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1. Full Text Polygenic transmission disequilibrium confirms that common and rare variation act additively to create risk for autism spectrum disorders
by Weiner, Daniel J and Wigdor, Emilie M and Ripke, Stephan and Walters, Raymond K and Kosmicki, Jack A and Grove, Jakob and Samocha, Kaitlin E and Goldstein, Jacqueline I and Okbay, Aysu and Bybjerg-Grauholm, Jonas and Werge, Thomas and Hougaard, David M and Taylor, Jacob and Skuse, David and Devlin, Bernie and Anney, Richard and Sanders, Stephan J and Bishop, Somer and Mortensen, Preben Bo and Børglum, Anders D and Smith, George Davey and Daly, Mark J and Robinson, Elise B and Bækvad-Hansen, Marie and Dumont, Ashley and Hansen, Christine and Hansen, Thomas F and Howrigan, Daniel and Mattheisen, Manuel and Moran, Jennifer and Mors, Ole and Nordentoft, Merete and Nørgaard-Pedersen, Bent and Poterba, Timothy and Poulsen, Jesper and Stevens, Christine and Anttila, Verneri and Holmans, Peter and Huang, Hailiang and Klei, Lambertus and Lee, Phil H and Medland, Sarah E and Neale, Benjamin and Weiss, Lauren A and Zwaigenbaum, Lonnie and Yu, Timothy W and Wittemeyer, Kerstin and Willsey, A Jeremy and Wijsman, Ellen M and Wassink, Thomas H and Waltes, Regina and Walsh, Christopher A and Wallace, Simon and Vorstman, Jacob A. S and Vieland, Veronica J and Vicente, Astrid M and Van Engeland, Herman and Tsang, Kathryn and Thompson, Ann P and Szatmari, Peter and Svantesson, Oscar and Steinberg, Stacy and Stefansson, Kari and Stefansson, Hreinn and State, Matthew W and Soorya, Latha and Silagadze, Teimuraz and Scherer, Stephen W and Schellenberg, Gerard D and Sandin, Sven and Saemundsen, Evald and Rouleau, Guy A and Rogé, Bernadette and Roeder, Kathryn and Roberts, Wendy and Reichert, Jennifer and Reichenberg, Abraham and Rehnström, Karola and Regan, Regina and Poustka, Fritz and Poultney, Christopher S and Piven, Joseph and Pinto, Dalila and Pericak-Vance, Margaret A and Pejovic-Milovancevic, Milica and Pedersen, Marianne G and Pedersen, Carsten B and Paterson, Andrew D and Parr, Jeremy R and Pagnamenta, Alistair T and Oliveira, Guiomar and Nurnberger, John I and Murtha, Michael T and Mouga, Susana and Morrow, Eric M and DeLuca, Daniel Moreno and Monaco, Anthony P and Minshew, Nancy and Merikangas, Alison and McMahon, William M and ... and Psychiat Genomics Consortium and iPSYCH-Broad Autism Grp and iPSYCH-Broad Autism Group and Psychiatric Genomics Consortium Autism Group and Gillberg Neuropsychiatry Centre and Sahlgrenska akademin and Göteborgs universitet and Gothenburg University and Gillbergcentrum and Sahlgrenska Academy
Nature Genetics, ISSN 1061-4036, 07/2017, Volume 49, Issue 7, pp. 978 - 985
Autism spectrum disorder (ASD) risk is influenced by common polygenic and de novo variation. We aimed to clarify the influence of polygenic risk for ASD and to... 
