Gene Ontology Analysis of GWA Study Data Sets Provides Insights into the Biology of Bipolar Disorder

Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles

Subramanian, A., Tamayo, P., Mootha, V. K., Mukherjee, S., Ebert, B. L., Gillette, M. A., Paulovich, A., Pomeroy, S. L., Golub, T. R., Lander, E. S., et al. (2005) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0506580102 · Cited by 53,625 · see citing works

Genome-wide association study of 14,000 cases of seven common diseases and 3,000 shared controls

The Wellcome Trust Case Control Consortium, Management Committee, Burton, P. R., Clayton, D. G., Cardon, L. R., Craddock, N., Deloukas, P., Duncanson, A., Kwiatkowski, D. P., McCarthy, M. I., et al. (2007) · Nature · doi:10.1038/nature05911 · Cited by 9,442 · see citing works

The Gene Ontology (GO) database and informatics resource

Gene Ontology Consortium (2003) · Nucleic Acids Research · doi:10.1093/nar/gkh036 · Cited by 4,533 · see citing works

MANIC DEPRESSIVE ILLNESS

Davenport, Y. B., Adland, M. L., Gold, P. W., & Goodwin, F. K. (1984) · The Lancet · doi:10.1016/s0140-6736(84)92810-1 · Cited by 2,925 · see citing works

The Wellcome Trust Case Control Consortium, U.K.

Mossman, K. (2008) · Scientific American · doi:10.1038/scientificamerican0108-42a · Cited by 2,714 · see citing works

A new multipoint method for genome-wide association studies by imputation of genotypes

Marchini, J., Howie, B., Myers, S., McVean, G., & Donnelly, P. (2007) · Nature Genetics · doi:10.1038/ng2088 · Cited by 2,609 · see citing works

Genome-wide association defines more than 30 distinct susceptibility loci for Crohn's disease

the NIDDK IBD Genetics Consortium, Barrett, J. C., the Belgian-French IBD Consortium, the Wellcome Trust Case Control Consortium, Hansoul, S., Nicolae, D. L., Cho, J. H., Duerr, R. H., Rioux, J. D., Brant, S. R., et al. (2008) · Nature Genetics · doi:10.1038/ng.175 · Cited by 2,593 · see citing works

Replication of Genome-Wide Association Signals in UK Samples Reveals Risk Loci for Type 2 Diabetes

Zeggini, E., Weedon, M. N., Lindgren, C. M., Frayling, T. M., Elliott, K. S., Lango, H., Timpson, N. J., Perry, J. R. B., Rayner, N. W., Freathy, R. M., et al. (2007) · Science · doi:10.1126/science.1142364 · Cited by 2,194 · see citing works

A Simple Correction for Multiple Testing for Single-Nucleotide Polymorphisms in Linkage Disequilibrium with Each Other

Nyholt, D. R. (2004) · The American Journal of Human Genetics · doi:10.1086/383251 · Cited by 1,699 · see citing works

Walking the Interactome for Prioritization of Candidate Disease Genes

Köhler, S., Bauer, S., Horn, D., & Robinson, P. N. (2008) · The American Journal of Human Genetics · doi:10.1016/j.ajhg.2008.02.013 · Cited by 1,268 · see citing works

GOstat: find statistically overrepresented Gene Ontologies within a group of genes

Beißbarth, T., & Speed, T. P. (2004) · Bioinformatics · doi:10.1093/bioinformatics/bth088 · Cited by 1,256 · see citing works

Collaborative genome-wide association analysis supports a role for ANK3 and CACNA1C in bipolar disorder

Wellcome Trust Case Control Consortium, Ferreira, M. A. R., O'Donovan, M. C., Meng, Y. A., Jones, I. R., Ruderfer, D. M., Jones, L., Fan, J., Kirov, G., Perlis, R. H., et al. (2008) · Nature Genetics · doi:10.1038/ng.209 · Cited by 1,237 · see citing works

