Genomes and Genes
Affiliation: New York University
- Transforming growth factor-beta and microRNA:mRNA regulatory networks in epithelial plasticityJiri Zavadil
Department of Pathology and NYU Cancer Institute, New York University School of Medicine, New York, NY 10016, USA
Cells Tissues Organs 185:157-61. 2007....
- Regulation of androgen receptor-mediated transcription by RPB5 binding protein URI/RMPPaolo Mita
Department of Urology, New York University School of Medicine, 550 First Avenue, MSB424, New York, NY 10016, USA
Mol Cell Biol 31:3639-52. 2011..1 promoter. While Art-27 can bind AR directly, URI is bound to chromatin prior to hormone-dependent recruitment of AR, suggesting a role for URI in modulating AR recruitment to target genes...
- Wild type N-ras displays anti-malignant properties, in part by downregulating decorinMarta Benet
Department of Pathology, New York University School of Medicine, New York, New York, USA
J Cell Physiol 227:2341-51. 2012..The components of the pathways modulated by wt N-ras mediating its anti-malignant effects are potential targets for therapeutic intervention in cancer...
- Histology-specific microRNA alterations in melanomaLaura Poliseno
The Ronald O Perelman Department of Dermatology, New York University School of Medicine, New York, New York, USA
J Invest Dermatol 132:1860-8. 2012..Our data support a molecular classification in which SSM and NM are two molecularly distinct phenotypes. Therapeutic strategies that take into account subtype-specific alterations might improve the outcome of melanoma patients...
- A novel role of endothelin-1 in linking Toll-like receptor 7-mediated inflammation to fibrosis in congenital heart blockDavid Alvarez
New York University Medical Center, New York, New York 10016, USA
J Biol Chem 286:30444-54. 2011..In conclusion, these data support a novel role of ET-1 in linking TLR7 inflammatory signaling to subsequent fibrosis and provide new insight in considering therapeutics for CHB...
- chinmo is a functional effector of the JAK/STAT pathway that regulates eye development, tumor formation, and stem cell self-renewal in DrosophilaMaria Sol Flaherty
Pharmacology Department, New York University School of Medicine, New York, NY 10016, USA
Dev Cell 18:556-68. 2010..Like hyperactivated Stat92E, Chinmo misexpression in CySCs is sufficient to maintain GSCs nonautonomously. Chinmo is therefore a key effector of JAK/STAT signaling in a variety of developmental and pathological contexts...
- Knock down of HIF-1alpha in glioma cells reduces migration in vitro and invasion in vivo and impairs their ability to form tumor spheresOlga Mendez
Microvascular and Molecular Neuro Oncology Laboratory, New York University School of Medicine, New York University Langone Medical Center, New York, NY, USA
Mol Cancer 9:133. 2010..GBMs are characterized by the presence of extensive areas of necrosis and hypoxia. Hypoxia and its master regulator, hypoxia inducible factor 1 (HIF-1) play a key role in glioma invasion...
- Comparison of gene expression profiles in chromate transformed BEAS-2B cellsHong Sun
Nelson Institute of Environmental Medicine, New York University School of Medicine, Tuxedo, New York, United States of America
PLoS ONE 6:e17982. 2011....
- Dual Pten/Tp53 suppression promotes sarcoma progression by activating Notch signalingMaria V Guijarro
Department of Pathology, New York University School of Medicine, New York, New York 10016, USA
Am J Pathol 182:2015-27. 2013..Our results highlight the importance of molecularly subclassifying patients with high-grade sarcoma for targeted treatments...
- Long chain fatty Acyl-CoA synthetase 4 is a biomarker for and mediator of hormone resistance in human breast cancerXinyu Wu
Department of Neuroscience and Physiology, New York University School of Medicine, New York, New York, United States of America
PLoS ONE 8:e77060. 2013..Our data strongly suggest that ACSL4 can serve as both a biomarker for, and mediator of, an aggressive breast cancer phenotype. ..
- The inducible deletion of Drosha and microRNAs in mature podocytes results in a collapsing glomerulopathyOlga Zhdanova
Skirball Institute for Biomolecular Medicine, New York University Langone Medical Center, New York, New York, USA
Kidney Int 80:719-30. 2011..Identifying these miRNAs may provide new insight into disease pathogenesis and novel therapeutic targets in various podocytopathies...
- Gene expression changes in human lung cells exposed to arsenic, chromium, nickel or vanadium indicate the first steps in cancerHailey A Clancy
Nelson Institute of Environmental Medicine, New York University School of Medicine, Department of Environmental Health Sciences, 57 Old Forge Road, Tuxedo, NY 10987, USA
Metallomics 4:784-93. 2012....
