A. & Imamura, F., Jul 1 2016, In : Molecular and Cellular Neuroscience. 74, p. 78-86 9 p.

Research output: Contribution to journalArticle

RNA Sequence Analysis
Olfactory Bulb
Neurons
Protein Isoforms
Developmental Genes
10 Citations (Scopus)

RNA-seq implicates deregulation of the immune system in the pathogenesis of diverticulitis

Schieffer, K. M., Choi, C. S., Emrich, S., Harris, L., Deiling, S., Karamchandani, D. M., Salzberg, A., Kawasawa, Y. I., Yochum, G. S. & Koltun, W. A., Sep 2017, In : American Journal of Physiology - Gastrointestinal and Liver Physiology. 313, 3, p. G277-G284

Research output: Contribution to journalArticle

Diverticulitis
Immune System
RNA
Diverticulum
Sigmoid Colon
6 Citations (Scopus)

RNA sequencing reveals a slow to fast muscle fiber type transition after olanzapine infusion in rats

Lynch, C. J., Xu, Y., Hajnal, A., Salzberg, A. C. & Kawasawa, Y. I., Apr 20 2015, In : PloS one. 10, 4, e0123966.

Research output: Contribution to journalArticle

olanzapine
RNA Sequence Analysis
muscle fibers
Muscle
Rats
19 Citations (Scopus)

Role of 1/4 protein in donor locus selection during mating type interconversion

Szeto, L. & Broach, J., Feb 1 1997, In : Molecular and cellular biology. 17, 2, p. 751-759 9 p.

Research output: Contribution to journalArticle

Donor Selection
Alleles
Genes
Homeodomain Proteins
Proteins
499 Citations (Scopus)

Sch9 Is a Major Target of TORC1 in Saccharomyces cerevisiae

Urban, J., Soulard, A., Huber, A., Lippman, S., Mukhopadhyay, D., Deloche, O., Wanke, V., Anrather, D., Ammerer, G., Riezman, H., Broach, J., De Virgilio, C., Hall, M. N. & Loewith, R., Jun 8 2007, In : Molecular cell. 26, 5, p. 663-674 12 p.

Research output: Contribution to journalArticle

Saccharomyces cerevisiae
Phosphotransferases
TOR Serine-Threonine Kinases
Phosphorylation
Multiprotein Complexes
81 Citations (Scopus)

Selective depletion of molecularly defined cortical interneurons in human holoprosencephaly with severe striatal hypoplasia

Fertuzinhos, S., Krsnik, E., Kawasawa, Y. I., Rain, M. R., Kwan, K. Y., Chen, J. G., Juda, M., Hayashi, M. & Sestan, N., Sep 1 2009, In : Cerebral Cortex. 19, 9, p. 2196-2207 12 p.

Research output: Contribution to journalArticle

Holoprosencephaly
Corpus Striatum
Interneurons
Prosencephalon
Calbindin 2
86 Citations (Scopus)

Sense and sensibility: Nutritional response and signal integration in yeast

Schneper, L., Düvel, K. & Broach, J., Dec 1 2004, In : Current Opinion in Microbiology. 7, 6, p. 624-630 7 p.

Research output: Contribution to journalReview article

Yeasts
Food
Paint
Metabolome
Chromatin
8 Citations (Scopus)

Sensitivity of wild type and mutant ras alleles to Ras specific exchange factors: Identification of factor specific requirements

Nielsen, K. H., Gredsted, L., Broach, J. & Willumsen, B. M., Apr 19 2001, In : Oncogene. 20, 17, p. 2091-2100 10 p.

