Research Topics
Species | Chiara SabattiSummaryAffiliation: University of California Country: USA Publications
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Detail Information
Publications
An evaluation of tyramide signal amplification and archived fixed and frozen tissue in microarray gene expression analysisStanislav L Karsten
Department of Neurology, Program in Neurogenetics, UCLA School of Medicine, 710 Westwood Plaza, Los Angeles, CA 90095-1769, USA
Nucleic Acids Res 30:E4. 2002..Consistent results are more easily obtainable using ethanol-fixed tissues, whereas formalin-fixed tissue does not typically provide a useful substrate for cDNA synthesis and labeling...
Volume measures for linkage disequilibriumYuguo Chen
Department of Statistics, University of Illinois at Urbana Champaign, Champaign IL 61820, USA
BMC Genet 7:54. 2006..The potential of volume measures in this context has been noted before, but their use has been hampered by computational challenges...
Bayesian sparse hidden components analysis for transcription regulation networksChiara Sabatti
Department of Human Genetics, UCLA, Los Angeles, CA 90095 7088, USA
Bioinformatics 22:739-46. 2006..However, this goal can only be achieved if all information sources are used in concert...- Vocabulon: a dictionary model approach for reconstruction and localization of transcription factor binding sitesChiara Sabatti
Department of Human Genetics, UCLA Los Angeles, CA 90095 7088, USA
Bioinformatics 21:922-31. 2005..We illustrate these properties with examples in E.coli. The results of gene expression arrays are used both to guide the search and corroborate it... - False discovery rate in linkage and association genome screens for complex disordersChiara Sabatti
Department of Human Genetics and Statistics, University of California, Los Angeles 90095 7088, USA
Genetics 164:829-33. 2003..This adaptive multiple comparison procedure may offer an important tool for mapping susceptibility genes for complex diseases... - Homozygosity and linkage disequilibriumChiara Sabatti
Department of Human Genetics and Statistics, University of California, Los Angeles, California 90095 7088, USA
Genetics 160:1707-19. 2002..They are particularly advantageous to measure linkage disequilibrium between highly polymorphic markers... - Thresholding rules for recovering a sparse signal from microarray experimentsChiara Sabatti
Department of Human Genetics, UCLA, 695 Charles Young Dr South, Los Angeles, CA 90095 7088, USA
Math Biosci 176:17-34. 2002..Given the amount of information actually available, the thresholding rule described provides a reasonable estimator for the change in expression of any gene in two compared cell lines... - A generalized framework for network component analysisRiccardo Boscolo
Electrical Engineering Department, University of California, Los Angeles, 420 Westwood Plaza, Los Angeles, CA 90095, USA
IEEE/ACM Trans Comput Biol Bioinform 2:289-301. 2005.... - Linkage disequilibrium and haplotype homozygosity in population samples genotyped at a high marker densityHui Wang
Department of Statistics, UCLA, Los Angeles, CA 90095, USA
Hum Hered 62:175-89. 2006..CONCLUSIONS: It is crucial to take into account LD patterns when interpreting long stretches of homozygous markers... - Results of a SNP genome screen in a large Costa Rican pedigree segregating for severe bipolar disorderSusan Service
Center for Neurobehavioral Genetics, University of California, Los Angeles, 90095-1761, USA
Am J Med Genet B Neuropsychiatr Genet 141:367-73. 2006..The difficulties of analyzing genome wide SNP data for complex disorders in large, potentially informative, kindreds are discussed... - Tag SNPs chosen from HapMap perform well in several population isolatesSusan Service
Center for Neurobehavioral Genetics, University of California, Los Angeles, California 90095 1761, USA
Genet Epidemiol 31:189-94. 2007.... - A genome-wide linkage scan of familial benign recurrent vertigo: linkage to 22q12 with evidence of heterogeneityHane Lee
Department of Human Genetics, University of California, Los Angeles, 90095, USA
Hum Mol Genet 15:251-8. 2006..Additional family and population-based linkage and association studies will be needed to determine the causative alleles... - A dictionary model for haplotyping, genotype calling, and association testingKristin L Ayers
Department of Biomathematics, UCLA School of Medicine, Los Angeles, CA 90095 1766, USA
Genet Epidemiol 31:672-83. 2007..These imputed counts can serve as genetic predictors in association studies, as we illustrate by examples on cystic fibrosis, Friedreich's ataxia, and angiotensin-I converting enzyme levels... - Transcriptome-based determination of multiple transcription regulator activities in Escherichia coli by using network component analysisKaty C Kao
Department of Chemical Engineering, University of California, Los Angeles, CA 90095, USA
Proc Natl Acad Sci U S A 101:641-6. 2004..We used Escherichia coli carbon source transition from glucose to acetate as a model system. Key results from this analysis were either consistent with physiology or verified by using independent measurements... - Global analysis of gene expression in neural progenitors reveals specific cell-cycle, signaling, and metabolic networksStanislav L Karsten
Department of Neurology, UCLA School of Medicine, 710 Westwood Plaza, Los Angeles, CA 90095-1769, USA
Dev Biol 261:165-82. 2003..We propose a putative network of gene expression linking cell cycle control to cell fate pathways, providing a framework for further investigations of neural stem cell proliferation and differentiation... - Co-expression pattern from DNA microarray experiments as a tool for operon predictionChiara Sabatti
Department of Human Genetics and Statistics and Department of Chemical Engineering, University of California, Los Angeles, CA 90095, USA
