Axel Visel

Summary

Affiliation: Lawrence Berkeley National Laboratory
Country: USA

Publications

  1. pmc Differences in enhancer activity in mouse and zebrafish reporter assays are often associated with changes in gene expression
    Ana Ariza-Cosano
    Centro Andaluz de Biologia del Desarrollo CABD, CSIC Universidad Pablo de Olavide Junta de Andalucía, Ctra Utrera km 1, Seville 41013, Spain
    BMC Genomics 13:713. 2012
  2. pmc De novo transcriptome assembly of drought tolerant CAM plants, Agave deserti and Agave tequilana
    Stephen M Gross
    DOE Joint Genome Institute, Walnut Creek, CA, USA
    BMC Genomics 14:563. 2013
  3. pmc A high-resolution enhancer atlas of the developing telencephalon
    Axel Visel
    Genomics Division, MS 84 171, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA
    Cell 152:895-908. 2013
  4. pmc Transcriptional control of axonal guidance and sorting in dorsal interneurons by the Lim-HD proteins Lhx9 and Lhx1
    Oshri Avraham
    Department of Medical Neurobiology, IMRIC, Hebrew University, Hadassah Medical School, Jerusalem, Israel
    Neural Dev 4:21. 2009
  5. pmc ChIP-Seq identification of weakly conserved heart enhancers
    Matthew J Blow
    Genomics Division, Lawrence Berkeley National Laboratory, Berkeley, California, USA
    Nat Genet 42:806-10. 2010
  6. pmc Human-specific gain of function in a developmental enhancer
    Shyam Prabhakar
    Genomics Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA
    Science 321:1346-50. 2008
  7. pmc Function-based identification of mammalian enhancers using site-specific integration
    Diane E Dickel
    Genomics Division, Lawrence Berkeley National Laboratory, Berkeley, California, USA
    Nat Methods 11:566-71. 2014
  8. pmc Rapid and pervasive changes in genome-wide enhancer usage during mammalian development
    Alex S Nord
    Genomics Division, MS 84 171, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA
    Cell 155:1521-31. 2013
  9. pmc Large-scale discovery of enhancers from human heart tissue
    Dalit May
    Genomics Division, Lawrence Berkeley National Laboratory, Berkeley, California, USA
    Nat Genet 44:89-93. 2012
  10. pmc Functional autonomy of distant-acting human enhancers
    Axel Visel
    Genomics Division, MS 84 171, Lawrence Berkeley National Laboratory, Berkeley, CA 94720 USA
    Genomics 93:509-13. 2009