Complete sequence and gene map of a human major histocompatibility complex

The MHC sequencing consortium (1999) · Nature · doi:10.1038/44853 · Cited by 1,069 · see citing works

A HapMap harvest of insights into the genetics of common disease

Manolio, T. A., Brooks, L. D., & Collins, F. S. (2008) · Journal of Clinical Investigation · doi:10.1172/jci34772 · Cited by 889 · see citing works

Pathway-Based Approaches for Analysis of Genomewide Association Studies

Wang, K., Li, M., & Bućan, M. (2007) · The American Journal of Human Genetics · doi:10.1086/522374 · Cited by 858 · see citing works

Functional variants of OCTN cation transporter genes are associated with Crohn disease

Peltekova, V. D., Wintle, R. F., Rubin, L. A., Amos, C. I., Huang, Q., Gu, X., Newman, W. G., Oene, M. V., Cescon, D. W., Greenberg, G. R., et al. (2004) · Nature Genetics · doi:10.1038/ng1339 · Cited by 837 · see citing works

High-Resolution Mapping of Expression-QTLs Yields Insight into Human Gene Regulation

Veyrieras, J.-B., Kudaravalli, S., Kim, S. Y., Dermitzakis, E. T., Gilad, Y., Stephens, M., & Pritchard, J. K. (2008) · PLoS Genetics · doi:10.1371/journal.pgen.1000214 · Cited by 536 · see citing works

Multiple links between transcription and splicing

Kornblihtt, A. R., de la Mata, M., Fededa, J. P., Muñoz, M. J., & Nogués, G. (2004) · RNA · doi:10.1261/rna.7100104 · Cited by 492 · see citing works

Reconstruction of a Functional Human Gene Network, with an Application for Prioritizing Positional Candidate Genes

Franke, L., Bakel, H. V., Fokkens, L., de Jong, E. D., Egmont-Petersen, M., & Wijmenga, C. (2006) · The American Journal of Human Genetics · doi:10.1086/504300 · Cited by 476 · see citing works

A crucial function of SGT1 and HSP90 in inflammasome activity links mammalian and plant innate immune responses

Mayor, A., Martinon, F., Smedt, T. D., Pétrilli, V., & Tschopp, J. (2007) · Nature Immunology · doi:10.1038/ni1459 · Cited by 438 · see citing works

Pathways to the analysis of microarray data

Curtis, R. K., Orešič, M., & Vidal‐Puig, A. (2005) · Trends in biotechnology · doi:10.1016/j.tibtech.2005.05.011 · Cited by 308 · see citing works

Manic-Depressive Illness

Fernandes, P., Ramaswamy, S., Marcil, W., & Petty, F. (2007) · xPharm: The Comprehensive Pharmacology Reference · doi:10.1016/b978-008055232-3.60649-x · Cited by 294 · see citing works

Speeding disease gene discovery by sequence based candidate prioritization

Adie, E. A., Adams, R. R., Evans, K. L., Porteous, D. J., & Pickard, B. S. (2005) · BMC Bioinformatics · doi:10.1186/1471-2105-6-55 · Cited by 249 · see citing works

Hypothalamic-pituitary-adrenal axis and bipolar disorder

Daban, C., Vieta, E., Mackin, P., & Young, A. H. (2005) · Psychiatric Clinics of North America · doi:10.1016/j.psc.2005.01.005 · Cited by 245 · see citing works

The Immune Response in Inflammatory Bowel Disease

Brown, S. J., & Mayer, L. (2007) · The American Journal of Gastroenterology · doi:10.1111/j.1572-0241.2007.01343.x · Cited by 237 · see citing works

Psychosis Genetics: Modeling the Relationship Between Schizophrenia, Bipolar Disorder, and Mixed (or "Schizoaffective") Psychoses

Craddock, N., O'Donovan, M. C., & Owen, M. J. (2009) · Schizophrenia Bulletin · doi:10.1093/schbul/sbp020 · Cited by 216 · cited 3× · see citing works