DE-NOVO | VARIANTS | GENETIC RISK | GENETICS & HEREDITY | MUTATIONS | SIMONS SIMPLEX COLLECTION | GENOME-WIDE ASSOCIATION | INSIGHTS | Autism Spectrum Disorder - genetics | Sequence Deletion | Genetic Predisposition to Disease | Genetic Association Studies | Humans | Risk Factors | Family Health | Genetics, Behavioral | Male | Educational Status | Intelligence - genetics | Multifactorial Inheritance | Intellectual Disability - genetics | Genetic Variation | Phenotype | Ethnic Groups - genetics | Schizophrenia - genetics | Autism Spectrum Disorder - epidemiology | Adult | Female | Child | Cohort Studies | Family | Genetic aspects | Genetic transformation | Research | Risk factors | Pervasive developmental disorders | Mental disorders | Intellectual disabilities | Disorders | Schizophrenia | Risk | Genomes | Cases (containers) | Subgroups | Educational attainment | Children & youth | Proteins | Studies | Consortia | Autism | Parents & parenting | Etiology | Population | Mutation | Children | Psychiatry | Index Medicus | Life Sciences | Neurons and Cognition | Neurologi | disease | biology | insights | variants | Genetics & Heredity | de-novo | Neurology | mutations | general-population | genetic risk | genome-wide association | loci
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2. Full Text Elevated polygenic burden for autism is associated with differential DNA methylation at birth
by Hannon, Eilis and Schendel, Diana and Ladd-Acosta, Christine and Grove, Jakob and Hansen, Christine Søholm and Andrews, Shan V and Hougaard, David Michael and Bresnahan, Michaeline and Mors, Ole and Hollegaard, Mads Vilhelm and Bækvad-Hansen, Marie and Hornig, Mady and Mortensen, Preben Bo and Børglum, Anders D and Werge, Thomas and Pedersen, Marianne Giørtz and Nordentoft, Merete and Buxbaum, Joseph and Daniele Fallin, M and Bybjerg-Grauholm, Jonas and Reichenberg, Abraham and Mill, Jonathan and Agerbo, Esben and Als, Thomas D and Belliveau, Rich and Bækved-Hansen, Marie and Børglum, Anders and Cerrato, Felecia and Christensen, Jane and Chambert, Kimberly and Churchhouse, Claire and Daly, Mark and Demontis, Ditte and Dumont, Ashley and Goldstein, Jacqueline and Hansen, Christine and Hauberg, Mads and Hougaard, David and Howrigan, Daniel and Huang, Hailiang and Maller, Julian and Martin, Alicia and Martin, Joanna and Mattheisen, Manuel and Moran, Jennifer and Mortensen, Preben and Neale, Benjamin and Nyegaard, Mette and Pallsen, Jonatan and Palmer, Duncan and Pedersen, Carsten and Pedersen, Marianne and Poterba, Timothy and Poulsen, Jesper and Qvist, Per and Ripke, Stephan and Robinson, Elise and Satterstrom, Kyle and Stevens, Christine and Turley, Patrick and Walters, Raymond and iPSYCH-Broad ASD Grp and iPSYCH-Broad ASD Group
Genome Medicine, ISSN 1756-994X, 03/2018, Volume 10, Issue 1, pp. 19 - 19
Background: Autism spectrum disorder (ASD) is a severe neurodevelopmental disorder characterized by deficits in social communication and restricted, repetitive... 
Polygenic risk score | Autism | Genome-wide association study (GWAS) | Neonatal | DNA methylation | Genetics | Prenatal smoking | Birth | Epigenome-wide association study (EWAS) | DNA methylation quantitative trait loci (mQTL) | UNITED-STATES | SPECTRUM DISORDER | SCHIZOPHRENIA | LOCI | PREVALENCE | EPIGENETIC EPIDEMIOLOGY | CHROMATIN-STATE DISCOVERY | GENETIC RISK | DISABILITIES MONITORING NETWORK | GENETICS & HEREDITY | GENOME-WIDE ANALYSIS | Index Medicus
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3. Full Text Genome-wide association study identifies peanut allergy-specific loci and evidence of epigenetic mediation in US children
by Hong, Xiumei and Hao, Ke and Ladd-Acosta, Christine and Hansen, Kasper D and Tsai, Hui-Ju and Liu, Xin and Xu, Xin and Thornton, Timothy A and Caruso, Deanna and Keet, Corinne A and Sun, Yifei and Wang, Guoying and Luo, Wei and Kumar, Rajesh and Fuleihan, Ramsay and Singh, Anne Marie and Kim, Jennifer S and Story, Rachel E and Gupta, Ruchi S and Gao, Peisong and Chen, Zhu and Walker, Sheila O and Bartell, Tami R and Beaty, Terri H and Fallin, M. Daniele and Schleimer, Robert and Holt, Patrick G and Nadeau, Kari Christine and Wood, Robert A and Pongracic, Jacqueline A and Weeks, Daniel E and Wang, Xiaobin
Nature Communications, ISSN 2041-1723, 2015, Volume 6, Issue 1, pp. 6304 - 6304
Food allergy (FA) affects 2%-10% of US children and is a growing clinical and public health problem. Here we conduct the first genome-wide association study of... 
