RICHARD A contact YOUNG

Summary

Affiliation: Massachusetts Institute of Technology
Country: USA

Publications

  1. pmc Genome-wide analysis of cAMP-response element binding protein occupancy, phosphorylation, and target gene activation in human tissues
    Xinmin Zhang
    The Salk Institute for Biological Studies, 10010 North Torrey Pines Road, La Jolla, CA 92037, USA
    Proc Natl Acad Sci U S A 102:4459-64. 2005
  2. pmc Mediator and cohesin connect gene expression and chromatin architecture
    Michael H Kagey
    Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, Massachusetts 02142, USA
    Nature 467:430-5. 2010
  3. pmc Ligand-dependent dynamics of retinoic acid receptor binding during early neurogenesis
    Shaun Mahony
    Computer Science and Artificial Intelligence Laboratory, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
    Genome Biol 12:R2. 2011
  4. pmc Analysis of the mouse embryonic stem cell regulatory networks obtained by ChIP-chip and ChIP-PET
    Divya Mathur
    Department of Biology, Massachusetts Institute of Technology, Ames Street, Cambridge, MA 02139, USA
    Genome Biol 9:R126. 2008
  5. pmc Zebrafish promoter microarrays identify actively transcribed embryonic genes
    Fiona C Wardle
    Wellcome Trust Cancer Research UK Gurdon Institute and Department of Zoology, Cambridge University, Cambridge, UK
    Genome Biol 7:R71. 2006
  6. ncbi request reprint Regulation of gene expression by TBP-associated proteins
    T I Lee
    Whitehead Institute for Biomedical Research, Cambridge, Massachusetts 02142, USA
    Genes Dev 12:1398-408. 1998
  7. pmc Control of the embryonic stem cell state
    Richard A Young
    Whitehead Institute for Biomedical Research, Cambridge, MA 02142, USA
    Cell 144:940-54. 2011
  8. ncbi request reprint Transcriptional regulatory networks in Saccharomyces cerevisiae
    Tong Ihn Lee
    Whitehead Institute for Biomedical Research, Nine Cambridge Center, Cambridge, MA 02142, USA
    Science 298:799-804. 2002
  9. ncbi request reprint Activated signal transduction kinases frequently occupy target genes
    Dmitry K Pokholok
    Whitehead Institute for Biomedical Research, Nine Cambridge Center, Cambridge, MA 02142, USA
    Science 313:533-6. 2006
  10. ncbi request reprint Computational discovery of gene modules and regulatory networks
    Ziv Bar-Joseph
    MIT Computer Science and Artificial Intelligence Laboratory, 200 Technology Square, Cambridge, Massachusetts 02139, USA
    Nat Biotechnol 21:1337-42. 2003

Research Grants

  1. Transcriptional Regulatory Networks in Living Cells
    Richard A Young; Fiscal Year: 2010
  2. Epigenomic Mapping in Human Tumor Stem Cells
    RICHARD A contact YOUNG; Fiscal Year: 2010
  3. Biological Discovery Using Diverse High-Throughput Data
    Richard Young; Fiscal Year: 2004
  4. GENETIC AND BIOCHEMICAL ANALYSIS OF YEAST RNA POLYMERASE
    Richard Young; Fiscal Year: 2004
  5. CTL INDUCTION STRATEGIES FOR AIDS VACCINES
    Richard Young; Fiscal Year: 2002
  6. TAFS AND GENERAL TRANSCRIPTION FACTORS IN YEAST
    Richard Young; Fiscal Year: 2001
  7. Epigenomic Mapping in Human Tumor Stem Cells
    Richard Young; Fiscal Year: 2009
  8. Transcriptional Regulatory Networks in Living Cells
    Richard Young; Fiscal Year: 2009
  9. Transcriptional Regulatory Network in Living Cells
    Richard Young; Fiscal Year: 2006
  10. Transcriptional Regulatory Networks in Living Cells
    Richard Young; Fiscal Year: 2007

Collaborators

Detail Information

Publications58

  1. pmc Genome-wide analysis of cAMP-response element binding protein occupancy, phosphorylation, and target gene activation in human tissues
    Xinmin Zhang
    The Salk Institute for Biological Studies, 10010 North Torrey Pines Road, La Jolla, CA 92037, USA
    Proc Natl Acad Sci U S A 102:4459-64. 2005
    ..These results indicate that CREB phosphorylation alone is not a reliable predictor of target gene activation and that additional CREB regulatory partners are required for recruitment of the transcriptional apparatus to the promoter...