- Integrative genomics identifies molecular alterations that challenge the linear model of melanoma progressionAmy E Rose
Department of Dermatology, New York University School of Medicine, New York, New York, USA
Cancer Res 71:2561-71. 2011..Furthermore, our data suggest a role for altered regulation of metabolism-related genes as a possible cause of the different clinical behavior of SSM and NM...
- Insulin acts through FOXO3a to activate transcription of plasminogen activator inhibitor type 1Ushma R Jag
Department of Pharmacology, New York University School of Medicine, New York, New York 10016, USA
Mol Endocrinol 23:1587-602. 2009..Finally, chromatin immunoprecipitation assays confirm the presence of FoxO3a on the PAI-1 promoter. These results suggest that FoxO3a mediates insulin-increased PAI-1 gene expression...
- Inhibition of nonsense-mediated RNA decay by the tumor microenvironment promotes tumorigenesisDing Wang
Department of Medicine, New York University School of Medicine, 550 1st Avenue, New York, New York 10016, USA
Mol Cell Biol 31:3670-80. 2011..These data indicate that NMD inhibition by the tumor microenvironment is also an important mechanism to dynamically regulate genes critical for the response to cellular stress and tumorigenesis...
- Ezh1 and Ezh2 maintain repressive chromatin through different mechanismsRaphael Margueron
Department of Biochemistry, New York University Medical School, 522 First Avenue, New York, NY 10016, USA
Mol Cell 32:503-18. 2008..These results might reflect subfunctionalization of a PcG protein during evolution...
- Distinct functions of Sox2 control self-renewal and differentiation in the osteoblast lineageEunjeong Seo
Department of Microbiology, NYU School of Medicine, New York, NY 10016, USA
Mol Cell Biol 31:4593-608. 2011..Our results establish a connection between Sox2 and BMI-1 in maintaining self-renewal and identify BMI-1 as a key mediator of Sox2 function...
- Chromatin structure regulation in transforming growth factor-beta-directed epithelial-mesenchymal transitionMiroslav Blumenberg
Department of Dermatology, New York University School of Medicine, New York, NY 10016, USA
Cells Tissues Organs 185:162-74. 2007..3B. Finally, we discuss the potential significance of this scenario for EMT in the light of recent findings on gene regulation by histone modifications and chromatin structure changes...
- Vreteno, a gonad-specific protein, is essential for germline development and primary piRNA biogenesis in DrosophilaAndrea L Zamparini
HHMI and Kimmel Center for Biology and Medicine at Skirball Institute, Department of Cell Biology, New York University School of Medicine, New York, NY 10016, USA
Development 138:4039-50. 2011..We propose that Vret plays an essential role in transposon regulation at an early stage of primary piRNA processing...
- DNA damage and eIF4G1 in breast cancer cells reprogram translation for survival and DNA repair mRNAsMichelle Badura
Department of Microbiology, New York University School of Medicine, New York, NY 10016, USA
Proc Natl Acad Sci U S A 109:18767-72. 2012..Increased expression of eIF4G1 therefore promotes specialized translation of survival, growth arrest, and DDR mRNAs that are important in cell survival and DNA repair following genotoxic DNA damage...
- Mir-17-3p controls spinal neural progenitor patterning by regulating Olig2/Irx3 cross-repressive loopJun An Chen
Departments of Pathology and Cell Biology, Neurology, and Neuroscience, Center for Motor Neuron Biology and Disease, Columbia University Medical Center, New York, NY 10032, USA
Neuron 69:721-35. 2011....
- Comprehensive transcriptional profiling of human epidermis, reconstituted epidermal equivalents, and cultured keratinocytes using DNA microarray chipsDing Dar Lee
Department of Dermatology, The NYU Cancer Institute, New York University School of Medicine, New York, NY, USA
Methods Mol Biol 585:193-223. 2010..The work can be a primer for researchers embarking on skinomics, the comprehensive analysis of transcriptional changes in the skin...
- miR-30b/30d regulation of GalNAc transferases enhances invasion and immunosuppression during metastasisAvital Gaziel-Sovran
Department of Pathology, New York University Medical Center, NY 10016, USA
Cancer Cell 20:104-18. 2011..These data support a key role of miR-30b/30d and GalNAc transferases in metastasis, by simultaneously promoting cellular invasion and immunosuppression...
- Control of cholesterol metabolism and plasma high-density lipoprotein levels by microRNA-144Cristina M Ramírez
Leon H Charney Division of Cardiology, Departments of Medicine and Cell Biology, New York University School of Medicine, New York, New York, USA
Circ Res 112:1592-601. 2013..Increasing evidence supports the role of microRNA (miRNAs) in regulating cholesterol metabolism through ABC transporters...