Integration of text- and data-mining using ontologies successfully selects disease gene candidates

Tiffin, N. (2005) · Nucleic Acids Research · doi:10.1093/nar/gki296 · Cited by 210 · see citing works

New links to the pathogenesis of Crohn disease provided by genome-wide association scans

Mathew, C. G. (2007) · Nature Reviews Genetics · doi:10.1038/nrg2203 · Cited by 203 · see citing works

The Effects of Lithium Therapy on Thyroid and Thyrotropin-Releasing Hormone

Lazarus, J. H. (1998) · Thyroid · doi:10.1089/thy.1998.8.909 · Cited by 201 · see citing works

Rethinking psychosis: the disadvantages of a dichotomous classification now outweigh the advantages.

Craddock, N. J., & Owen, M. J. (2007) · Europe PMC (PubMed Central) · Cited by 184 · see citing works

Lithium induces clearance of protease resistant prion protein in prion‐infected cells by induction of autophagy

Heiseke, A., Aguib, Y., Riemer, C., Baier, M., & Schätzl, H. M. (2009) · Journal of Neurochemistry · doi:10.1111/j.1471-4159.2009.05906.x · Cited by 183 · see citing works

Psychoneuroendocrinology of mood disorders. The hypothalamic-pituitary-thyroid axis.

Hendrick, V., Altshuler, L., & Whybrow, P. (1998) · Psychiatric Clinics of North America · doi:10.1016/s0193-953x(05)70005-8 · Cited by 135 · see citing works

The Gene Ontology Annotation (GOA) Database--an integrated resource of GO annotations to the UniProt Knowledgebase.

Camon, E. B., Barrell, D. G., Lee, V., Dimmer, E. C., & Apweiler, R. (2004) · PubMed · Cited by 133 · see citing works

New implications for the QUAKING RNA binding protein in human disease

Chénard, C. A., & Richard, S. (2007) · Journal of Neuroscience Research · doi:10.1002/jnr.21485 · Cited by 131 · see citing works

The hypothalamic–pituitary–gonadal axis in mood disorders

Young, E. A., & Korszun, A. (2002) · Endocrinology and Metabolism Clinics of North America · doi:10.1016/s0889-8529(01)00002-0 · Cited by 114 · see citing works

Genetic utility of broadly defined bipolar schizoaffective disorder as a diagnostic concept

Hamshere, M. L., Green, E., Jones, I. R., Jones, L. A., Moskvina, V., Kirov, G., Grozeva, D., Nikolov, I., Vukcevic, D., Caesar, S., et al. (2009) · The British Journal of Psychiatry · doi:10.1192/bjp.bp.108.061424 · Cited by 96 · see citing works

Gene-centric association mapping of chromosome 3p implicates MST1 in IBD pathogenesis

Goyette, P., Lefebvre, C., Ng, A., Brant, S. R., Cho, J. H., Duerr, R. H., Silverberg, M. S., Taylor, K. D., Latiano, A., Aumais, G. L., et al. (2008) · Mucosal Immunology · doi:10.1038/mi.2007.15 · Cited by 90 · see citing works

Molecular dissection of NRG1-ERBB4 signaling implicates PTPRZ1 as a potential schizophrenia susceptibility gene

Buxbaum, J. D., Georgieva, L., Young, J. J., Plescia, C., Kajiwara, Y., Jiang, Y., Moskvina, V, Norton, N., Peirce, T., Williams, H., et al. (2008) · Molecular Psychiatry · doi:10.1038/sj.mp.4001991 · Cited by 86 · see citing works

GO PaD: the Gene Ontology Partition Database

Alterovitz, G., Xiang, M. H., Mohan, M., & Ramoni, M. F. (2006) · Nucleic Acids Research · doi:10.1093/nar/gkl799 · Cited by 72 · see citing works

Genetic-linkage mapping of complex hereditary disorders to a whole-genome molecular-interaction networkPreprint

