James R Lupski

Summary

Affiliation: Baylor College of Medicine
Country: USA

Publications

  1. doi request reprint Digenic inheritance and Mendelian disease
    James R Lupski
    Department of Molecular and Human Genetics and the Department of Pediatrics at the Baylor College of Medicine, Houston, Texas, USA
    Nat Genet 44:1291-2. 2012
  2. pmc Clan genomics and the complex architecture of human disease
    James R Lupski
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA
    Cell 147:32-43. 2011
  3. pmc Genomic disorders ten years on
    James R Lupski
    Departments of Molecular and Human Genetics, and Pediatrics, Baylor College of Medicine, and Texas Children s Hospital, Houston, TX 77030, USA
    Genome Med 1:42. 2009
  4. pmc Recurrent reciprocal 16p11.2 rearrangements associated with global developmental delay, behavioural problems, dysmorphism, epilepsy, and abnormal head size
    Marwan Shinawi
    Department of Molecular and Human Genetics, Baylor College of Medicine, One Baylor Plaza, NAB 2015, Houston, Texas 77030, USA
    J Med Genet 47:332-41. 2010
  5. doi request reprint Comparison of chromosome analysis and chromosomal microarray analysis: what is the value of chromosome analysis in today's genomic array era?
    Weimin Bi
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas, USA
    Genet Med 15:450-7. 2013
  6. pmc Replicative mechanisms for CNV formation are error prone
    Claudia M B Carvalho
    1 Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas, USA 2 Centro de Pesquisas René Rachou FIOCRUZ, Belo Horizonte, Brazil
    Nat Genet 45:1319-26. 2013
  7. pmc Copy number gain at Xp22.31 includes complex duplication rearrangements and recurrent triplications
    Pengfei Liu
    Department of Molecular and Human Genetics, Baylor College of Medicine, One Baylor Plaza, Room 604B, Houston, TX 77030, USA
    Hum Mol Genet 20:1975-88. 2011
  8. pmc TM4SF20 ancestral deletion and susceptibility to a pediatric disorder of early language delay and cerebral white matter hyperintensities
    Wojciech Wiszniewski
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA
    Am J Hum Genet 93:197-210. 2013
  9. doi request reprint Prenatal chromosomal microarray analysis in a diagnostic laboratory; experience with >1000 cases and review of the literature
    Amy Breman
    Medical Genetics Laboratories, Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX, USA
    Prenat Diagn 32:351-61. 2012
  10. pmc Exome capture sequencing identifies a novel mutation in BBS4
    Hui Wang
    Human Genome Sequencing Center, Baylor College of Medicine, Houston, TX, USA
    Mol Vis 17:3529-40. 2011

Detail Information

Publications105 found, 100 shown here

  1. doi request reprint Digenic inheritance and Mendelian disease
    James R Lupski
    Department of Molecular and Human Genetics and the Department of Pediatrics at the Baylor College of Medicine, Houston, Texas, USA
    Nat Genet 44:1291-2. 2012
    ..A new study identifies a role for digenic inheritance and an epigenetic modifier in facioscapulohumeral muscular dystrophy type 2...
  2. pmc Clan genomics and the complex architecture of human disease
    James R Lupski
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA
    Cell 147:32-43. 2011
    ..One implication of this realization is that recent mutation may have a greater influence on disease susceptibility or protection than is conferred by variations that arose in distant ancestors...
  3. pmc Genomic disorders ten years on
    James R Lupski
    Departments of Molecular and Human Genetics, and Pediatrics, Baylor College of Medicine, and Texas Children s Hospital, Houston, TX 77030, USA
    Genome Med 1:42. 2009
    ..Similarly, the ability to perform high-resolution human genome analysis has fueled the current and future clinical implementation of such discoveries in the evolving field of genome medicine...
  4. pmc Recurrent reciprocal 16p11.2 rearrangements associated with global developmental delay, behavioural problems, dysmorphism, epilepsy, and abnormal head size
    Marwan Shinawi
    Department of Molecular and Human Genetics, Baylor College of Medicine, One Baylor Plaza, NAB 2015, Houston, Texas 77030, USA
    J Med Genet 47:332-41. 2010
    ..Deletion and the reciprocal duplication in 16p11.2 were recently associated with autism and developmental delay...
  5. doi request reprint Comparison of chromosome analysis and chromosomal microarray analysis: what is the value of chromosome analysis in today's genomic array era?
    Weimin Bi
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas, USA
    Genet Med 15:450-7. 2013
    ..In the era of genomic arrays, the value of traditional chromosome analysis needs to be reassessed...
  6. pmc Replicative mechanisms for CNV formation are error prone
    Claudia M B Carvalho
    1 Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas, USA 2 Centro de Pesquisas René Rachou FIOCRUZ, Belo Horizonte, Brazil
    Nat Genet 45:1319-26. 2013
    ..Our findings implicate low-fidelity, error-prone DNA polymerase activity in synthesis associated with DNA repair mechanisms as the cause of local increase in point mutation burden associated with human CGR...