Collaborators

Detail Information

Publications20

  1. pmc Differences in enhancer activity in mouse and zebrafish reporter assays are often associated with changes in gene expression
    Ana Ariza-Cosano
    Centro Andaluz de Biologia del Desarrollo CABD, CSIC Universidad Pablo de Olavide Junta de Andalucía, Ctra Utrera km 1, Seville 41013, Spain
    BMC Genomics 13:713. 2012
    ..While isolated examples of trans-changes have been identified, the scale of their overall contribution to regulatory and phenotypic evolution remains unclear...
  2. pmc De novo transcriptome assembly of drought tolerant CAM plants, Agave deserti and Agave tequilana
    Stephen M Gross
    DOE Joint Genome Institute, Walnut Creek, CA, USA
    BMC Genomics 14:563. 2013
    ..However, the lack of comprehensive Agave sequence datasets limits the scope of investigations into the molecular-genetic basis of Agave traits...
  3. pmc A high-resolution enhancer atlas of the developing telencephalon
    Axel Visel
    Genomics Division, MS 84 171, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA
    Cell 152:895-908. 2013
    ..These data provide a primary resource for investigating gene regulatory mechanisms of telencephalon development and enable studies of the role of distant-acting enhancers in neurodevelopmental disorders...
  4. pmc Transcriptional control of axonal guidance and sorting in dorsal interneurons by the Lim-HD proteins Lhx9 and Lhx1
    Oshri Avraham
    Department of Medical Neurobiology, IMRIC, Hebrew University, Hadassah Medical School, Jerusalem, Israel
    Neural Dev 4:21. 2009
    ..While they are not required for cell fate acquisition, their role in patterning the axonal trajectory of dI1 and dI2 neurons remains incompletely understood...
  5. pmc ChIP-Seq identification of weakly conserved heart enhancers
    Matthew J Blow
    Genomics Division, Lawrence Berkeley National Laboratory, Berkeley, California, USA
    Nat Genet 42:806-10. 2010
    ..These results provide evidence for a large population of poorly conserved heart enhancers and suggest that the evolutionary conservation of embryonic enhancers can vary depending on tissue type...
  6. pmc Human-specific gain of function in a developmental enhancer
    Shyam Prabhakar
    Genomics Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA
    Science 321:1346-50. 2008
    ....
  7. pmc Function-based identification of mammalian enhancers using site-specific integration
    Diane E Dickel
    Genomics Division, Lawrence Berkeley National Laboratory, Berkeley, California, USA
    Nat Methods 11:566-71. 2014
    ..SIF-seq is a powerful and flexible method for de novo functional identification of mammalian enhancers in a potentially wide variety of cell types. ..
  8. pmc Rapid and pervasive changes in genome-wide enhancer usage during mammalian development
    Alex S Nord
    Genomics Division, MS 84 171, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA
    Cell 155:1521-31. 2013
    ..The dynamic enhancer activities uncovered in this study illuminate rapid and pervasive temporal in vivo changes in enhancer usage that underlie processes central to development and disease. ..
  9. pmc Large-scale discovery of enhancers from human heart tissue
    Dalit May
    Genomics Division, Lawrence Berkeley National Laboratory, Berkeley, California, USA
    Nat Genet 44:89-93. 2012
    ....
  10. pmc Functional autonomy of distant-acting human enhancers
    Axel Visel
    Genomics Division, MS 84 171, Lawrence Berkeley National Laboratory, Berkeley, CA 94720 USA
    Genomics 93:509-13. 2009
    ..These data indicate that human developmental enhancers are highly modular and functionally autonomous and suggest that genomic enhancer shuffling may have contributed to the evolution of complex gene expression patterns in vertebrates...
  11. pmc Fine tuning of craniofacial morphology by distant-acting enhancers
    Catia Attanasio
    Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA
    Science 342:1241006. 2013
    ..These results demonstrate that enhancers are involved in craniofacial development and suggest that enhancer sequence variation contributes to the diversity of human facial morphology. ..
  12. pmc Targeted deletion of the 9p21 non-coding coronary artery disease risk interval in mice
    Axel Visel
    Genomics Division, MS 84 171, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
    Nature 464:409-12. 2010
    ....
  13. pmc ChIP-seq accurately predicts tissue-specific activity of enhancers
    Axel Visel
    Genomics Division, MS 84 171, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
    Nature 457:854-8. 2009
    ....
  14. pmc Tissue-specific SMARCA4 binding at active and repressed regulatory elements during embryogenesis
    Catia Attanasio
    Genomics Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
    Genome Res 24:920-9. 2014
    ..Our results indicate a dual active/repressive function of SMARCA4 at distal regulatory sequences in vivo and support its role in tissue-specific gene regulation during embryonic development. ..
  15. pmc Genomic views of distant-acting enhancers
    Axel Visel
    Genomics Division, MS 84 171, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
    Nature 461:199-205. 2009
    ..Genome-wide approaches to their discovery and functional characterization are now available and provide a growing knowledge base for the systematic exploration of their role in human biology and disease susceptibility...
  16. pmc Ultraconservation identifies a small subset of extremely constrained developmental enhancers
    Axel Visel
    Genomics Division, MS 84 171, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
    Nat Genet 40:158-60. 2008
    ..Developmental enhancers were equally prevalent in both populations, suggesting instead that ultraconservation identifies a small, functionally indistinct subset of similarly constrained cis-regulatory elements...
  17. ncbi request reprint Stop codon reassignments in the wild
    Natalia N Ivanova
    Department of Energy Joint Genome Institute DOE JGI, Walnut Creek, CA 94598, USA
    Science 344:909-13. 2014
    ....
  18. pmc Use of "MGE enhancers" for labeling and selection of embryonic stem cell-derived medial ganglionic eminence (MGE) progenitors and neurons
    Ying Jiun J Chen
    Department of Psychiatry and the Nina Ireland Laboratory of Developmental Neurobiology, University of California San Francisco, San Francisco, CA, USA
    PLoS ONE 8:e61956. 2013
    ..These data demonstrate unique techniques to follow and purify MGE-like derivatives from ES cells, including GABAergic cortical interneurons and oligodendrocytes, for use in stem cell-based therapeutic assays and treatments...
  19. doi request reprint Metagenomic discovery of biomass-degrading genes and genomes from cow rumen
    Matthias Hess
    Department of Energy, Joint Genome Institute, Walnut Creek, CA 94598, USA
    Science 331:463-7. 2011
    ..These data sets provide a substantially expanded catalog of genes and genomes participating in the deconstruction of cellulosic biomass...
  20. pmc Deletion of ultraconserved elements yields viable mice
    Nadav Ahituv
    Genomics Division, Lawrence Berkeley National Laboratory, Berkeley, California, United States of America
    PLoS Biol 5:e234. 2007
    ..These results, while not inclusive of all the possible phenotypic impact of the deleted sequences, indicate that extreme sequence constraint does not necessarily reflect crucial functions required for viability...