- Hypoxia induces trimethylated H3 lysine 4 by inhibition of JARID1A demethylaseXue Zhou
Nelson Institute of Environmental Medicine, New York University School of Medicine, Tuxedo, New York 10987, USA
Cancer Res 70:4214-21. 2010..Thus, these results indicate that hypoxia might target JARID1A activity, which in turn increases H3K4me3 at both the global and gene-specific levels, leading to the altered programs of gene expression and tumor progression...
- Profiling and functional analyses of microRNAs and their target gene products in human uterine leiomyomasJiri Zavadil
Department of Pathology, School of Medicine, New York University, New York, New York, United States of America
PLoS ONE 5:e12362. 2010..In order to identify microRNA::mRNA associations relevant to ULM pathogenesis, we examined global correlation patterns between the altered microRNA expression and the predicted target genes in ULMs and matched myometria...
- Analysis and Meta-analysis of Transcriptional Profiling in Human EpidermisClaudia Mimoso
The RO Perelman Department of Dermatology, Department of Biochemistry and Molecular Pharmacology, NYU Langone Medical Center, NYU Cancer Institute, 455 First Avenue, New York, NY, 10016, USA
Methods Mol Biol 1195:61-97. 2014..This work can serve as a primer for researchers embarking on skinomics, the comprehensive analysis of transcriptional changes in skin. ..
- TGF-beta and epithelial-to-mesenchymal transitionsJiri Zavadil
Department of Pathology, NYU Cancer Institute, New York University School of Medicine, New York, NY 10016, USA
Oncogene 24:5764-74. 2005..Here we will review the distinct physiological contexts of EMT and the underlying molecular signaling networks controlled by TGF-beta...
- Tet2 loss leads to increased hematopoietic stem cell self-renewal and myeloid transformationKelly Moran-Crusio
Department of Pathology, NYU Cancer Institute, New York University School of Medicine, NY 10016, USA
Cancer Cell 20:11-24. 2011..In addition, Tet2(+/-) mice also displayed increased stem cell self-renewal and extramedullary hematopoiesis, suggesting that Tet2 haploinsufficiency contributes to hematopoietic transformation in vivo...
- Genome-wide expression profiling in the Drosophila eye reveals unexpected repression of notch signaling by the JAK/STAT pathwayMaria Sol Flaherty
Pharmacology Department, New York University School of Medicine, New York, New York 10016, USA
Dev Dyn 238:2235-53. 2009..These data suggest that this study will be a useful resource for the identification of additional Stat92E targets...
- Differential regulation of catechol-O-methyltransferase expression in a mouse model of aggressionStephen D Ginsberg
Center for Dementia Research, Nathan Kline Institute, New York University Langone Medical Center, New York, NY, USA
Brain Struct Funct 216:347-56. 2011..Additional molecular and cellular characterization of COMT, TH, and other potential targets is warranted within this animal model of aggression...
- Radiation acts on the microenvironment to affect breast carcinogenesis by distinct mechanisms that decrease cancer latency and affect tumor typeDavid H Nguyen
Department of Radiation Oncology, New York University School of Medicine, New York, NY 10016, USA
Cancer Cell 19:640-51. 2011..This effect was TGFβ independent and linked to mammary stem cell activity. Thus, the irradiated microenvironment affects latency and clinically relevant features of cancer through distinct and unexpected mechanisms...
- Immune profile and mitotic index of metastatic melanoma lesions enhance clinical staging in predicting patient survivalDusan Bogunovic
Cancer Institute and Department of Pathology, New York University Langone Medical Center, New York, NY 10016, USA
Proc Natl Acad Sci U S A 106:20429-34. 2009....
- Molecular signatures of prostate stem cells reveal novel signaling pathways and provide insights into prostate cancerRoy Blum
Department of Cell Biology, New York University School of Medicine, New York, New York, United States of America
PLoS ONE 4:e5722. 2009..The global gene expression profiles of adult and fetal murine prostate stem cells were determined to define common and unique regulators whose misexpression might play a role in the development of prostate cancer...
- Two subunits specific to the PBAP chromatin remodeling complex have distinct and redundant functions during drosophila developmentInes Carrera
Skirball Institute 4 9, New York University School of Medicine, 540 First Avenue, New York, NY 10016, USA
Mol Cell Biol 28:5238-50. 2008..Finally, we generated mutants lacking Bap170, Bap180, and Osa in the germ line to demonstrate that the core Brahma complex can function in oogenesis without any of these accessory subunits...
- In TCR-stimulated T-cells, N-ras regulates specific genes and signal transduction pathwaysStephen J Lynch
Department of Pathology, New York University Langone School of Medicine, New York, New York, United States of America
PLoS ONE 8:e63193. 2013....