  7. pmc Copy number gain at Xp22.31 includes complex duplication rearrangements and recurrent triplications
    Pengfei Liu
    Department of Molecular and Human Genetics, Baylor College of Medicine, One Baylor Plaza, Room 604B, Houston, TX 77030, USA
    Hum Mol Genet 20:1975-88. 2011
    ..Our findings reveal the distribution of different mechanisms for genomic duplication rearrangements at a given locus, and provide insights into aspects of strand exchange events between paralogous sequences in the human genome...
  8. pmc TM4SF20 ancestral deletion and susceptibility to a pediatric disorder of early language delay and cerebral white matter hyperintensities
    Wojciech Wiszniewski
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA
    Am J Hum Genet 93:197-210. 2013
    ....
  9. doi request reprint Prenatal chromosomal microarray analysis in a diagnostic laboratory; experience with >1000 cases and review of the literature
    Amy Breman
    Medical Genetics Laboratories, Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX, USA
    Prenat Diagn 32:351-61. 2012
    ..To evaluate the results of prenatal chromosomal microarray analysis (CMA) on >1000 fetal samples referred for testing at our institution and to compare these data to published reports...
  10. pmc Exome capture sequencing identifies a novel mutation in BBS4
    Hui Wang
    Human Genome Sequencing Center, Baylor College of Medicine, Houston, TX, USA
    Mol Vis 17:3529-40. 2011
    ..The purpose of this study was to identify a novel LCA disease allele or gene and to develop an approach combining genetic mapping with whole exome sequencing...
  11. pmc Chromosome catastrophes involve replication mechanisms generating complex genomic rearrangements
    Pengfei Liu
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA
    Cell 146:889-903. 2011
    ..The resemblance between CGR and chromothripsis suggests similar mechanistic underpinnings. Such chromosome catastrophic events appear to reflect basic DNA metabolism operative throughout an organism's life cycle...
  12. pmc Incidental copy-number variants identified by routine genome testing in a clinical population
    Philip M Boone
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas, USA
    Genet Med 15:45-54. 2013
    ..Mutational load of susceptibility variants has not been studied on a genomic scale in a clinical population, nor has the potential to identify these mutations as incidental findings during clinical testing been systematically ascertained...
  13. pmc Human subtelomeric copy number gains suggest a DNA replication mechanism for formation: beyond breakage-fusion-bridge for telomere stabilization
    Svetlana A Yatsenko
    Department of Molecular and Human Genetics, Baylor College of Medicine, One Baylor Plaza, Room 604B, Houston, TX 77030, USA
    Hum Genet 131:1895-910. 2012
    ..The end-replication challenges of subtelomeric genomic intervals may make them particularly prone to rearrangements generated by errors in DNA replication...
  14. ncbi request reprint Detection of ≥1Mb microdeletions and microduplications in a single cell using custom oligonucleotide arrays
    Weimin Bi
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX, USA
    Prenat Diagn 32:10-20. 2012
    ..Our objective is to develop a reliable array comparative genomic hybridization (CGH) platform to detect genomic imbalances as small as ~1Mb ina single cell...
  15. pmc Rare DNA copy number variants in cardiovascular malformations with extracardiac abnormalities
    Seema R Lalani
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA
    Eur J Hum Genet 21:173-81. 2013
    ..Our findings implicate rare variants such as 16q24.3 loss and 2q31.3-q32.1 loss, and delineate regions within previously reported structural variants known to cause CVMs...
  16. pmc Genomic imbalances in neonates with birth defects: high detection rates by using chromosomal microarray analysis
    Xin Yan Lu
    Baylor College of Medicine, Department of Molecular and Human Genetics, One Baylor Plaza, NAB 2015, Houston, TX 77030, USA
    Pediatrics 122:1310-8. 2008
    ..Our aim was to determine the frequency of genomic imbalances in neonates with birth defects by using targeted array-based comparative genomic hybridization, also known as chromosomal microarray analysis...
  17. pmc A syndrome of short stature, microcephaly and speech delay is associated with duplications reciprocal to the common Sotos syndrome deletion
    Luis M Franco
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA
    Eur J Hum Genet 18:258-61. 2010
    ..The phenotype is remarkably opposite to that of Sotos syndrome, suggesting a role for NSD1 in the regulation of somatic growth in humans...
  18. pmc Identification of uncommon recurrent Potocki-Lupski syndrome-associated duplications and the distribution of rearrangement types and mechanisms in PTLS
    Feng Zhang
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA
    Am J Hum Genet 86:462-70. 2010
    ..2 duplication types in PTLS reveal insights into both the contributions of new mutations and the different underlying mechanisms that generate genomic rearrangements causing genomic disorders...
