Genetics of gene expression in CNS.

[1]  R. Williams,et al.  Evaluation of heritable determinants of blood and brain serotonin homeostasis using recombinant inbred mice , 2014, Genes, brain, and behavior.

[2]  I. Amit,et al.  Massively Parallel Single-Cell RNA-Seq for Marker-Free Decomposition of Tissues into Cell Types , 2014, Science.

[3]  D. Bottomly,et al.  The genetics of gene expression in complex mouse crosses as a tool to study the molecular underpinnings of behavior traits , 2013, Mammalian Genome.

[4]  Gioele La Manno,et al.  Quantitative single-cell RNA-seq with unique molecular identifiers , 2013, Nature Methods.

[5]  E. Geisert,et al.  A crystallin gene network in the mouse retina. , 2013, Experimental eye research.

[6]  Nicolas Servant,et al.  A comprehensive evaluation of normalization methods for Illumina high-throughput RNA sequencing data analysis , 2013, Briefings Bioinform..

[7]  E. Levanon,et al.  Human housekeeping genes, revisited. , 2013, Trends in genetics : TIG.

[8]  C. Mason,et al.  Comprehensive evaluation of differential gene expression analysis methods for RNA-seq data , 2013, Genome Biology.

[9]  Pedro G. Ferreira,et al.  Transcriptome and genome sequencing uncovers functional variation in humans , 2013, Nature.

[10]  Owen M. Rennert,et al.  Identification of Differentially Expressed MicroRNAs Across the Developing Human Brain , 2013, Molecular Psychiatry.

[11]  B. Tabakoff,et al.  Whole Brain and Brain Regional Coexpression Network Interactions Associated with Predisposition to Alcohol Consumption , 2013, PloS one.

[12]  Thomas M. Keane,et al.  Combined sequence-based and genetic mapping analysis of complex traits in outbred rats , 2013, Nature Genetics.

[13]  L. Rieseberg,et al.  RNA-Seq Analysis of Allele-Specific Expression, Hybrid Effects, and Regulatory Divergence in Hybrids Compared with Their Parents from Natural Populations , 2013, Genome biology and evolution.

[14]  Robert W. Williams,et al.  Mitonuclear protein imbalance as a conserved longevity mechanism , 2013, Nature.

[15]  E. Lai,et al.  Widespread and extensive lengthening of 3′ UTRs in the mammalian brain , 2013, Genome research.

[16]  Ellen T. Gelfand,et al.  The Genotype-Tissue Expression (GTEx) project , 2013, Nature Genetics.

[17]  D. Bottomly,et al.  Genes, behavior and next‐generation RNA sequencing , 2013, Genes, brain, and behavior.

[18]  Sebastian M. Waszak,et al.  Genomic Variation and Its Impact on Gene Expression in Drosophila melanogaster , 2012, PLoS genetics.

[19]  E. Chesler,et al.  Genetic variation in hippocampal microRNA expression differences in C57BL/6 J X DBA/2 J (BXD) recombinant inbred mouse strains , 2012, BMC Genomics.

[20]  Steven C. Munger,et al.  The diversity outbred mouse population , 2012, Mammalian Genome.

[21]  J. S. Lauritzen,et al.  Building retinal connectomes , 2012, Current Opinion in Neurobiology.

[22]  Wei Sun,et al.  eQTL Mapping Using RNA-seq Data , 2012, Statistics in Biosciences.

[23]  Margaret A. Pericak-Vance,et al.  Brain Expression Genome-Wide Association Study (eGWAS) Identifies Human Disease-Associated Variants , 2012, PLoS genetics.

[24]  Lu Lu,et al.  Sex-Specific Modulation of Gene Expression Networks in Murine Hypothalamus , 2012, Front. Neurosci..

[25]  Anton J. Enright,et al.  Extent, Causes, and Consequences of Small RNA Expression Variation in Human Adipose Tissue , 2012, PLoS genetics.

[26]  Michael A. Langston,et al.  Genetic Dissection of Acute Ethanol Responsive Gene Networks in Prefrontal Cortex: Functional and Mechanistic Implications , 2012, PloS one.

[27]  Robert W. Williams,et al.  Complex Control of GABA(A) Receptor Subunit mRNA Expression: Variation, Covariation, and Genetic Regulation , 2012, PloS one.

[28]  Tomas Babak,et al.  Critical Evaluation of Imprinted Gene Expression by RNA–Seq: A New Perspective , 2012, PLoS genetics.

[29]  Wei Sun,et al.  A Statistical Framework for eQTL Mapping Using RNA‐seq Data , 2012, Biometrics.