  2. pmc Mediator and cohesin connect gene expression and chromatin architecture
    Michael H Kagey
    Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, Massachusetts 02142, USA
    Nature 467:430-5. 2010
    ..Mediator and cohesin co-occupy different promoters in different cells, thus generating cell-type-specific DNA loops linked to the gene expression program of each cell...
  3. pmc Ligand-dependent dynamics of retinoic acid receptor binding during early neurogenesis
    Shaun Mahony
    Computer Science and Artificial Intelligence Laboratory, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
    Genome Biol 12:R2. 2011
    ..RAR is thought to bind the genome constitutively, and only induce transcription in the presence of the retinoid ligand. However, little is known about where RAR binds to the genome or how it selects target sites...
  4. pmc Analysis of the mouse embryonic stem cell regulatory networks obtained by ChIP-chip and ChIP-PET
    Divya Mathur
    Department of Biology, Massachusetts Institute of Technology, Ames Street, Cambridge, MA 02139, USA
    Genome Biol 9:R126. 2008
    ..Recent evidence with comparing multiple technologies suggests that expanding these datasets using different platforms would be a useful resource for examining the mechanisms underlying pluripotency regulation...
  5. pmc Zebrafish promoter microarrays identify actively transcribed embryonic genes
    Fiona C Wardle
    Wellcome Trust Cancer Research UK Gurdon Institute and Department of Zoology, Cambridge University, Cambridge, UK
    Genome Biol 7:R71. 2006
    ..This approach will allow investigators to determine the genomic binding locations of DNA interacting proteins during development and expedite the assembly of the genetic networks that regulate embryogenesis...
  6. ncbi request reprint Regulation of gene expression by TBP-associated proteins
    T I Lee
    Whitehead Institute for Biomedical Research, Cambridge, Massachusetts 02142, USA
    Genes Dev 12:1398-408. 1998
  7. pmc Control of the embryonic stem cell state
    Richard A Young
    Whitehead Institute for Biomedical Research, Cambridge, MA 02142, USA
    Cell 144:940-54. 2011
    ..These studies have, as a consequence, uncovered fundamental mechanisms that control mammalian gene expression, connect gene expression to chromosome structure, and contribute to human disease...
  8. ncbi request reprint Transcriptional regulatory networks in Saccharomyces cerevisiae
    Tong Ihn Lee
    Whitehead Institute for Biomedical Research, Nine Cambridge Center, Cambridge, MA 02142, USA
    Science 298:799-804. 2002
    ..Our results reveal that eukaryotic cellular functions are highly connected through networks of transcriptional regulators that regulate other transcriptional regulators...
  9. ncbi request reprint Activated signal transduction kinases frequently occupy target genes
    Dmitry K Pokholok
    Whitehead Institute for Biomedical Research, Nine Cambridge Center, Cambridge, MA 02142, USA
    Science 313:533-6. 2006
    ..The ability to detect this interaction of signaling kinases with target genes can be used to more precisely and comprehensively map the regulatory circuitry that eukaryotic cells use to respond to their environment...
  10. ncbi request reprint Computational discovery of gene modules and regulatory networks
    Ziv Bar-Joseph
    MIT Computer Science and Artificial Intelligence Laboratory, 200 Technology Square, Cambridge, Massachusetts 02139, USA
    Nat Biotechnol 21:1337-42. 2003
    ..We also present a genome-wide location analysis data set for regulators in yeast cells treated with rapamycin, and use the GRAM algorithm to provide biological insights into this regulatory network..
  11. pmc Control of pancreas and liver gene expression by HNF transcription factors
    Duncan T Odom
    Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, MA 02142, USA
    Science 303:1378-81. 2004
    ..Our results suggest how misregulation of HNF4alpha can contribute to type 2 diabetes...
  12. pmc Global and Hox-specific roles for the MLL1 methyltransferase
    Matthew G Guenther
    Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, MA 02142, USA
    Proc Natl Acad Sci U S A 102:8603-8. 2005
    ..The ability of MLL1 to serve as a start site-specific global transcriptional regulator and to participate in larger chromatin domains at the Hox genes reveals dual roles for MLL1 in maintenance of cellular identity...