  19. pmc Insertional translocation detected using FISH confirmation of array-comparative genomic hybridization (aCGH) results
    Sung Hae L Kang
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA
    Am J Med Genet A 152:1111-26. 2010
    ..We hypothesize that the increased use of aCGH in the clinic will demonstrate that IT occurs more frequently than previously considered but can identify genomic rearrangements with unclear clinical significance...
  20. pmc A partial MECP2 duplication in a mildly affected adult male: a putative role for the 3' untranslated region in the MECP2 duplication phenotype
    Neil A Hanchard
    Department of Molecular and Human Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX 77030, USA
    BMC Med Genet 13:71. 2012
    ..Most carrier females show complete skewing of X-inactivation in peripheral blood and an apparent susceptibility to specific personality traits or neuropsychiatric symptoms...
  21. pmc NIPBL rearrangements in Cornelia de Lange syndrome: evidence for replicative mechanism and genotype-phenotype correlation
    Davut Pehlivan
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas, USA
    Genet Med 14:313-22. 2012
    ..The molecular etiology of a significant fraction of CdLS cases remains unknown. We hypothesized that large genomic rearrangements of cohesin complex subunit genes may play a role in the molecular etiology of this disorder...
  22. pmc Autism and other neuropsychiatric symptoms are prevalent in individuals with MeCP2 duplication syndrome
    Melissa B Ramocki
    Section of Child Neurology and Developmental Neuroscience, Department of Pediatrics, Baylor College of Medicine, Houston, TX, USA
    Ann Neurol 66:771-82. 2009
    ..This study characterizes the clinical and neuropsychiatric phenotypes of affected boys and carrier females...
  23. pmc Mechanisms for nonrecurrent genomic rearrangements associated with CMT1A or HNPP: rare CNVs as a cause for missing heritability
    Feng Zhang
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA
    Am J Hum Genet 86:892-903. 2010
    ..Rare CNVs may potentially represent an important portion of "missing heritability" for human diseases...
  24. doi request reprint Deletion and duplication of 15q24: molecular mechanisms and potential modification by additional copy number variants
    Ayman W El-Hattab
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA
    Genet Med 12:573-86. 2010
    ..To investigate the potential influence of additional copy number variants in patients with 15q24 rearrangements and the possible underlying mechanisms for these rearrangements...
  25. pmc Observation and prediction of recurrent human translocations mediated by NAHR between nonhomologous chromosomes
    Zhishuo Ou
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA
    Genome Res 21:33-46. 2011
    ..Furthermore, we provide a computationally determined genome-wide "recurrent translocation map."..
  26. pmc Clinical implementation of chromosomal microarray analysis: summary of 2513 postnatal cases
    Xinyan Lu
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas, United States of America
    PLoS ONE 2:e327. 2007
    ..We report our experience with the clinical implementation of this high resolution human genome analysis, referred to as Chromosomal Microarray Analysis (CMA)...
  27. pmc Mechanisms for recurrent and complex human genomic rearrangements
    Pengfei Liu
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA
    Curr Opin Genet Dev 22:211-20. 2012
    ..Both nonhomologous end-joining and aberrant replication have significant roles in chromothripsis. As we study CNV, the processes underlying human genome evolution are revealed...
  28. doi request reprint What have studies of genomic disorders taught us about our genome?
    Alexandra D Simmons
    Biology Department, University of St Thomas, Houston, TX, USA
    Methods Mol Biol 838:1-27. 2012
    ..This leads to a greater understanding of the effects of rearrangements present both in healthy subjects and individuals with clinically relevant phenotypes...
  29. pmc Alu-specific microhomology-mediated deletion of the final exon of SPAST in three unrelated subjects with hereditary spastic paraplegia
    Philip M Boone
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA
    Genet Med 13:582-92. 2011
    ..The full spectrum of SPAST mutations causing SPG4 and their mechanisms of formation remain to be determined...
  30. pmc Interstitial deletion of 6q25.2-q25.3: a novel microdeletion syndrome associated with microcephaly, developmental delay, dysmorphic features and hearing loss
    Sandesh Chakravarthy Sreenath Nagamani
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA
    Eur J Hum Genet 17:573-81. 2009
    ..2-q25.3 region was deleted in all four cases. We hypothesize that a subset of genes in the commonly deleted region are dosage sensitive and that haploinsufficieny of these genes impairs normal development of the brain and hearing...
  31. pmc A microhomology-mediated break-induced replication model for the origin of human copy number variation
    P J Hastings
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas, United States of America
    PLoS Genet 5:e1000327. 2009
    ....
  32. pmc Frequency of nonallelic homologous recombination is correlated with length of homology: evidence that ectopic synapsis precedes ectopic crossing-over
    Pengfei Liu
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA
    Am J Hum Genet 89:580-8. 2011
    ..To explain this, we propose that the probability of ectopic chromosome synapsis increases with increased LCR length, and that ectopic synapsis is a necessary precursor to ectopic crossing-over...