[30]  Leonard McMillan,et al.  High-Resolution Genetic Mapping Using the Mouse Diversity Outbred Population , 2012, Genetics.

[31]  Philipp Khaitovich,et al.  MicroRNA-Driven Developmental Remodeling in the Brain Distinguishes Humans from Other Primates , 2011, PLoS biology.

[32]  Daniel A. Skelly,et al.  A powerful and flexible statistical framework for testing hypotheses of allele-specific gene expression from RNA-seq data. , 2011, Genome research.

[33]  Thomas M. Keane,et al.  Mouse genomic variation and its effect on phenotypes and gene regulation , 2011, Nature.

[34]  Lior Pachter,et al.  Identification of novel transcripts in annotated genomes using RNA-Seq , 2011, Bioinform..

[35]  M. Gerstein,et al.  AlleleSeq: analysis of allele-specific expression and binding in a network framework , 2011, Molecular systems biology.

[36]  Brynn H Voy,et al.  Genetic analysis in the Collaborative Cross breeding population. , 2011, Genome research.

[37]  C. Harrington,et al.  Computational Detection of Alternative Exon Usage , 2011, Front. Neurosci..

[38]  Ivana V. Yang,et al.  Genetic analysis of complex traits in the emerging Collaborative Cross. , 2011, Genome research.

[39]  Songnian Hu,et al.  A comparison between ribo-minus RNA-sequencing and polyA-selected RNA-sequencing. , 2010, Genomics.

[40]  Steven J. M. Jones,et al.  Alternative expression analysis by RNA sequencing , 2010, Nature Methods.

[41]  Robert W. Williams,et al.  A Transposon in Comt Generates mRNA Variants and Causes Widespread Expression and Behavioral Differences among Mice , 2010, PloS one.

[42]  Eric E Schadt,et al.  Genetic validation of whole-transcriptome sequencing for mapping expression affected by cis-regulatory variation , 2010, BMC Genomics.

[43]  S. Luo,et al.  High-Resolution Analysis of Parent-of-Origin Allelic Expression in the Mouse Brain , 2010, Science.

[44]  Jiangwen Zhang,et al.  Sex-Specific Parent-of-Origin Allelic Expression in the Mouse Brain , 2010, Science.

[45]  Na Li,et al.  Comprehensive survey of human brain microRNA by deep sequencing , 2010, BMC Genomics.

[46]  C Joel McManus,et al.  Regulatory divergence in Drosophila revealed by mRNA-seq. , 2010, Genome research.

[47]  R. Guigó,et al.  Transcriptome genetics using second generation sequencing in a Caucasian population , 2010, Nature.

[48]  Joseph K. Pickrell,et al.  Understanding mechanisms underlying human gene expression variation with RNA sequencing , 2010, Nature.

[49]  Simon Anders,et al.  Differential expression analysis for sequence count data , 2010, Genome Biology.

[50]  C. Nusbaum,et al.  Key considerations for measuring allelic expression on a genomic scale using high‐throughput sequencing , 2010, Molecular ecology.

[51]  Sandrine Dudoit,et al.  Evaluation of statistical methods for normalization and differential expression in mRNA-Seq experiments , 2010, BMC Bioinformatics.

[52]  Lu Lu,et al.  Detection, Validation, and Downstream Analysis of Allelic Variation in Gene Expression , 2010, Genetics.

[53]  Eric T. Wang,et al.  An Abundance of Ubiquitously Expressed Genes Revealed by Tissue Transcriptome Sequence Data , 2009, PLoS Comput. Biol..

[54]  Davis J. McCarthy,et al.  edgeR: a Bioconductor package for differential expression analysis of digital gene expression data , 2009, Bioinform..

[55]  John C. Marioni,et al.  Effect of read-mapping biases on detecting allele-specific expression from RNA-sequencing data , 2009, Bioinform..

[56]  Rainer Breitling,et al.  Expression Quantitative Trait Loci Are Highly Sensitive to Cellular Differentiation State , 2009, PLoS genetics.

[57]  Robert W. Williams,et al.  Gene expression in the mouse eye: an online resource for genetics using 103 strains of mice , 2009, Molecular vision.

[58]  Fred H. Gage,et al.  Genetics of the Hippocampal Transcriptome in Mouse: A Systematic Survey and Online Neurogenomics Resource , 2009, Front. Neurogen..

[59]  Michael B. Stadler,et al.  Overestimation of alternative splicing caused by variable probe characteristics in exon arrays , 2009, Nucleic acids research.