Research output: Contribution to journalArticle

ras Proteins
Alleles
ras Genes
GTP Phosphohydrolases
Transcriptional Activation
3 Citations (Scopus)

Separating putative pathogens from background contamination with principal orthogonal decomposition: Evidence for Leptospira in the Ugandan Neonatal Septisome

Schiff, S. J., Kiwanuka, J., Riggio, G., Nguyen, L., Mu, K., Sproul, E., Bazira, J., Mwanga-Amumpaire, J., Tumusiime, D., Nyesigire, E., Lwanga, N., Bogale, K. T., Kapur, V., Broach, J. R., Morton, S. U., Warf, B. C. & Poss, M., Jan 1 2016, In : Frontiers in Medicine. 3, JUN, 22.

Research output: Contribution to journalArticle

Open Access
Leptospira
Uganda
rRNA Genes
Cerebrospinal Fluid
Newborn Infant
6 Citations (Scopus)

Shared polygenic risk and causal inferences in amyotrophic lateral sclerosis

The ITALSGEN Consortium & The International ALS Genomics Consortium, Apr 2019, In : Annals of Neurology. 85, 4, p. 470-481 12 p.

Research output: Contribution to journalArticle

Open Access
Amyotrophic Lateral Sclerosis
Genome-Wide Association Study
Linkage Disequilibrium
Random Allocation
Smoking
30 Citations (Scopus)

Signals for transcription initiation and termination in the Saccharomyces cerevisiae plasmid 2μm circle

Sutton, A. & Broach, J., Jan 1 1985, In : Molecular and Cellular Biology. 5, 10, p. 2770-2780 11 p.

Research output: Contribution to journalArticle

Fungal RNA
Post Transcriptional RNA Processing
RNA Caps
Fungal DNA
Fungal Genes
67 Citations (Scopus)

Silencers are required for inheritance of the repressed state in yeast

Holmes, S. G. & Broach, J., Apr 15 1996, In : Genes and Development. 10, 8, p. 1021-1032 12 p.

Research output: Contribution to journalArticle

Yeasts
Maintenance
Saccharomyces
Heterochromatin
Chromatin
14 Citations (Scopus)

Simultaneous phylogeny reconstruction and multiple sequence alignment

Yue, F., Shi, J. & Tang, J., Jan 30 2009, In : BMC bioinformatics. 10, SUPPL. 1, S11.

Research output: Contribution to journalArticle

Multiple Sequence Alignment
Sequence Alignment
Phylogeny
Alignment
Phylogenetic Tree
81 Citations (Scopus)

Single-Cell Observations Reveal Intermediate Transcriptional Silencing States

Xu, E. Y., Zawadzki, K. A. & Broach, J., Jul 21 2006, In : Molecular cell. 23, 2, p. 219-229 11 p.

Research output: Contribution to journalArticle

Heterochromatin
Acetylesterase
Population
Saccharomyces
Reporter Genes
137 Citations (Scopus)

Site-specific recombination promotes plasmid amplification in yeast

Volkert, F. C. & Broach, J., Aug 15 1986, In : Cell. 46, 4, p. 541-550 10 p.

Research output: Contribution to journalArticle

Yeast
Genetic Recombination
Amplification
Plasmids
Yeasts
35 Citations (Scopus)

Sites required for position-effect regulation of mating-type information in yeast

Abraham, J., Feldman, J., Nasmyth, K. A., Strathern, J. N., Klar, A. J., Broach, J. & Hicks, J. B., Dec 1 1982, In : Cold Spring Harbor Symposia on Quantitative Biology. 47, 2, p. 989-998 10 p.

Research output: Contribution to journalArticle

Genetic Crosses
position effect (genetics)
Superhelical DNA
chromosome elimination
genetic recombination
153 Citations (Scopus)

SOX5 postmitotically regulates migration, postmigratory differentiation, and projections of subplate and deep-layer neocortical neurons

Kwan, K. Y., Lam, M. M. S., Krsnik, Ž., Kawasawa, Y. I., Lefebvre, V. & Šestan, N., Oct 14 2008, In : Proceedings of the National Academy of Sciences of the United States of America. 105, 41, p. 16021-16026 6 p.

Research output: Contribution to journalArticle

Neurons
Axons
Down-Regulation
Neocortex
Hypothalamus
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