  33. pmc Evolution in health and medicine Sackler colloquium: Genomic disorders: a window into human gene and genome evolution
    Claudia M B Carvalho
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA
    Proc Natl Acad Sci U S A 107:1765-71. 2010
    ....
  34. pmc Microarray-based comparative genomic hybridization using sex-matched reference DNA provides greater sensitivity for detection of sex chromosome imbalances than array-comparative genomic hybridization with sex-mismatched reference DNA
    Svetlana A Yatsenko
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA
    J Mol Diagn 11:226-37. 2009
    ....
  35. pmc Deletions of recessive disease genes: CNV contribution to carrier states and disease-causing alleles
    Philip M Boone
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA
    Genome Res 23:1383-94. 2013
    ..We provide further evidence that CNVs contribute to the allelic architecture of both carrier and recessive disease-causing mutations. Thus, a complete recessive carrier screening method or diagnostic test should detect CNV alleles. ..
  36. pmc Combined array CGH plus SNP genome analyses in a single assay for optimized clinical testing
    Joanna Wiszniewska
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX, USA
    Eur J Hum Genet 22:79-87. 2014
    ..Thus, combining SNP probes and exon-targeted array CGH into one platform provides clinically useful genetic screening in an efficient manner. ..
  37. pmc Fusion of large-scale genomic knowledge and frequency data computationally prioritizes variants in epilepsy
    Ian M Campbell
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas, United States of America
    PLoS Genet 9:e1003797. 2013
    ..We propose a potential use in clinical decision support for our results in the context of genome-wide screening. Our approach demonstrates the utility of integrative data in medical genomics. ..
  38. pmc Small rare recurrent deletions and reciprocal duplications in 2q21.1, including brain-specific ARHGEF4 and GPR148
    Avinash V Dharmadhikari
    Department of Molecular and Human Genetics, Baylor College of Medicine, One Baylor Plaza, Room R809, Houston, TX 77030, USA
    Hum Mol Genet 21:3345-55. 2012
    ....
  39. doi request reprint Co-occurrence of recurrent duplications of the DiGeorge syndrome region on both chromosome 22 homologues due to inherited and de novo events
    Weimin Bi
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas, USA
    J Med Genet 49:681-8. 2012
    ..The reciprocal duplication is associated with an extremely variable phenotype, ranging from apparently normal to learning disabilities and multiple congenital anomalies...
  40. pmc Redefined genomic architecture in 15q24 directed by patient deletion/duplication breakpoint mapping
    Ayman W El-Hattab
    Department of Molecular and Human Genetics, Baylor College of Medicine, One Baylor Plaza, Rm R809, Houston, TX 77030, USA
    Hum Genet 126:589-602. 2009
    ....
  41. doi request reprint GJB1/Connexin 32 whole gene deletions in patients with X-linked Charcot-Marie-Tooth disease
    Claudia Gonzaga-Jauregui
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX, USA
    Neurogenetics 11:465-70. 2010
    ..In addition to PMP22, GJB1 is the second CMT gene for which both point mutations and genomic rearrangements can cause a neuropathy phenotype, stressing the importance of CMT as a genomic disorder...
  42. pmc Inverted genomic segments and complex triplication rearrangements are mediated by inverted repeats in the human genome
    Claudia M B Carvalho
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas, USA
    Nat Genet 43:1074-81. 2011
    ..We propose a mechanism that involves both homology-driven events, via inverted repeats, and microhomologous or nonhomologous events...
  43. doi request reprint Whole-genome sequencing in a patient with Charcot-Marie-Tooth neuropathy
    James R Lupski
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX, USA
    N Engl J Med 362:1181-91. 2010
    ..We therefore aimed to assess the usefulness of human whole-genome sequencing for genetic diagnosis in a patient with Charcot-Marie-Tooth disease...
  44. pmc Detection of clinically relevant exonic copy-number changes by array CGH
    Philip M Boone
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA
    Hum Mutat 31:1326-42. 2010
    ..In summary, we demonstrate the utility of a custom-designed, exon-targeted oligonucleotide array to detect intragenic copy-number changes in patients with various clinical phenotypes...
  45. pmc Complex rearrangements in patients with duplications of MECP2 can occur by fork stalling and template switching
    Claudia M B Carvalho
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA
    Hum Mol Genet 18:2188-203. 2009
    ....
  46. pmc Molecular mechanisms for subtelomeric rearrangements associated with the 9q34.3 microdeletion syndrome
    Svetlana A Yatsenko
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA
    Hum Mol Genet 18:1924-36. 2009
    ....
  47. doi request reprint The DNA replication FoSTeS/MMBIR mechanism can generate genomic, genic and exonic complex rearrangements in humans
    Feng Zhang
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX, USA
    Nat Genet 41:849-53. 2009
    ..The FoSTeS/MMBIR mechanism can explain both the gene duplication-divergence hypothesis and exon shuffling, suggesting an important role in both genome and single-gene evolution...