[60]  William Valdar,et al.  High resolution mapping of expression QTLs in heterogeneous stock mice in multiple tissues. , 2009, Genome research.

[61]  D. Geschwind,et al.  Functional and Evolutionary Insights into Human Brain Development through Global Transcriptome Analysis , 2009, Neuron.

[62]  Lu Lu,et al.  The genetic control of neocortex volume and covariation with neocortical gene expression in mice , 2009, BMC Neuroscience.

[63]  D. Stephan,et al.  Genetic control of human brain transcript expression in Alzheimer disease. , 2009, American journal of human genetics.

[64]  Julie A. Caplow,et al.  Genetic modulation of striatal volume by loci on Chrs 6 and 17 in BXD recombinant inbred mice , 2009, Genes, brain, and behavior.

[65]  Wing Hung Wong,et al.  Statistical inferences for isoform expression in RNA-Seq , 2009, Bioinform..

[66]  Andrew I. Su,et al.  A Common and Unstable Copy Number Variant Is Associated with Differences in Glo1 Expression and Anxiety-Like Behavior , 2009, PloS one.

[67]  Elissa J Chesler,et al.  Functional coding variation in recombinant inbred mouse lines reveals multiple serotonin transporter-associated phenotypes , 2009, Proceedings of the National Academy of Sciences.

[68]  K. Shianna,et al.  Tissue-Specific Genetic Control of Splicing: Implications for the Study of Complex Traits , 2008, PLoS biology.

[69]  B. Frey,et al.  Deep surveying of alternative splicing complexity in the human transcriptome by high-throughput sequencing , 2008, Nature Genetics.

[70]  B. Williams,et al.  Mapping and quantifying mammalian transcriptomes by RNA-Seq , 2008, Nature Methods.

[71]  C. Seoighe,et al.  Genome-wide survey of allele-specific splicing in humans , 2008, BMC Genomics.

[72]  P. Mattila,et al.  ABBA regulates plasma-membrane and actin dynamics to promote radial glia extension , 2008, Journal of Cell Science.

[73]  A. Silahtaroglu,et al.  MicroRNA expression in the adult mouse central nervous system. , 2008, RNA.

[74]  D. Heckerman,et al.  Efficient Control of Population Structure in Model Organism Association Mapping , 2008, Genetics.

[75]  D. Stephan,et al.  A survey of genetic human cortical gene expression , 2007, Nature Genetics.

[76]  John D. Storey,et al.  Gene-expression variation within and among human populations. , 2007, American journal of human genetics.

[77]  Eric E Schadt,et al.  DNA variation and brain region-specific expression profiles exhibit different relationships between inbred mouse strains: implications for eQTL mapping studies , 2007, Genome Biology.

[78]  A. Arnold,et al.  Tissue-specific expression and regulation of sexually dimorphic genes in mice. , 2006, Genome research.

[79]  Martin S. Taylor,et al.  Genome-wide genetic association of complex traits in heterogeneous stock mice , 2006, Nature Genetics.

[80]  B. Blencowe Alternative Splicing: New Insights from Global Analyses , 2006, Cell.

[81]  Thomas R. Sutter,et al.  How replicable are mRNA expression QTL? , 2006, Mammalian Genome.

[82]  J. Lamb,et al.  Elucidating the murine brain transcriptional network in a segregating mouse population to identify core functional modules for obesity and diabetes , 2006, Journal of neurochemistry.

[83]  Margit Burmeister,et al.  Genetical genomics: combining genetics with gene expression analysis. , 2005, Human molecular genetics.

[84]  B. Kerem,et al.  The splicing machinery is a genetic modifier of disease severity. , 2005, Trends in genetics : TIG.

[85]  J. Sikela,et al.  Cerebellar gene expression profiling and eQTL analysis in inbred mouse strains selected for ethanol sensitivity. , 2005, Alcoholism, clinical and experimental research.

[86]  Tyson A. Clark,et al.  Nova regulates brain-specific splicing to shape the synapse , 2005, Nature Genetics.

[87]  E. Petretto,et al.  Integrated transcriptional profiling and linkage analysis for identification of genes underlying disease , 2005, Nature Genetics.

[88]  Robert W. Williams,et al.  Complex trait analysis of gene expression uncovers polygenic and pleiotropic networks that modulate nervous system function , 2005, Nature Genetics.

[89]  Rachel B. Brem,et al.  The landscape of genetic complexity across 5,700 gene expression traits in yeast. , 2005, Proceedings of the National Academy of Sciences of the United States of America.