- Relapse-specific mutations in NT5C2 in childhood acute lymphoblastic leukemiaJulia A Meyer
New York University Cancer Institute, New York University Langone Medical Center, New York, New York, USA
Nat Genet 45:290-4. 2013..Clinically, all individuals who harbored NT5C2 mutations relapsed early, within 36 months of initial diagnosis (P = 0.03). These results suggest that mutations in NT5C2 are associated with the outgrowth of drug-resistant clones in ALL...
- Antibiotics in early life alter the murine colonic microbiome and adiposityIlseung Cho
Department of Medicine, New York University School of Medicine, New York, New York 10016, USA
Nature 488:621-6. 2012..In this model, we demonstrate the alteration of early-life murine metabolic homeostasis through antibiotic manipulation...
- Regulation of hematopoietic stem cell differentiation by a single ubiquitin ligase-substrate complexLinsey Reavie
Howard Hughes Medical Institute and Department of Pathology, New York, New York, USA
Nat Immunol 11:207-15. 2010..Our studies show that a ubiquitin ligase-substrate pair can orchestrate the molecular program of HSC differentiation...
- Role of hypoxia and cAMP in the transdifferentiation of human fetal cardiac fibroblasts: implications for progression to scarring in autoimmune-associated congenital heart blockRobert M Clancy
Department of Medicine, Division of Rheumatology, New York University School of Medicine, 560 First Avenue, New York, NY 10016, USA
Arthritis Rheum 56:4120-31. 2007..Accordingly, this study was carried out to explore the hypothesis that hypoxia potentiates a profibrosing phenotype of the fetal cardiac fibroblast...
- eIF4GI links nutrient sensing by mTOR to cell proliferation and inhibition of autophagyFrancisco Ramírez-Valle
Department of Microbiology, New York University School of Medicine, New York, NY 10016, USA
J Cell Biol 181:293-307. 2008..These results suggest that the high levels of eIF4GI observed in many breast cancers might act to specifically increase proliferation, prevent autophagy, and release tumor cells from control by nutrient sensing...
- Integration of TGF-beta/Smad and Jagged1/Notch signalling in epithelial-to-mesenchymal transitionJiri Zavadil
Department of Medicine, Albert Einstein College of Medicine, Bronx, NY, USA
EMBO J 23:1155-65. 2004....
- Spectrum and range of oxidative stress responses of human lens epithelial cells to H2O2 insultSumanta Goswami
Department of Ophthalmology and Visual Sciences, Albert Einstein College of Medicine, Bronx, New York 10461, USA
Invest Ophthalmol Vis Sci 44:2084-93. 2003..Oxidative stress (OS) is believed to be a major contributor to age-related cataract and other age-related diseases...
- Single cell behavior in metastatic primary mammary tumors correlated with gene expression patterns revealed by molecular profilingWeigang Wang
Department of Anatomy and Structural Biology, Albert Einstein College of Medicine, Bronx, New York 10461, USA
Cancer Res 62:6278-88. 2002..We conclude that aligning cell behavior in vivo with patterns of gene expression can lead to new insights into the microenvironment of carcinoma cells in the primary tumor and the molecular mechanisms behind cell behavior...
- RNA labeling and hybridization of DNA microarraysErwin P Bottinger
Departments of Medicine and Molecular Genetics, Albert Einstein College of Medicine, Bronx, NY, USA
Methods Mol Med 86:275-84. 2003
- Hierarchical model of gene regulation by transforming growth factor betaYaw Ching Yang
Departments of Medicine and Molecular Genetics, Albert Einstein College of Medicine, Bronx, NY 10461
Proc Natl Acad Sci U S A 100:10269-74. 2003....
- Inhibition of Smad5 in human hematopoietic progenitors blocks erythroid differentiation induced by BMP4Ota Fuchs
Institute of Hematology and Blood Transfusion, Prague, Czech Republic
Blood Cells Mol Dis 28:221-33. 2002..We propose that the BMP4/Smad5 signal transduction pathway activates hematopoietic differentiation programs that may be impaired in anemia manifestations in MDS and AML patients with Smad5 haploinsufficiency...
- Nicotine-induced sensitization in mice: changes in locomotor activity and mesencephalic gene expressionMariko Saito
Laboratory of Neurobehavioral Genetics, Nathan S Kline Institute for Psychiatric Research, 140 Old Orangeburg Road, Orangeburg, NY 10962, USA
Neurochem Res 30:1027-35. 2005..Down-regulation of GABA-A receptors induced by repeated nicotine exposure may facilitate dopaminergic neuronal transmission and may contribute to increased locomotor activity...