Iossifov, I. H., Zheng, T., Baron, M., Gilliam, T. C., & Rzhetsky, A. (2008) · Genome Research · doi:10.1101/gr.075622.107 · Cited by 70 · see citing works

Genome-wide association studies in psychiatry: lessons from early studies of non-psychiatric and psychiatric phenotypes

Craddock, N. J., O’Donovan, M. C., & Owen, M. J. (2008) · Molecular Psychiatry · doi:10.1038/mp.2008.45 · Cited by 64 · see citing works

Variants in common diseases

Freimer, N. B., & Sabatti, C. (2007) · Nature · doi:10.1038/nature05568 · Cited by 64 · see citing works

An increased risk of Crohn's disease in individuals who inherit the HLA class II DRB3*0301 allele.

Forcione, D. G., Sands, B. E., Isselbacher, K. J., Rustgi, A. K., Podolsky, D. K., & Pillai, S. S. (1996) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.93.10.5094 · Cited by 59 · see citing works

Autoantibodies against ubiquitination factor E4A (UBE4A) are associated with severity of Crohnʼs disease

Sakiyama, T., Fujita, H., & Tsubouchi, H. (2007) · Inflammatory Bowel Diseases · doi:10.1002/ibd.20328 · Cited by 39 · see citing works

Analysis of MHC class II DP, DQ and DR alleles in Crohn’s disease

Cariappa, A., Sands, B. E., Forcione, D. G., Finkelstein, D. M., Podolsky, D. K., & Pillai, S. S. (1998) · Gut · doi:10.1136/gut.43.2.210 · Cited by 39 · see citing works

Biological insights from 108 schizophrenia-associated genetic loci

Schizophrenia Working Group of the Psychiatric Genomics Consortium (2014) · Nature · doi:10.1038/nature13595 · Cited by 7,577 · see citing works

MAGMA: Generalized Gene-Set Analysis of GWAS Data

de Leeuw, C. A., Mooij, J. M., Heskes, T., & Posthuma, D. (2015) · PLOS Computational Biology · doi:10.1371/journal.pcbi.1004219 · Cited by 3,653 · see citing works

Five Years of GWAS Discovery

Visscher, P. M., Brown, M. A., McCarthy, M. I., & Yang, J. (2012) · The American Journal of Human Genetics · doi:10.1016/j.ajhg.2011.11.029 · Cited by 2,425 · see citing works

Common variants conferring risk of schizophrenia

†Genetic Risk and Outcome in Psychosis (GROUP), Stefansson, H., Ophoff, R. A., Steinberg, S., Andreassen, O. A., Cichon, S., Rujescu, D., Werge, T., Pietiläinen, O. P. H., Mors, O., et al. (2009) · Nature · doi:10.1038/nature08186 · Cited by 1,677 · see citing works

WEB-based GEne SeT AnaLysis Toolkit (WebGestalt): update 2013

Wang, J., Duncan, D. T., Shi, Z., & Zhang, B. (2013) · Nucleic Acids Research · doi:10.1093/nar/gkt439 · Cited by 1,502 · see citing works

Genetic architectures of psychiatric disorders: the emerging picture and its implications

Sullivan, P. F., Daly, M. J., & O'Donovan, M. (2012) · Nature Reviews Genetics · doi:10.1038/nrg3240 · Cited by 1,177 · see citing works

Rare coding variants in PLCG2, ABI3, and TREM2 implicate microglial-mediated innate immunity in Alzheimer's disease

ARUK Consortium, Sims, R., GERAD/PERADES, C., van der Lee, S. J., Naj, A. C., Bellenguez, C., Badarinarayan, N., Jakobsdottir, J., Kunkle, B. W., Boland, A., et al. (2017) · Nature Genetics · doi:10.1038/ng.3916 · Cited by 1,126 · see citing works

Psychiatric genome-wide association study analyses implicate neuronal, immune and histone pathways