  13. ncbi request reprint Genome-wide map of nucleosome acetylation and methylation in yeast
    Dmitry K Pokholok
    Whitehead Institute for Biomedical Research, Nine Cambridge Center, Cambridge, Massachusetts 02142, USA
    Cell 122:517-27. 2005
    ..These maps provide the foundation for further understanding the roles of chromatin in gene expression and genome maintenance...
  14. pmc Transcriptional regulatory code of a eukaryotic genome
    Christopher T Harbison
    Whitehead Institute for Biomedical Research, Nine Cambridge Center, Cambridge, Massachusetts 02142, USA
    Nature 431:99-104. 2004
    ..We find that environment-specific use of regulatory elements predicts mechanistic models for the function of a large population of yeast's transcriptional regulators...
  15. pmc Core transcriptional regulatory circuitry in human embryonic stem cells
    Laurie A Boyer
    Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, Massachusetts 02142, USA
    Cell 122:947-56. 2005
    ..These results provide new insights into the transcriptional regulation of stem cells and reveal how OCT4, SOX2, and NANOG contribute to pluripotency and self-renewal...
  16. ncbi request reprint Bayesian estimation of transcript levels using a general model of array measurement noise
    Ron O Dror
    Department of Electrical Engineering and Computer Science, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
    J Comput Biol 10:433-52. 2003
    ..The resulting noise model includes novel features such as heavy-tailed additive noise and a gene-specific bias term. We also verify that the resulting noise and prior models fit data from an Affymetrix human chip set...
  17. ncbi request reprint A hypothesis-based approach for identifying the binding specificity of regulatory proteins from chromatin immunoprecipitation data
    Kenzie D Macisaac
    MIT Computer Science and Artificial Intelligence, Laboratory 32, Vassar Street, Cambridge, MA 02139, USA
    Bioinformatics 22:423-9. 2006
    ..However, the discovered motifs often do not agree with the binding specificity of the protein, when it is known...
  18. ncbi request reprint Program-specific distribution of a transcription factor dependent on partner transcription factor and MAPK signaling
    Julia Zeitlinger
    Whitehead Institute for Biomedical Research, Nine Cambridge Center, Cambridge, MA 02142, USA
    Cell 113:395-404. 2003
    ..Program-specific distribution across the genome may be a general mechanism by which transcription factors regulate distinct gene expression programs in response to signaling...
  19. ncbi request reprint Exchange of RNA polymerase II initiation and elongation factors during gene expression in vivo
    Dmitry K Pokholok
    Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, MA 02142, USA
    Mol Cell 9:799-809. 2002
    ..These results suggest a revised model for transcription initiation and elongation apparatuses in living cells...
  20. ncbi request reprint Deciphering gene expression regulatory networks
    John J Wyrick
    Whitehead Institute for Biomedical Research, Cambridge, Massachusetts 02142, USA
    Curr Opin Genet Dev 12:130-6. 2002
    ..The recent description of the genetic network controlling the cell cycle illustrates the tremendous potential of these approaches for deciphering gene expression regulatory networks in eukaryotic cells...
  21. ncbi request reprint Insights into host responses against pathogens from transcriptional profiling
    Richard G Jenner
    Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, Massachusetts 02142, USA
    Nat Rev Microbiol 3:281-94. 2005
    ....
  22. pmc The core centromere and Sgo1 establish a 50-kb cohesin-protected domain around centromeres during meiosis I
    Brendan M Kiburz
    Center for Cancer Research, Howard Hughes Medical Institute, Massachusetts Institute of Technology, Cambridge, 02139, USA
    Genes Dev 19:3017-30. 2005
    ..Our results identify the portions of chromosomes where cohesins are protected from removal during meiosis I and show that kinetochore components and cohesins themselves are required to establish this cohesin protective domain...
  23. pmc Control of developmental regulators by Polycomb in human embryonic stem cells
    Tong Ihn Lee
    Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, MA 02142, USA
    Cell 125:301-13. 2006
    ..These results indicate that PRC2 occupies a special set of developmental genes in ES cells that must be repressed to maintain pluripotency and that are poised for activation during ES cell differentiation...
  24. ncbi request reprint High-resolution computational models of genome binding events
    Yuan Qi
    Computer Science and Artificial Intelligence Laboratory, Massachusetts Institute of Technology, 32 Vassar Street, Cambridge, MA 02139, USA
    Nat Biotechnol 24:963-70. 2006
    ..We present results on the yeast transcription factors Gcn4 and Mig2 to demonstrate JBD's spatial resolution capabilities and show that positional priors allow computational discovery of the Mig2 motif when a standard approach fails...