ATOPIC-DERMATITIS | ALLELES | METAANALYSIS | DNA METHYLATION | FOOD ALLERGY | PACKAGE | MULTIDISCIPLINARY SCIENCES | SUSCEPTIBILITY LOCI | FILAGGRIN GENE | QUALITY-CONTROL | HLA | Peanut Hypersensitivity - genetics | Genetic Predisposition to Disease | Genome-Wide Association Study | United States | Epigenesis, Genetic | Humans | Child, Preschool | Infant | Male | HLA-DR Antigens - genetics | Young Adult | DNA Methylation | Phenotype | HLA-DQ Antigens - genetics | Adolescent | Female | Polymorphism, Single Nucleotide | Child | Index Medicus
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4. Full Text Differential methylation of tissue- and cancer-specific CpG island shores distinguishes human induced pluripotent stem cells, embryonic stem cells and fibroblasts
by Wen, Bo and Ladd-Acosta, Christine and Feinberg, Andrew P and Rho, Junsung and Schlaeger, Thorsten and Daley, George Q and Murakami, Peter and Miller, Justine and Doi, Akiko and Aryee, Martin J and Herb, Brian and Park, In-Hyun and Irizarry, Rafael and Loewer, Sabine
Nature Genetics, ISSN 1061-4036, 12/2009, Volume 41, Issue 12, pp. 1350 - 1353
Induced pluripotent stem (iPS) cells are derived by epigenetic reprogramming, but their DNA methylation patterns have not yet been analyzed on a genome-wide... 
HUMAN SOMATIC-CELLS | DEFINED FACTORS | GENETICS & HEREDITY | Embryonic Stem Cells - metabolism | Embryonic Stem Cells - cytology | Epigenesis, Genetic | Humans | Gene Expression Profiling | DNA Methylation | Neoplasms - genetics | CpG Islands - genetics | Cell Differentiation | Fibroblasts - cytology | Induced Pluripotent Stem Cells - cytology | Fibroblasts - metabolism | Induced Pluripotent Stem Cells - metabolism | DNA damage | Physiological aspects | Fibroblasts | Genetic aspects | Research | Embryonic stem cells | Cancer | Studies | Tissue | Stem cells | Colorectal cancer | Genetics | Deoxyribonucleic acid--DNA | Binding sites | Index Medicus
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5. Full Text The human colon cancer methylome shows similar hypo- and hypermethylation at conserved tissue-specific CpG island shores
by Ji, Hong and Potash, James B and Feinberg, Andrew P and Sabunciyan, Sarven and Wen, Bo and Irizarry, Rafael A and Onyango, Patrick and Montano, Carolina and Gabo, Kevin and Ladd-Acosta, Christine and Wu, Zhijin and Cui, Hengmi and Webster, Maree and Rongione, Michael
Nature Genetics, ISSN 1061-4036, 02/2009, Volume 41, Issue 2, pp. 178 - 186
For the past 25 years, it has been known that alterations in DNA methylation (DNAm) occur in cancer, including hypomethylation of oncogenes and... 