  48. doi request reprint Clinical whole-exome sequencing for the diagnosis of mendelian disorders
    Yaping Yang
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA
    N Engl J Med 369:1502-11. 2013
    ..Whole-exome sequencing is a diagnostic approach for the identification of molecular defects in patients with suspected genetic disorders...
  49. pmc NAHR-mediated copy-number variants in a clinical population: mechanistic insights into both genomic disorders and Mendelizing traits
    Piotr Dittwald
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA
    Genome Res 23:1395-409. 2013
    ..2q13, were elucidated in association with novel genomic disorders. Our study quantitates genome architectural features responsible for NAHR-mediated genomic instability and further elucidates the role of NAHR in human disease. ..
  50. pmc Genomic hypomethylation in the human germline associates with selective structural mutability in the human genome
    Jian Li
    Bioinformatics Research Laboratory, Epigenome Center, Baylor College of Medicine, Houston, Texas, United States of America
    PLoS Genet 8:e1002692. 2012
    ..These findings suggest a new connection between the epigenome, selective mutability, evolution, and human disease...
  51. pmc Cardiovascular findings in duplication 17p11.2 syndrome
    John L Jefferies
    Section of Pediatric Cardiology, Texas Children s Hospital, Houston, Texas, USA
    Genet Med 14:90-4. 2012
    ..Cardiovascular abnormalities are newly recognized features of duplication 17p11.2 syndrome. In a single-center study, we evaluated subjects with duplication 17p11.2 syndrome for cardiovascular abnormalities...
  52. pmc Transmembrane activator and CAML interactor (TACI) haploinsufficiency results in B-cell dysfunction in patients with Smith-Magenis syndrome
    Javier Chinen
    Department of Pediatrics, Baylor College of Medicine and Texas Children s Hospital, Houston, TX, USA
    J Allergy Clin Immunol 127:1579-86. 2011
    ..Eighty percent of subjects have a chromosome 17p11.2 microdeletion, which includes TACI. The remaining subjects have mutations sparing this gene...
  53. pmc Genomic medicine and neurological disease
    Philip M Boone
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA
    Hum Genet 130:103-21. 2011
    ..In addition to discussing current knowledge in this field, we offer suggestions for maximizing the utility of genomic information in clinical practice as the field of genomic medicine unfolds...
  54. doi request reprint Increased LIS1 expression affects human and mouse brain development
    Weimin Bi
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA
    Nat Genet 41:168-77. 2009
    ..Collectively, our results show that an increase in LIS1 expression in the developing brain results in brain abnormalities in mice and humans...
  55. doi request reprint Complex human chromosomal and genomic rearrangements
    Feng Zhang
    Department of Molecular and Human Genetics, Baylor College of Medicine, and Texas Children s Hospital, Houston, TX 77030, USA
    Trends Genet 25:298-307. 2009
    ....
  56. pmc Copy number variation at the breakpoint region of isochromosome 17q
    Claudia M B Carvalho
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA
    Genome Res 18:1724-32. 2008
    ..The variant REPA/B structures identified may have different susceptibilities for inducing i(17q), thus potentially representing important risk alleles for tumor progression...
  57. pmc Whole-genome sequencing for optimized patient management
    Matthew N Bainbridge
    Human Genome Sequencing Center, Baylor College of Medicine, Houston, TX 77030, USA
    Sci Transl Med 3:87re3. 2011
    ..Supplementation of l-dopa therapy with 5-hydroxytryptophan, a serotonin precursor, resulted in clinical improvements in both twins...
  58. pmc Clinical use of array comparative genomic hybridization (aCGH) for prenatal diagnosis in 300 cases
    Ignatia B Van den Veyver
    Department of Obstetrics and Gynecology, Baylor College of Medicine, Houston, TX 77030, USA
    Prenat Diagn 29:29-39. 2009
    ..To evaluate the use of array comparative genomic hybridization (aCGH) for prenatal diagnosis, including assessment of variants of uncertain significance, and the ability to detect abnormalities not detected by karyotype, and vice versa...
  59. pmc Structural variation of the human genome: mechanisms, assays, and role in male infertility
    Claudia M B Carvalho
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030 3498, USA
    Syst Biol Reprod Med 57:3-16. 2011
    ..We describe mechanisms underlying the formation of human genomic rearrangements on autosomes and review Y-chromosome deletions associated with male infertility...
  60. pmc Enriched rearing improves behavioral responses of an animal model for CNV-based autistic-like traits
    Melanie Lacaria
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA
    Hum Mol Genet 21:3083-96. 2012
    ....