[90]  Nengjun Yi,et al.  The Collaborative Cross, a community resource for the genetic analysis of complex traits , 2004, Nature Genetics.

[91]  Johan T den Dunnen,et al.  Gene expression variation between mouse inbred strains , 2004, BMC Genomics.

[92]  C. Molony,et al.  Genetic analysis of genome-wide variation in human gene expression , 2004, Nature.

[93]  Robert W. Williams,et al.  Genetic structure of the LXS panel of recombinant inbred mouse strains: a powerful resource for complex trait analysis , 2004, Mammalian Genome.

[94]  R. Mott,et al.  QTL fine-mapping with recombinant-inbred heterogeneous stocks and in vitro heterogeneous stocks , 2003, Mammalian Genome.

[95]  R. Stoughton,et al.  Genetics of gene expression surveyed in maize, mouse and man , 2003, Nature.

[96]  T. Cooper,et al.  Pre-mRNA splicing and human disease. , 2003, Genes & development.

[97]  Colin N. Dewey,et al.  Initial sequencing and comparative analysis of the mouse genome. , 2002 .

[98]  Christopher J. Lee,et al.  Genome-wide detection of tissue-specific alternative splicing in the human transcriptome. , 2002, Nucleic acids research.

[99]  Leif E. Peterson,et al.  Observation of intermittency in gene expression on cDNA microarrays , 2002, Genome Biology.

[100]  Rachel B. Brem,et al.  Genetic Dissection of Transcriptional Regulation in Budding Yeast , 2002, Science.

[101]  D. Black,et al.  Alternative RNA splicing in the nervous system , 2001, Progress in Neurobiology.

[102]  J. Nap,et al.  Genetical genomics: the added value from segregation. , 2001, Trends in genetics : TIG.

[103]  Benjamin A. Taylor,et al.  Genotyping new BXD recombinant inbred mouse strains and comparison of BXD and consensus maps , 1999, Mammalian Genome.

[104]  J. Josse,et al.  Quantitative trait loci underlying gene product variation: a novel perspective for analyzing regulation of genome expression. , 1994, Genetics.

[105]  Z. Zeng Precision mapping of quantitative trait loci. , 1994, Genetics.

[106]  Manish S. Shah,et al.  A novel gene containing a trinucleotide repeat that is expanded and unstable on Huntington's disease chromosomes , 1993, Cell.

[107]  C. Haley,et al.  A simple regression method for mapping quantitative trait loci in line crosses using flanking markers , 1992, Heredity.

[108]  A. Moore,et al.  Genetic mapping of X linked ocular albinism: linkage analysis in British families. , 1992, Journal of medical genetics.

[109]  J. Eberwine,et al.  Amplified RNA synthesized from limited quantities of heterogeneous cDNA. , 1990, Proceedings of the National Academy of Sciences of the United States of America.

[110]  D. Pollen,et al.  The genetic defect causing familial Alzheimer's disease maps on chromosome 21. , 1987, Science.

[111]  K. Robson,et al.  Prenatal diagnosis of classical phenylketonuria by gene mapping. , 1984, JAMA.

[112]  A. Young,et al.  A polymorphic DNA marker genetically linked to Huntington's disease , 1983, Nature.

[113]  Paul K. Korir,et al.  Inference of allele-specific expression from RNA-seq data. , 2014, Methods in molecular biology.

[114]  Robert W. Williams,et al.  Genetic and molecular network analysis of behavior. , 2012, International review of neurobiology.

[115]  G. Churchill,et al.  The collaborative cross: a recombinant inbred mouse population for the systems genetic era. , 2011, ILAR journal.

[116]  S. McWeeney,et al.  Quantitative Trait Locus Analysis: Multiple Cross and Heterogeneous Stock Mapping , 2008, Alcohol research & health : the journal of the National Institute on Alcohol Abuse and Alcoholism.

[117]  Robert W. Williams,et al.  Genetic and Structural Analysis of the Basolateral Amygdala Complex in BXD Recombinant Inbred Mice , 2007, Behavior genetics.

[118]  J. Townsend,et al.  NIH Public Access Author Manuscript , 2006 .

[119]  Alexandros D. Polydorides,et al.  The splice of life: Alternative splicing and neurological disease , 2001, Nature Reviews Neuroscience.

[120]  P. Khaitovich,et al.  BMC Genomics BioMed Central Methodology article Estimating accuracy of RNA-Seq and microarrays with proteomics , 2022 .

[121]  R. Jansen,et al.  University of Groningen High Resolution of Quantitative Traits Into Multiple Loci via Interval Mapping , 2022 .