The Network and Pathway Analysis Subgroup of the Psychiatric Genomics Consortium (2015) · Nature Neuroscience · doi:10.1038/nn.3922 · Cited by 755 · see citing works

A Versatile Gene-Based Test for Genome-wide Association Studies

Liu, J. Z., McRae, A. F., Nyholt, D. R., Medland, S. E., Wray, N. R., Brown, K. M., Hayward, N. K., Montgomery, G. W., Visscher, P. M., Martin, N. G., et al. (2010) · The American Journal of Human Genetics · doi:10.1016/j.ajhg.2010.06.009 · Cited by 791 · see citing works

Analysing biological pathways in genome-wide association studies

Wang, K., Li, M., & Hakonarson, H. H. (2010) · Nature Reviews Genetics · doi:10.1038/nrg2884 · Cited by 757 · see citing works

Gene–environment-wide association studies: emerging approaches

Thomas, D. C. (2010) · Nature Reviews Genetics · doi:10.1038/nrg2764 · Cited by 694 · see citing works

Identification of Genetic Factors that Modify Clinical Onset of Huntington’s Disease

Lee, J.-M., Wheeler, V. C., Chao, M. J., Vonsattel, J. P. G., Pinto, R. M., Lucente, D., Abu-Elneel, K., Ramos, E. M., Mysore, J. S., Gillis, T., et al. (2015) · Cell · doi:10.1016/j.cell.2015.07.003 · Cited by 655 · see citing works

Genetics of bipolar disorder

Craddock, N. J., & Sklar, P. B. (2013) · The Lancet · doi:10.1016/s0140-6736(13)60855-7 · Cited by 635 · see citing works

Prioritizing GWAS Results: A Review of Statistical Methods and Recommendations for Their Application

Cantor, R. M., Lange, K. L., & Sinsheimer, J. S. (2010) · The American Journal of Human Genetics · doi:10.1016/j.ajhg.2009.11.017 · Cited by 621 · see citing works

Genetic evidence implicates the immune system and cholesterol metabolism in the aetiology of Alzheimer’s disease

Jones, L., Holmans, P. A., Hamshere, M. L., Harold, D., Moskvina, V., Ivanov, D., Pocklington, A., Abraham, R., Hollingworth, P., Sims, R., et al. (2010) · PLoS ONE · doi:10.1371/journal.pone.0013950 · Cited by 606 · see citing works

CAG Repeat Not Polyglutamine Length Determines Timing of Huntington’s Disease Onset

Lee, J., Correia, K., Loupe, J. M., Kim, K., Barker, D., Hong, E. P., Chao, M. J., Long, J. D., Lucente, D. E., Vonsattel, J. P., et al. (2019) · Cell · doi:10.1016/j.cell.2019.06.036 · Cited by 532 · see citing works

Bioinformatics challenges for genome-wide association studies

Moore, J. H., Asselbergs, F. W., & Williams, S. M. (2010) · Bioinformatics · doi:10.1093/bioinformatics/btp713 · Cited by 531 · see citing works

A “Candidate-Interactome” Aggregate Analysis of Genome-Wide Association Data in Multiple Sclerosis

Mechelli, R., Umeton, R., Policano, C., Annibali, V., Coarelli, G., Ricigliano, V. A. G., Vittori, D., Fornasiero, A., Buscarinu, M. C., Romano, S., et al. (2013) · PLoS ONE · doi:10.1371/journal.pone.0063300 · Cited by 513 · see citing works

The multiplex model of the genetics of Alzheimer's disease

Sims, R., Hill, M., & Williams, J. (2020) · Nature Neuroscience · doi:10.1038/s41593-020-0599-5 · Cited by 466 · see citing works

The genetics of attention deficit/hyperactivity disorder in adults, a review

on behalf of the International Multicentre persistent ADHD CollaboraTion (IMpACT), Franke, B., Faraone, S. V., Asherson, P., Buitelaar, J., Bau, C. H. D., Ramos-Quiroga, J. A., Mick, E., Grevet, E. H., Johansson, S., et al. (2012) · Molecular Psychiatry · doi:10.1038/mp.2011.138 · Cited by 432 · see citing works