  61. pmc Novel 9q34.11 gene deletions encompassing combinations of four Mendelian disease genes: STXBP1, SPTAN1, ENG, and TOR1A
    Ian M Campbell
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas, USA
    Genet Med 14:868-76. 2012
    ..A number of genes in the 9q34.11 region may be haploinsufficient. However, studies analyzing genotype-phenotype correlations of deletions encompassing multiple dosage-sensitive genes in the region are lacking...
  62. pmc A duplication CNV that conveys traits reciprocal to metabolic syndrome and protects against diet-induced obesity in mice and men
    Melanie Lacaria
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas, United States of America
    PLoS Genet 8:e1002713. 2012
    ....
  63. doi request reprint Whole-exome sequencing identifies ALMS1, IQCB1, CNGA3, and MYO7A mutations in patients with Leber congenital amaurosis
    Xia Wang
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA
    Hum Mutat 32:1450-9. 2011
    ..Thus, to obtain accurate diagnosis and gain a complete picture of the disease, it is essential to sequence a larger set of retinal disease genes and combine the clinical phenotype with molecular diagnosis...
  64. pmc Potocki-Lupski syndrome: a microduplication syndrome associated with oropharyngeal dysphagia and failure to thrive
    Claudia Soler-Alfonso
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA
    J Pediatr 158:655-659.e2. 2011
    ..2]. This study was designed to describe the growth characteristics of 24 subjects with PTLS from birth through age 5 years in conjunction with relevant physical features and swallow function studies...
  65. pmc Recurrent reciprocal 1q21.1 deletions and duplications associated with microcephaly or macrocephaly and developmental and behavioral abnormalities
    Nicola Brunetti-Pierri
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX, USA
    Nat Genet 40:1466-71. 2008
    ..These phenotypes are subject to incomplete penetrance and variable expressivity...
  66. doi request reprint Structural variation in the human genome and its role in disease
    Paweł Stankiewicz
    Department of Molecular, Baylor College of Medicine, Houston, Texas 77030, USA
    Annu Rev Med 61:437-55. 2010
    ..Both recombination- and replication-based mechanisms for CNV formation have been described...
  67. ncbi request reprint Role of genomic architecture in PLP1 duplication causing Pelizaeus-Merzbacher disease
    Jennifer A Lee
    Department of Molecular and Human Genetics, Baylor College of Medicine, One Baylor Plaza, Room 604B, Houston, TX 77030, USA
    Hum Mol Genet 15:2250-65. 2006
    ....
  68. pmc Discovery of candidate disease genes in ENU-induced mouse mutants by large-scale sequencing, including a splice-site mutation in nucleoredoxin
    Melissa K Boles
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas, USA
    PLoS Genet 5:e1000759. 2009
    ..Our data show that the classical positional mapping approach of disease mutation identification can be extended to large target regions using high-throughput sequencing...
  69. pmc Human genome sequencing in health and disease
    Claudia Gonzaga-Jauregui
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA
    Annu Rev Med 63:35-61. 2012
    ..Personal genome sequencing may eventually become an instrument of common medical practice, providing information that assists in the formulation of a differential diagnosis. We outline herein some of the remaining challenges...
  70. pmc Mechanisms for human genomic rearrangements
    Wenli Gu
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA
    Pathogenetics 1:4. 2008
    ..We provide a review of the current understanding of these three models...
  71. pmc Personal genome research : what should the participant be told?
    Amy L McGuire
    Center for Medical Ethics and Health Policy, Baylor College of Medicine, One Baylor Plaza, BCM420 Houston, Texas 77030, USA
    Trends Genet 26:199-201. 2010
    ..L.) experience as a geneticist who recently had his own genome sequenced...
  72. pmc Potential involvement of more than one locus in trait manifestation for individuals with Leber congenital amaurosis
    Wojciech Wiszniewski
    Department of Molecular and Human Genetics, Baylor College of Medicine, One Baylor Plaza, 604B, Houston, TX, USA
    Hum Genet 129:319-27. 2011
    ..Our findings suggest that mutational load can be important to penetrance of the LCA phenotype...
  73. ncbi request reprint A DNA replication mechanism for generating nonrecurrent rearrangements associated with genomic disorders
    Jennifer A Lee
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston TX, 77030, USA
    Cell 131:1235-47. 2007
    ..We propose that complex duplication and deletion rearrangements associated with PMD, and potentially other nonrecurrent rearrangements, may be explained by this replication-based mechanism...
  74. pmc Structure and evolution of the Smith-Magenis syndrome repeat gene clusters, SMS-REPs
    Sung Sup Park
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas, 77030, USA
    Genome Res 12:729-38. 2002
    ....
  75. pmc Serial segmental duplications during primate evolution result in complex human genome architecture
    Pawełl Stankiewicz
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA
    Genome Res 14:2209-20. 2004
    ....
  76. ncbi request reprint Molecular mechanisms for genomic disorders
    Ken Inoue
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA
    Annu Rev Genomics Hum Genet 3:199-242. 2002
    ..The human genome sequence project reveals that LCRs may account for 5% of the genome, suggesting that many novel genomic disorders might still remain to be recognized...