FALSE DISCOVERY RATE | BREAST-CANCER | FREQUENT | DNA METHYLATION | PROMOTERS | GENETICS & HEREDITY | GENE-EXPRESSION | NORMALIZATION | GENOME | Colonic Neoplasms - genetics | Oligonucleotide Array Sequence Analysis | DNA Modification Methylases - antagonists & inhibitors | HCT116 Cells | Humans | Gene Expression Regulation, Neoplastic | Chromosome Mapping | Gene Expression Profiling | Colonic Neoplasms - metabolism | Organ Specificity - genetics | Colonic Neoplasms - pathology | Conserved Sequence | CpG Islands - genetics | Carcinoma - genetics | Carcinoma - metabolism | Carcinoma - pathology | DNA Methylation - physiology | Genome, Human | Gene Silencing - physiology | Colon cancer | DNA | Physiological aspects | Genetic aspects | Research | Methylation | Risk factors | Spleen | Medical research | Tissue | Brain | Genomics | Colorectal cancer | Genetics | Gene expression | Deoxyribonucleic acid--DNA | Data bases | Index Medicus
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6. Full Text Minfi: a flexible and comprehensive Bioconductor package for the analysis of Infinium DNA methylation microarrays
by Aryee, Martin J and Jaffe, Andrew E and Corrada-Bravo, Hector and Ladd-Acosta, Christine and Feinberg, Andrew P and Hansen, Kasper D and Irizarry, Rafael A
Bioinformatics, ISSN 1367-4803, 5/2014, Volume 30, Issue 10, pp. 1363 - 1369
Motivation: The recently released Infinium HumanMethylation450 array (the ‘450k’ array) provides a high-throughput assay to quantify DNA methylation (DNAm) at... 
SUBSET-QUANTILE | CANCER EPIGENETICS | BIOTECHNOLOGY & APPLIED MICROBIOLOGY | QUANTILE NORMALIZATION | BIAS | BIOCHEMICAL RESEARCH METHODS | MATHEMATICAL & COMPUTATIONAL BIOLOGY | ARRAY DATA | IDENTIFICATION | Colonic Neoplasms - genetics | DNA Methylation | Algorithms | Oligonucleotide Array Sequence Analysis - methods | Humans | Aged | Polymorphism, Single Nucleotide | Software | Genome | High-Throughput Nucleotide Sequencing - methods | Index Medicus | Original Papers
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7. Full Text Prognostic and Predictive Gene Signature for Adjuvant Chemotherapy in Resected Non–Small-Cell Lung Cancer
by Chang-Qi Zhu and Keyue Ding and Dan Strumpf and Barbara A. Weir and Matthew Meyerson and Nathan Pennell and Roman K. Thomas and Katsuhiko Naoki and Christine Ladd-Acosta and Ni Liu and Melania Pintilie and Sandy Der and Lesley Seymour and Igor Jurisica and Frances A. Shepherd and Ming-Sound Tsao
Journal of Clinical Oncology, ISSN 0732-183X, 10/2010, Volume 28, Issue 29, pp. 4417 - 4424
Purpose The JBR. 10 trial demonstrated benefit from adjuvant cisplatin/vinorelbine (ACT) in early-stage non-small-cell lung cancer (NSCLC). We hypothesized... 
SQUAMOUS-CELL | SURVIVAL | ONCOLOGY | P53 PROTEIN | ADENOCARCINOMA | MDM2 | EXPRESSION SIGNATURES | DEPENDENCE | Lung Neoplasms - genetics | Lung Neoplasms - drug therapy | Predictive Value of Tests | Carcinoma, Non-Small-Cell Lung - surgery | Prognosis | Oligonucleotide Array Sequence Analysis | Carcinoma, Non-Small-Cell Lung - genetics | Humans | Middle Aged | Male | Treatment Outcome | Gene Expression Profiling | Vinblastine - administration & dosage | Reverse Transcriptase Polymerase Chain Reaction | Cisplatin - administration & dosage | Vinblastine - analogs & derivatives | Antineoplastic Combined Chemotherapy Protocols - therapeutic use | Survival Analysis | Female | Lung Neoplasms - surgery | Aged | Carcinoma, Non-Small-Cell Lung - drug therapy | Chemotherapy, Adjuvant | Gene Expression Regulation, Neoplastic - drug effects | Index Medicus | Thor9 | To2 | To4 | Original Reports | Thor2 | Thor12 | Thor5 | To20