  25. pmc Tcf3 is an integral component of the core regulatory circuitry of embryonic stem cells
    Megan F Cole
    Whitehead Institute for Biomedical Research, Cambridge, Massachusetts 02142, USA
    Genes Dev 22:746-55. 2008
    ..Our results suggest that the Wnt pathway, through Tcf3, brings developmental signals directly to the core regulatory circuitry of ES cells to influence the balance between pluripotency and differentiation...
  26. pmc Global position and recruitment of HATs and HDACs in the yeast genome
    Francois Robert
    Whitehead Institute for Biomedical Research, Nine Cambridge Center, Cambridge, MA 02142, USA
    Mol Cell 16:199-209. 2004
    ....
  27. ncbi request reprint A role for Toll-like receptor 4 in dendritic cell activation and cytolytic CD8+ T cell differentiation in response to a recombinant heat shock fusion protein
    Deborah Palliser
    Center for Cancer Research and Department of Biology, Massachusetts Institute of Technology and the Whitehead Institute, Cambridge, MA 02139, USA
    J Immunol 172:2885-93. 2004
    ..Overall, the results indicate that this Hsfp can activate DC independently of LPS but still requires Tlr4 for an optimal CD8 T cell response...
  28. ncbi request reprint Cumulative Toll-like receptor activation in human macrophages treated with whole bacteria
    Gerard J Nau
    Whitehead Institute for Biomedical Research, Cambridge, MA 02142, USA
    J Immunol 170:5203-9. 2003
    ..This distinct TLR4 response may provide the basis to diagnose clinical Gram-negative infections...
  29. pmc A chromatin landmark and transcription initiation at most promoters in human cells
    Matthew G Guenther
    Whitehead Institute for Biomedical Research, Cambridge, MA 02142, USA
    Cell 130:77-88. 2007
    ..These observations extend to differentiated cells, suggesting that transcription initiation at most genes is a general phenomenon in human cells...
  30. pmc Whole-genome ChIP-chip analysis of Dorsal, Twist, and Snail suggests integration of diverse patterning processes in the Drosophila embryo
    Julia Zeitlinger
    Whitehead Institute for Biomedical Research, Nine Cambridge Center, Cambridge, Massachusetts 02142, USA
    Genes Dev 21:385-90. 2007
    ..Thus, the ChIP-chip data uncover a much larger than expected regulatory network, which integrates diverse patterning processes during development...
  31. pmc Core transcriptional regulatory circuitry in human hepatocytes
    Duncan T Odom
    Young Laboratory, Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, MA 02142, USA
    Mol Syst Biol 2:2006.0017. 2006
    ..Our studies reveal portions of the core circuitry of human hepatocytes...
  32. pmc Chromatin immunoprecipitation and microarray-based analysis of protein location
    Tong Ihn Lee
    Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, Massachusetts 02142, USA
    Nat Protoc 1:729-48. 2006
    ..These protocols require approximately 1 week to complete once sufficient numbers of cells have been obtained, and have been used to produce robust, high-quality ChIP-chip results in many different cell and tissue types...
  33. pmc Connecting microRNA genes to the core transcriptional regulatory circuitry of embryonic stem cells
    Alexander Marson
    Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, MA 02142, USA
    Cell 134:521-33. 2008
    ..These data reveal how key ES cell transcription factors promote the ES cell miRNA expression program and integrate miRNAs into the regulatory circuitry controlling ES cell identity...
  34. pmc Foxp3 occupancy and regulation of key target genes during T-cell stimulation
    Alexander Marson
    Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, Massachusetts 02142, USA
    Nature 445:931-5. 2007
    ..Foxp3 suppression of its targets appears to be crucial for the normal function of T(reg) cells, because overactive variants of some target genes are known to be associated with autoimmune disease...
  35. pmc Divergent transcription from active promoters
    Amy C Seila
    Koch Institute, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
    Science 322:1849-51. 2008
    ..These results suggest that divergent transcription over short distances is common for active promoters and may help promoter regions maintain a state poised for subsequent regulation...
  36. pmc c-Myc regulates transcriptional pause release
    Peter B Rahl
    Whitehead Institute for Biomedical Research, Cambridge, MA 02142, USA
    Cell 141:432-45. 2010
    ..We discuss the implications of these results for the role of c-Myc amplification in human cancer...