  77. pmc Constitutional tandem duplication of 9q34 that truncates EHMT1 in a child with ganglioglioma
    Hannah C Cheung
    Texas Children s Cancer Center, Baylor College of Medicine, Houston, Texas, USA
    Pediatr Blood Cancer 58:801-5. 2012
    ..The ganglioglioma showed complex chromosomal aberrations with further duplication of the dup9q34. Thus, this unique tandem 9q34.3 duplication may impact brain tumor formation...
  78. doi request reprint Copy number variation in human health, disease, and evolution
    Feng Zhang
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA
    Annu Rev Genomics Hum Genet 10:451-81. 2009
    ..However, CNV can also represent benign polymorphic variants. CNVs, especially gene duplication and exon shuffling, can be a predominant mechanism driving gene and genome evolution...
  79. pmc Identification of chromosome abnormalities in subtelomeric regions by microarray analysis: a study of 5,380 cases
    Lina Shao
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas, USA
    Am J Med Genet A 146:2242-51. 2008
    ..Targeted array-CGH with extended coverage (up to 10 Mb) of subtelomeric regions will enhance the detection of subtelomeric imbalances, especially for submicroscopic imbalances...
  80. doi request reprint The complete genome of an individual by massively parallel DNA sequencing
    David A Wheeler
    Human Genome Sequencing Center, Baylor College of Medicine, One Baylor Plaza, Houston, Texas 77030, USA
    Nature 452:872-6. 2008
    ..This is the first genome sequenced by next-generation technologies. Therefore it is a pilot for the future challenges of 'personalized genome sequencing'...
  81. pmc Mechanisms of change in gene copy number
    P J Hastings
    Department of Molecular and Human Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, Texas 77030, USA
    Nat Rev Genet 10:551-64. 2009
    ..For example, cellular stress might induce repair of broken replication forks to switch from high-fidelity homologous recombination to non-homologous repair, thus promoting copy number change...
  82. ncbi request reprint Structural variation in the human genome
    James R Lupski
    Department of Molecular and Human Genetics, Baylor College of Medicine and Texas Children s Hospital, Houston, USA
    N Engl J Med 356:1169-71. 2007
  83. pmc 2002 Curt Stern Award Address. Genomic disorders recombination-based disease resulting from genomic architecture
    James R Lupski
    Department of Molecular and Human Genetics, Baylor College of Medicine and Texas Children s Hospital, Houston, 77030, USA
    Am J Hum Genet 72:246-52. 2003
  84. ncbi request reprint Non-recurrent 17p11.2 deletions are generated by homologous and non-homologous mechanisms
    Christine J Shaw
    Department of Molecular and Human Genetics, Baylor College of Medicine, One Baylor Plaza, Room 604B, Houston, TX 77030, USA
    Hum Genet 116:1-7. 2005
    ..These data further implicate homologous recombination as the predominant mechanism of deletion formation in this genomic interval...
  85. pmc Modeling del(17)(p11.2p11.2) and dup(17)(p11.2p11.2) contiguous gene syndromes by chromosome engineering in mice: phenotypic consequences of gene dosage imbalance
    Katherina Walz
    Department of Molecular and Human Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX 77030, USA
    Mol Cell Biol 23:3646-55. 2003
    ..Our murine models represent a powerful tool to analyze the consequences of gene dosage imbalance in this genomic interval and to investigate the molecular genetic bases of both SMS and dup(17)(p11.2p11.2)...
  86. pmc Genomic disorders: molecular mechanisms for rearrangements and conveyed phenotypes
    James R Lupski
    Department of Molecular and Human Genetics, Baylor College of Medicine, and at the Texas Children s Hospital, Houston, Texas, United States of America
    PLoS Genet 1:e49. 2005
    ....
  87. ncbi request reprint Implications of human genome architecture for rearrangement-based disorders: the genomic basis of disease
    Christine J Shaw
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas, USA
    Hum Mol Genet 13:R57-64. 2004
    ..In this review, we discuss recent advances regarding general mechanisms for the various rearrangements of our genome, and potential models for rearrangements with non-homologous breakpoint regions...
  88. pmc Hotspots of homologous recombination in the human genome: not all homologous sequences are equal
    James R Lupski
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA
    Genome Biol 5:242. 2004
    ..Recent studies of these hotspots show that they do not share common sequence motifs, but they do have other features in common...
  89. pmc Uncommon deletions of the Smith-Magenis syndrome region can be recurrent when alternate low-copy repeats act as homologous recombination substrates
    Christine J Shaw
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA
    Am J Hum Genet 75:75-81. 2004
    ..Our findings indicate that alternative LCRs can mediate rearrangements, resulting in haploinsufficiency of the SMS critical region, and reimplicate homologous recombination as a major mechanism for genomic disorders...
