Research Topics
| Shyam PrabhakarSummaryAffiliation: Lawrence Berkeley National Laboratory Country: USA Publications
| Collaborators
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Detail Information
Publications
The DNA sequence and comparative analysis of human chromosome 5Jeremy Schmutz
Stanford Human Genome Center, Department of Genetics, Stanford University School of Medicine, 975 California Ave, Palo Alto, California 94304, USA
Nature 431:268-74. 2004..These duplications are very recent evolutionary events and probably have a mechanistic role in human physiological variation, as deletions in these regions are the cause of debilitating disorders including spinal muscular atrophy...
Close sequence comparisons are sufficient to identify human cis-regulatory elementsShyam Prabhakar
Genomics Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
Genome Res 16:855-63. 2006..Lastly, we determined that, in addition to strength of conservation, genomic location and/or density of surrounding conserved elements must also be considered in selecting candidate enhancers for in vivo testing at embryonic time points...- Human-specific gain of function in a developmental enhancerShyam Prabhakar
Genomics Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA
Science 321:1346-50. 2008.... - Detection of weakly conserved ancestral mammalian regulatory sequences by primate comparisonsQian Fei Wang
Genomics Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
Genome Biol 8:R1. 2007..However, these methods fail to detect functional elements that are too weakly conserved among mammals to distinguish them from non-functional DNA... - Ultraconservation identifies a small subset of extremely constrained developmental enhancersAxel 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... - Mapping cis-regulatory domains in the human genome using multi-species conservation of syntenyNadav Ahituv
Genomics Division, Lawrence Berkeley National Laboratory, CA 94720, USA
Hum Mol Genet 14:3057-63. 2005..Our results provide an extensive data set characterizing the regulatory domains of genes and the conserved regulatory elements within them... - In vivo enhancer analysis of human conserved non-coding sequencesLen A Pennacchio
US Department of Energy Joint Genome Institute, Walnut Creek, California 94598, USA
Nature 444:499-502. 2006.... - Primate-specific evolution of an LDLR enhancerQian Fei Wang
Genomics Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
Genome Biol 7:R68. 2006..Sequence changes in regulatory regions have often been invoked to explain phenotypic divergence among species, but molecular examples of this have been difficult to obtain... - Accelerated evolution of conserved noncoding sequences in humansShyam Prabhakar
U.S. Department of Energy (DOE) Joint Genome Institute, Walnut Creek, CA 94598, USA
Science 314:786. 2006..CNSs accelerated in mouse showed no bias toward neuronal cell adhesion. Our results indicate that widespread cis-regulatory changes in human evolution may have contributed to uniquely human features of brain development and function... - Annotation of cis-regulatory elements by identification, subclassification, and functional assessment of multispecies conserved sequencesJim R Hughes
Medical Research Council Molecular Haematology Unit, Weatherall Institute of Molecular Medicine, John Radcliffe Hospital, Headington, Oxford OX3 9DS, United Kingdom
Proc Natl Acad Sci U S A 102:9830-5. 2005..Together, these studies demonstrate an integrated approach by which to identify, subclassify, and predict the potential importance of MCSs... - The sequence and analysis of duplication-rich human chromosome 16Joel Martin
DOE Joint Genome Institute, 2800 Mitchell Avenue, Walnut Creek, California 94598, USA
Nature 432:988-94. 2004....