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8. Full Text DNA Methylation in Newborns and Maternal Smoking in Pregnancy: Genome-wide Consortium Meta-analysis
by Joubert, Bonnie R and Felix, Janine F and Yousefi, Paul and Bakulski, Kelly M and Just, Allan C and Breton, Carrie and Reese, Sarah E and Markunas, Christina A and Richmond, Rebecca C and Xu, Cheng-Jian and Xu, Zongli and Küpers, Leanne K and Oh, Sam S and Hoyo, Cathrine and Gruzieva, Olena and Söderhäll, Cilla and Salas, Lucas A and Baïz, Nour and Zhang, Hongmei and Lepeule, Johanna and Ruiz, Carlos and Ligthart, Symen and Wang, Tianyuan and Taylor, Jack A and Duijts, Liesbeth and Sharp, Gemma C and Jankipersadsing, Soesma A and Nilsen, Roy M and Vaez, Ahmad and Fallin, M. Daniele and Hu, Donglei and Litonjua, Augusto A and Fuemmeler, Bernard F and Huen, Karen and Kere, Juha and Kull, Inger and Munthe-Kaas, Monica Cheng and Gehring, Ulrike and Bustamante, Mariona and Saurel-Coubizolles, Marie José and Quraishi, Bilal M and Ren, Jie and Tost, Jörg and Gonzalez, Juan R and Peters, Marjolein J and Håberg, Siri E and van Meurs, Joyce B and Gaunt, Tom R and Kerkhof, Marjan and Corpeleijn, Eva and Feinberg, Andrew P and Eng, Celeste and Baccarelli, Andrea A and Benjamin Neelon, Sara E and Bradman, Asa and Merid, Simon Kebede and Bergström, Anna and Herceg, Zdenko and Hernandez-Vargas, Hector and Brunekreef, Bert and Pinart, Mariona and Heude, Barbara and Ewart, Susan and Yao, Jin and Lemonnier, Nathanaël and Franco, Oscar H and Wu, Michael C and Hofman, Albert and McArdle, Wendy and Van der Vlies, Pieter and Falahi, Fahimeh and Gillman, Matthew W and Barcellos, Lisa F and Kumar, Ashish and Wickman, Magnus and Guerra, Stefano and Charles, Marie-Aline and Holloway, John and Auffray, Charles and Tiemeier, Henning W and Smith, George Davey and Postma, Dirkje and Hivert, Marie-France and Eskenazi, Brenda and Vrijheid, Martine and Arshad, Hasan and Antó, Josep M and Dehghan, Abbas and Karmaus, Wilfried and Annesi-Maesano, Isabella and Sunyer, Jordi and Ghantous, Akram and Pershagen, Göran and Holland, Nina and Murphy, Susan K and DeMeo, Dawn L and Burchard, Esteban G and Ladd-Acosta, Christine and Snieder, Harold and Nystad, Wenche and ...
The American Journal of Human Genetics, ISSN 0002-9297, 04/2016, Volume 98, Issue 4, pp. 680 - 696
Epigenetic modifications, including DNA methylation, represent a potential mechanism for environmental impacts on human disease. Maternal smoking in pregnancy... 
BREAST-CANCER | IN-UTERO | CIGARETTE-SMOKING | LYMPH-NODE METASTASIS | PRENATAL EXPOSURE | TOBACCO-SMOKING | GENETICS & HEREDITY | LUNG-FUNCTION DECLINE | NEUROPILIN-2 EXPRESSION | AUTISM SPECTRUM DISORDERS | POSTSYNAPTIC DENSITY | Smoking - adverse effects | European Continental Ancestry Group - genetics | Genetic Association Studies | Epigenesis, Genetic | Humans | Child, Preschool | Infant | Chromosome Mapping | Cleft Palate - genetics | Asthma - genetics | Pregnancy | Cleft Lip - genetics | DNA Methylation | Cleft Palate - etiology | Female | Asthma - etiology | Child | Infant, Newborn | Cleft Lip - etiology | Genome-wide association studies | Genetic aspects | Nucleotide sequencing | Methylation | Health aspects | Methods | DNA sequencing | Smoking | Newborn babies | DNA methylation | Genomes | Mothers | Meta-analysis | Index Medicus
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