  37. pmc E2F integrates cell cycle progression with DNA repair, replication, and G(2)/M checkpoints
    Bing Ren
    Whitehead Institute for Biomedical Research, Cambridge, Massachusetts 02142, USA
    Genes Dev 16:245-56. 2002
    ..Our data indicate that E2F directly links cell cycle progression with the coordinate regulation of genes essential for both the synthesis of DNA as well as its surveillance...
  38. pmc H2AZ is enriched at polycomb complex target genes in ES cells and is necessary for lineage commitment
    Menno P Creyghton
    Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, MA 02142, USA
    Cell 135:649-61. 2008
    ..Thus, H2AZ, together with PcG proteins, may establish specialized chromatin states in ES cells necessary for the proper execution of developmental gene expression programs...
  39. ncbi request reprint A highly potent artificial transcription factor
    Dusan Stanojevic
    Crosslink Genetics Corporation, One Kendall Square, Building 600, PMB 255, Cambridge, MA 02139, USA
    Biochemistry 41:7209-16. 2002
    ..The specific molecular design employed in the synthesis of ATFs may lead to the development of novel gene-targeting pharmaceuticals for treatment of fatal and chronic diseases...
  40. pmc Coordinated binding of NF-kappaB family members in the response of human cells to lipopolysaccharide
    Joerg Schreiber
    Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, MA 02142, USA
    Proc Natl Acad Sci U S A 103:5899-904. 2006
    ..This study identifies NF-kappaB target genes, reveals how the different NF-kappaB proteins coordinate their activity, and provides an initial map of the transcriptional regulatory network that underlies the host response to infection...
  41. pmc Human macrophage activation programs induced by bacterial pathogens
    Gerard J Nau
    Whitehead Institute, 9 Cambridge Center, Cambridge, MA 02142, USA
    Proc Natl Acad Sci U S A 99:1503-8. 2002
    ..These results improve our understanding of macrophage defenses, provide insights into mechanisms of pathogenesis, and suggest targets for therapeutic intervention...
  42. pmc Chromatin structure and gene expression programs of human embryonic and induced pluripotent stem cells
    Matthew G Guenther
    Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, MA 02142, USA
    Cell Stem Cell 7:249-57. 2010
    ..Although some variation in chromatin structure and gene expression was observed in these cell lines, these variations did not serve to distinguish ESCs from iPSCs...
  43. pmc SetDB1 contributes to repression of genes encoding developmental regulators and maintenance of ES cell state
    Steve Bilodeau
    Whitehead Institute for Biomedical Research, Cambridge, Massachusetts 02142, USA
    Genes Dev 23:2484-9. 2009
    ..These genes are subjected to repression by both Polycomb group proteins and SetDB1, and loss of either regulator can destabilize ES cell state...
  44. pmc RNA polymerase stalling at developmental control genes in the Drosophila melanogaster embryo
    Julia Zeitlinger
    Whitehead Institute for Biomedical Research, Nine Cambridge Center, Cambridge, Massachusetts 02142, USA
    Nat Genet 39:1512-6. 2007
    ..We propose that Pol II stalling facilitates rapid temporal and spatial changes in gene activity during development...
  45. ncbi request reprint The genome-wide localization of Rsc9, a component of the RSC chromatin-remodeling complex, changes in response to stress
    Marc Damelin
    Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115, USA
    Mol Cell 9:563-73. 2002
    ..Our results illustrate the response of a chromatin-remodeling factor to signaling cascades and suggest that changes in the activity of chromatin-remodeling factors are reflected in changes in their localization in the genome...
  46. pmc Genome-wide analysis of the H3K4 histone demethylase RBP2 reveals a transcriptional program controlling differentiation
    Nuria Lopez-Bigas
    Research Unit on Biomedical Informatics, Experimental and Health Science Department, Universitat Pompeu Fabra, Barcelona 08080, Spain
    Mol Cell 31:520-30. 2008
    ..We conclude that, during differentiation, RBP2 exerts inhibitory effects on multiple genes through direct interaction with their promoters...
  47. pmc Global and gene-specific analyses show distinct roles for Myod and Myog at a common set of promoters
    Yi Cao
    Fred Hutchinson Cancer Research Center, Seattle, WA 98109 1024, USA
    EMBO J 25:502-11. 2006
    ..Therefore, the role of Myog in mediating terminal differentiation is, in part, to enhance expression of a subset of genes previously initiated by Myod...