Nucleic Acids Res 30:2886-93. 2002..These results provide a rationale for conducting expression studies comparing conditions that cause global changes in gene expression... - Reconstructing ancestral haplotypes with a dictionary modelKristin L Ayers
Department of Biomathematics, University of California, Los Angeles, CA 90095-1766, USA
J Comput Biol 13:767-85. 2006..Application of the model to simulated data gives encouraging results. In a real dataset, we are able to reconstruct a parsimonious dictionary that captures patterns of linkage disequilibrium well... - Avoiding false discoveries in association studiesChiara Sabatti
Department of Human Genetics, UCLA School of Medicine, Los Angeles, CA, USA
Methods Mol Biol 376:195-211. 2007..We then examine the underlying similarities and differences between linkage and association studies and document some of the most recent methodological developments for association mapping... - Genome-wide association analysis of metabolic traits in a birth cohort from a founder populationChiara Sabatti
Department of Human Genetics and Los Angeles, Los Angeles, California 90095, USA
Nat Genet 41:35-46. 2009..The association observed between low-density lipoprotein and an infrequent variant in AR suggests the potential of such a cohort for identifying associations with both common, low-impact and rarer, high-impact quantitative trait loci... - Network component analysis: reconstruction of regulatory signals in biological systemsJames C Liao
Departments of Chemical Engineering, University of California, Los Angeles, CA 90095, USA
Proc Natl Acad Sci U S A 100:15522-7. 2003.... - Overrepresentation of rare variants in a specific ethnic group may confuse interpretation of association analysesDianne Keen-Kim
Center for Neurobehavioral Genetics, Semel Institute for Neuroscience and Human Behavior, University of California, Los Angeles, CA, USA
Hum Mol Genet 15:3324-8. 2006.... - A novel mutation in KCNA1 causes episodic ataxia without myokymiaHane Lee
Department of Human Genetics, University of California, Los Angeles, California, USA
Hum Mutat 24:536. 2004..This mutation leads to a distinct clinical phenotype without myokymia broadening the scope of clinical characteristics of EA1 and highlighting the heterogeneity of phenotypic effects from distinct missense mutations... - The use of pedigree, sib-pair and association studies of common diseases for genetic mapping and epidemiologyNelson Freimer
Center for Neurobehavioral Genetics, Neuropsychiatric Institute, Los Angeles, CA 90095, USA
Nat Genet 36:1045-51. 2004..Recent studies suggest that the technology and statistical methodology will soon be available to make well-powered studies feasible using any of these approaches... - Clinical features and associated syndromes of mal de debarquementYoon Hee Cha
Dept of Neurology, University of California, 710 Westwood Plaza, 951769, Los Angeles, CA 90095, USA
J Neurol 255:1038-44. 2008..To investigate the clinical features and natural history of mal de debarquement (MdD)... - Magnitude and distribution of linkage disequilibrium in population isolates and implications for genome-wide association studiesSusan Service
Center for Neurobehavioral Genetics, University of California, Los Angeles, California 90095, USA
Nat Genet 38:556-60. 2006..Young isolates known to have had relatively few founders show particularly extensive LD with very few holes; these populations offer substantial advantages for genome-wide association mapping... - Reconstructing DNA copy number by joint segmentation of multiple sequencesZhongyang Zhang
Department of Statistics, University of California, Los Angeles, CA, USA
BMC Bioinformatics 13:205. 2012..This problem encompasses the cases of copy number polymorphisms, related samples, technical replicates, and cancerous sub-populations from the same individual... - Inferring protein domain interactions from databases of interacting proteinsRobert Riley
Department of Human Genetics, David Geffen School of Medicine, University of California Los Angeles, CA 90095, USA
Genome Biol 6:R89. 2005..DPEA may prove useful in guiding experiment-based discovery of previously unrecognized domain interactions... - Guidelines for association studies in Human Molecular GeneticsNelson B Freimer
Department of Psychiatry, UCLA Center for Neurobehavioral Genetics, Semel Institute for Neuroscience and Human Behavior, Los Angeles, CA 90095-1761, USA
Hum Mol Genet 14:2481-3. 2005 - The human phenome projectNelson Freimer
Center for Neurobehavioral Genetics, Neuropsychiatric Institute, Gonda Building Room 3506, 695 Charles E. Young Drive South, Los Angeles, California 90095, USA
Nat Genet 34:15-21. 2003 - Human genetics: variants in common diseasesNelson B Freimer
Nature 445:828-30. 2007 - Convergent linkage evidence from two Latin-American population isolates supports the presence of a susceptibility locus for bipolar disorder in 5q31-34Ibi Herzberg
Galton Laboratory, Department of Biology, University College London, Wolfson House, 4 Stephenson Way, London NW1 2HE, UK
Hum Mol Genet 15:3146-53. 2006..00004). Interestingly, this region has been implicated in several previous genetic studies of schizophrenia and psychosis, including disease association with variants of the enthoprotin and gamma-aminobutyric acid receptor genes... - Large recurrent microdeletions associated with schizophreniaHreinn Stefansson
CNS Division, deCODE Genetics, Sturlugata 8, IS 101 Reykjavik, Iceland
Nature 455:232-6. 2008..CNV analysis may also point the way to the identification of additional and more prevalent risk variants in genes and pathways involved in schizophrenia... - Recurrent CNVs disrupt three candidate genes in schizophrenia patientsTerry Vrijenhoek
Department of Human Genetics, Radboud University Nijmegen Medical Centre, 6500 HB Nijmegen, The Netherlands
Am J Hum Genet 83:504-10. 2008..Our study supports a role for rare CNVs in schizophrenia susceptibility and identifies at least three candidate genes for this complex disorder...