GWAS of Cerebrospinal Fluid Tau Levels Identifies Risk Variants for Alzheimer’s Disease

Cruchaga, C., Kauwe, J. S. K., Harari, O., Jin, S. C., Cai, Y., Karch, C. M., Benitez, B. A., Jeng, A. T., Skorupa, T., Carrell, D., et al. (2013) · Neuron · doi:10.1016/j.neuron.2013.02.026 · Cited by 383 · see citing works

GATES: A Rapid and Powerful Gene-Based Association Test Using Extended Simes Procedure

Li, M., Gui, H., Kwan, J. S. H., & Sham, P. C. (2011) · The American Journal of Human Genetics · doi:10.1016/j.ajhg.2011.01.019 · Cited by 378 · see citing works

Epistasis and Its Implications for Personal Genetics

Moore, J. H., & Williams, S. M. (2009) · The American Journal of Human Genetics · doi:10.1016/j.ajhg.2009.08.006 · Cited by 350 · see citing works

Fast and Rigorous Computation of Gene and Pathway Scores from SNP-Based Summary Statistics

Lamparter, D., Marbach, D., Rueedi, R., Kutalik, Z., & Bergmann, S. (2016) · PLoS Computational Biology · doi:10.1371/journal.pcbi.1004714 · Cited by 312 · see citing works

A computational tool (H-MAGMA) for improved prediction of brain-disorder risk genes by incorporating brain chromatin interaction profiles

Sey, N. Y. A., Hu, B., Mah, W., Fauni, H., McAfee, J. C., Rajarajan, P., Brennand, K. J., Akbarian, S., & Won, H. (2020) · Nature Neuroscience · doi:10.1038/s41593-020-0603-0 · Cited by 297 · see citing works

The statistical properties of gene-set analysis

de Leeuw, C., Neale, B. M., Heskes, T., & Posthuma, D. (2016) · Nature Reviews Genetics · doi:10.1038/nrg.2016.29 · Cited by 286 · see citing works

INRICH: interval-based enrichment analysis for genome-wide association studies

Lee, P. H., O'Dushlaine, C., Thomas, B., & Purcell, S. M. (2012) · Bioinformatics · doi:10.1093/bioinformatics/bts191 · Cited by 238 · see citing works

Pathway analysis of genomic data: concepts, methods, and prospects for future development

Ramanan, V. K., Shen, L., Moore, J. H., & Saykin, A. J. (2012) · Trends in Genetics · doi:10.1016/j.tig.2012.03.004 · Cited by 252 · see citing works

Identification of Pathways for Bipolar Disorder: A Meta-analysis

Nurnberger, J. I., Koller, D. L., Jung, J., Edenberg, H. J., Foroud, T., Guella, I., Vawter, M. P., & Kelsoe, J. R. (2014) · JAMA Psychiatry · doi:10.1001/jamapsychiatry.2014.176 · Cited by 234 · see citing works

Markers of inflammation and stress distinguish subsets of individuals with schizophrenia and bipolar disorder

Fillman, S. G., Sinclair, D., Fung, S. J., Webster, M. J., & Shannon Weickert, C. (2014) · Translational Psychiatry · doi:10.1038/tp.2014.8 · Cited by 226 · see citing works

Molecular pathways involved in neuronal cell adhesion and membrane scaffolding contribute to schizophrenia and bipolar disorder susceptibility

O'Dushlaine, C., Kenny, E., Heron, E., Donohoe, G., Gill, M., Morris, D., The International Schizophrenia Consortium, & Corvin, A. (2011) · Molecular Psychiatry · doi:10.1038/mp.2010.7 · Cited by 228 · see citing works

Integrated Genome-Wide Association Study Findings: Identification of a Neurodevelopmental Network for Attention Deficit Hyperactivity Disorder