  90. ncbi request reprint An evolution revolution provides further revelation
    James R Lupski
    Department of Molecular and Human Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX 77030, USA
    Bioessays 29:1182-4. 2007
    ..Intriguingly, human lineage-specific gene amplification can be correlated to the emergence of human-specific traits such as cognition and endurance running...
  91. ncbi request reprint Genomic rearrangements and sporadic disease
    James R Lupski
    Department of Molecular and Human Genetics, Baylor College of Medicine, One Baylor Plaza, 604B and Texas Children s Hospital Houston, Texas 77030, USA
    Nat Genet 39:S43-7. 2007
    ..Widespread implementation of high-resolution genome analyses to detect de novo copy-number variation may identify the cause of traits previously intractable to conventional genetic analyses...
  92. ncbi request reprint Molecular-evolutionary mechanisms for genomic disorders
    Pawel Stankiewicz
    Department of Molecular and Human Genetics, Baylor College of Medicine, Room 604B, One Baylor Plaza, and Texas Children Hospital, Houston, Texas 77030 3498, USA
    Curr Opin Genet Dev 12:312-9. 2002
    ..In addition, this LCR-based complex genome architecture appears to play a major role in both primate karyotype evolution and human tumorigenesis...
  93. pmc RecQ promotes toxic recombination in cells lacking recombination intermediate-removal proteins
    Daniel B Magner
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA
    Mol Cell 26:273-86. 2007
    ..The data imply that RecQ promotes the net accumulation of BRIs in vivo, indicating a second paradigm for the in vivo effect of RecQ-like proteins. The E. coli RecQ paradigm may provide a useful model for some human RecQ homologs...
  94. pmc Reciprocal crossovers and a positional preference for strand exchange in recombination events resulting in deletion or duplication of chromosome 17p11.2
    Weimin Bi
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX, 77030, USA
    Am J Hum Genet 73:1302-15. 2003
    ..The role of any or all of these in stimulating double-strand breaks around this positional recombination hotspot remains to be explored...
  95. pmc Characterization of Potocki-Lupski syndrome (dup(17)(p11.2p11.2)) and delineation of a dosage-sensitive critical interval that can convey an autism phenotype
    Lorraine Potocki
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA
    Am J Hum Genet 80:633-49. 2007
    ..Our results refine the critical region for Potocki-Lupski syndrome, provide information to assist in clinical diagnosis and management, and lend further support for the concept that genomic architecture incites genomic instability...
  96. ncbi request reprint Mutations of RAI1, a PHD-containing protein, in nondeletion patients with Smith-Magenis syndrome
    Weimin Bi
    Department of Molecular and Human Genetics, Baylor College of Medicine, Room 604B, One Baylor Plaza, Houston, TX 77030 3498, USA
    Hum Genet 115:515-24. 2004
    ..These findings suggest RAI1 is involved in transcriptional control through a multi-protein complex whose function may be altered in individuals with SMS...
  97. ncbi request reprint Evolution of ABCA4 proteins in vertebrates
    Alexander N Yatsenko
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA
    J Mol Evol 60:72-80. 2005
    ..We speculate that evolutionary alterations may increase the retinoid metabolite recycling capacity of ABCA4 and may improve dark adaptation...
  98. ncbi request reprint Interphase FISH screening for the LCR-mediated common rearrangement of isochromosome 17q in primary myelofibrosis
    Gabriel A Bien-Willner
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas, USA
    Am J Hematol 79:309-13. 2005
    ..2), discuss the potential prognostic value of this molecular diagnostic test, and examine the relevance of LCR-mediated NAHR to common rearrangements in neoplasms...
  99. ncbi request reprint Increased MECP2 gene copy number as the result of genomic duplication in neurodevelopmentally delayed males
    Daniela del Gaudio
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas, USA
    Genet Med 8:784-92. 2006
    ..Recent clinical testing for MECP2 gene rearrangements revealed that entire MECP2 gene duplication occurs in some males manifesting a progressive neurodevelopmental syndrome...
  100. ncbi request reprint Triallelic inheritance: a bridge between Mendelian and multifactorial traits
    Erica R Eichers
    Departments of Molecular and Human Genetics, Baylor College of Medicine, One Baylor Plaza, Room 604B, Houston, Texas 77030, USA
    Ann Med 36:262-72. 2004
    ..Modeling the cooperative ability of alleles of different genes at distinct loci to give rise to a particular phenotype will facilitate the understanding of complex multifactorial and polygenic traits...
  101. ncbi request reprint Behavioral characterization of mouse models for Smith-Magenis syndrome and dup(17)(p11.2p11.2)
    Katherina Walz
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA
    Hum Mol Genet 13:367-78. 2004
    ..Our findings suggest that there is a gene(s) present in this defined genomic interval that is responsible for behavioral abnormalities in the mouse, as has been shown for the human syntenic region...