  48. pmc Systematic analysis of essential yeast TAFs in genome-wide transcription and preinitiation complex assembly
    Wu Cheng Shen
    Howard Hughes Medical Institute, Programs in Gene Function and Expression and Molecular Medicine, University of Massachusetts Medical School, Worcester, MA 01605, USA
    EMBO J 22:3395-402. 2003
    ..Collectively, our results confirm and extend the proposal that individual TAFs have selective transcriptional roles and distinct functions...
  49. pmc Transcriptional activating regions target a cyclin-dependent kinase
    Aseem Z Ansari
    Program in Molecular Biology, Sloan Kettering Institute, Memorial Sloan Kettering Cancer Center, New York, NY 10021, USA
    Proc Natl Acad Sci U S A 99:14706-9. 2002
    ..The interaction evidently positions each activator, as it activates transcription, so that it gets phosphorylated by SRB10, and thus a common mechanism targets disparate substrates to the kinase...
  50. pmc Genome-wide location and regulated recruitment of the RSC nucleosome-remodeling complex
    Huck Hui Ng
    Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, Massachusetts 02115, USA
    Genes Dev 16:806-19. 2002
    ..Therefore, the RSC complex is generally recruited to Pol III promoters and it is specifically recruited to Pol II promoters by transcriptional activators and repressors...
  51. ncbi request reprint Targeted recruitment of Set1 histone methylase by elongating Pol II provides a localized mark and memory of recent transcriptional activity
    Huck Hui Ng
    Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115, USA
    Mol Cell 11:709-19. 2003
    ....
  52. pmc Rapid analysis of the DNA-binding specificities of transcription factors with DNA microarrays
    Sonali Mukherjee
    Division of Genetics, Department of Medicine, Harvard Medical School Boston Massachusetts 02115, USA
    Nat Genet 36:1331-9. 2004
    ..Similar PBM experiments should be useful in identifying new cis regulatory elements and transcriptional regulatory networks in various genomes...
  53. pmc Transcriptional regulatory networks downstream of TAL1/SCL in T-cell acute lymphoblastic leukemia
    Teresa Palomero
    Institute for Cancer Genetics, Columbia University, 1150 St Nicholas Ave, New York, NY 10032, USA
    Blood 108:986-92. 2006
    ..Our results indicate that TAL1 may act as a bifunctional transcriptional regulator (activator and repressor) at the top of a complex regulatory network that disrupts normal T-cell homeostasis and contributes to leukemogenesis...
  54. ncbi request reprint Evidence for an instructive mechanism of de novo methylation in cancer cells
    Ilana Keshet
    Department of Cellular Biochemistry and Human Genetics, Hebrew University, Jerusalem, Israel
    Nat Genet 38:149-53. 2006
    ..In addition, many are already repressed in normal cells. These results are consistent with the hypothesis that cancer-related de novo methylation may come about through an instructive mechanism...
  55. pmc Cell cycle genes are the evolutionarily conserved targets of the E2F4 transcription factor
    Caitlin M Conboy
    Cancer Research UK Cambridge Research Institute, Li Ka Shing Centre, Cambridge, United Kingdom
    PLoS ONE 2:e1061. 2007
    ..Thus, the regulatory mechanisms maintaining quiescence are robust even to complete loss of conserved transcription factor binding events...
  56. ncbi request reprint HIV-1 Tat reprograms immature dendritic cells to express chemoattractants for activated T cells and macrophages
    Elena Izmailova
    Department of Medicine, Children s Hospital, and Harvard Medical School, Boston, Massachusetts, USA
    Nat Med 9:191-7. 2003
    ..These results show that HIV-1 Tat reprograms host dendritic cell gene expression to facilitate expansion of HIV-1 infection...
  57. pmc NOTCH1 directly regulates c-MYC and activates a feed-forward-loop transcriptional network promoting leukemic cell growth
    Teresa Palomero
    Institute for Cancer Genetics and Joint Centers for Systems Biology, Columbia University, New York, NY 10032, USA
    Proc Natl Acad Sci U S A 103:18261-6. 2006
    ..These results identify c-MYC as an essential mediator of NOTCH1 signaling and integrate NOTCH1 activation with oncogenic signaling pathways upstream of c-MYC...
  58. ncbi request reprint Binding of pRB to the PHD protein RBP2 promotes cellular differentiation
    Elizaveta V Benevolenskaya
    Dana Farber Cancer Institute and Brigham and Women s Hospital, Harvard Medical School, Boston, Massachusetts 02115, USA
    Mol Cell 18:623-35. 2005
    ..Our results suggest that promotion of differentiation by pRB involves neutralization of free RBP2 and transcriptional activation of RBP2 targets linked to euchromatin maintenance...

Research Grants57

  1. Transcriptional Regulatory Networks in Living Cells
    Richard A Young; Fiscal Year: 2010
    ..Embryonic stem cells hold enormous potential for diverse medical applications and improved understanding of regulatory circuitry from these studies should facilitate efforts to manipulate cell fates for regenerative medicine. ..
  2. Epigenomic Mapping in Human Tumor Stem Cells
    RICHARD A contact YOUNG; Fiscal Year: 2010
    ..Manipulating the epigenomic state and examining the results on tumorigenicity would provide direct insight on how these signatures translate into clinically relevant phenotypes. ..
  3. Biological Discovery Using Diverse High-Throughput Data
    Richard Young; Fiscal Year: 2004
    ..Consequently, this meeting should be uniquely important for graduate students, postdocs and other researchers who future careers will involve these interdisciplinary efforts. ..
  4. GENETIC AND BIOCHEMICAL ANALYSIS OF YEAST RNA POLYMERASE
    Richard Young; Fiscal Year: 2004
    ..The health relatedness of this project devices from its contribution to the understanding of the fundamental mechanisms that control gene expression. ..
  5. CTL INDUCTION STRATEGIES FOR AIDS VACCINES
    Richard Young; Fiscal Year: 2002
    ..Norman Letvin (Subcontract with Beth Israel Deaconess Medical Center), and for protection against a live challenge with SIV in collaboration with Dr. Michael Wyand (Subcontract with GTC Mason Laboratories). ..
  6. TAFS AND GENERAL TRANSCRIPTION FACTORS IN YEAST
    Richard Young; Fiscal Year: 2001
    ..cerevisiae using biochemical approaches, 4) to study the transcriptional functions of the TBP-binding proteins using wild-type and mutant proteins in transcription systems in vitro. ..
  7. Epigenomic Mapping in Human Tumor Stem Cells
    Richard Young; Fiscal Year: 2009
    ....
  8. Transcriptional Regulatory Networks in Living Cells
    Richard Young; Fiscal Year: 2009
    ....
  9. Transcriptional Regulatory Network in Living Cells
    Richard Young; Fiscal Year: 2006
    ..abstract_text> ..
  10. Transcriptional Regulatory Networks in Living Cells
    Richard Young; Fiscal Year: 2007
    ....
  11. Genomic Regulatory Networks in Innate Immune Cells
    Richard Young; Fiscal Year: 2007
    ....
  12. Human Cell Cycle Transcriptional Regulatory Networks
    Richard Young; Fiscal Year: 2006
    ..abstract_text> ..
  13. Transcriptional Regulatory Networks in Pancreatic Islets
    Richard Young; Fiscal Year: 2005
    ..Dr. Bell's laboratory will provide knowledge in beta-cell biology and expertise in isolating mouse islets and culturing beta-cell lines. ..
  14. GENETIC AND BIOCHEMICAL ANALYSIS OF YEAST RNA POLYMERASE
    Richard Young; Fiscal Year: 2000
    ..The health relatedness of this project derives from its contribution to the understanding of basic molecular mechanisms that control gene expression. ..
  15. TAFS AND GENERAL TRANSCRIPTION FACTORS IN YEAST
    Richard Young; Fiscal Year: 1993
    ..The health relatedness of this research derives from its contribution to the understanding of the basic molecular mechanisms that control gene expression...
  16. GENETIC AND BIOCHEMICAL ANALYSIS OF YEAST RNA POLYMERASE
    Richard Young; Fiscal Year: 1992
    ..The health relatedness of this project derives from its contribution to the understanding of the basic molecular mechanisms which control gene expression...
  17. GENETIC AND BIOCHEMICAL ANALYSIS OF YEAST RNA POLYMERASE
    Richard Young; Fiscal Year: 1993
    ..The health relatedness of this project derives from its contribution to the understanding of basic molecular mechanisms that control gene expression...