Poelmans, G., Pauls, D. L., Buitelaar, J. K., & Franke, B. (2011) · American Journal of Psychiatry · doi:10.1176/appi.ajp.2010.10070948 · Cited by 223 · see citing works

Convergent genetic and expression data implicate immunity in Alzheimer's disease

International Genomics of Alzheimer's Disease Consortium (IGAP), Jones, L., Lambert, J., Wang, L., Choi, S., Harold, D., Vedernikov, A., Escott‐Price, V., Stone, T., Richards, A., et al. (2015) · Alzheimer's & Dementia · doi:10.1016/j.jalz.2014.05.1757 · Cited by 199 · see citing works

Gene set analysis of genome-wide association studies: Methodological issues and perspectives

Wang, L., Jia, P., Wolfinger, R. D., Chen, X., & Zhao, Z. (2011) · Genomics · doi:10.1016/j.ygeno.2011.04.006 · Cited by 207 · see citing works

Common variants conferring risk of schizophrenia: A pathway analysis of GWAS data

Jia, P., Wang, L., Meltzer, H. Y., & Zhao, Z. (2010) · Schizophrenia Research · doi:10.1016/j.schres.2010.07.001 · Cited by 199 · see citing works

Investigating the Contribution of Common Genetic Variants to the Risk and Pathogenesis of ADHD

Stergiakouli, E., Hamshere, M., Holmans, P., Langley, K., Zaharieva, I., Hawi, Z., Kent, L., Gill, M., Williams, N., Owen, M., et al. (2012) · American Journal of Psychiatry · doi:10.1176/appi.ajp.2011.11040551 · Cited by 220 · see citing works

i-GSEA4GWAS: a web server for identification of pathways/gene sets associated with traits by applying an improved gene set enrichment analysis to genome-wide association study

Zhang, K., Cui, S., Chang, S., Zhang, L., & Wang, J. (2010) · Nucleic Acids Research · doi:10.1093/nar/gkq324 · Cited by 178 · see citing works

ChIP-Enrich: gene set enrichment testing for ChIP-seq data

Welch, R. P., Lee, C., Imbriano, P. M., Patil, S., Weymouth, T. E., Smith, R. A., Scott, L. J., & Sartor, M. A. (2014) · Nucleic Acids Research · doi:10.1093/nar/gku463 · Cited by 151 · see citing works

Genetic analysis of quantitative phenotypes in AD and MCI: imaging, cognition and biomarkers

Initiative, A. D. N., Shen, L., Thompson, P. M., Potkin, S. G., Bertram, L., Farrer, L. A., Foroud, T., Green, R. C., Hu, X., Huentelman, M. J., et al. (2013) · Brain Imaging and Behavior · doi:10.1007/s11682-013-9262-z · Cited by 174 · see citing works

Heterogeneous Network Edge Prediction: A Data Integration Approach to Prioritize Disease-Associated Genes

Himmelstein, D. S., & Baranzini, S. E. (2015) · PLOS Computational Biology · doi:10.1371/journal.pcbi.1004259 · Cited by 172 · see citing works

How far from the SNP may the causative genes be?

Brodie, A., Azaria, J. R., & Ofran, Y. (2016) · Nucleic Acids Research · doi:10.1093/nar/gkw500 · Cited by 172 · see citing works

A Survey of Genomic Studies Supports Association of Circadian Clock Genes with Bipolar Disorder Spectrum Illnesses and Lithium Response

McCarthy, M. J., Nievergelt, C. M., Kelsoe, J. R., & Welsh, D. K. (2012) · PLoS ONE · doi:10.1371/journal.pone.0032091 · Cited by 172 · see citing works

Functional gene group analysis identifies synaptic gene groups as risk factor for schizophrenia

the International Schizophrenia Consortium, Lips, E. S., Cornelisse, L. N., Toonen, R. F., Min, J. L., Hultman, C. M., Holmans, P. A., O'Donovan, M. C., Purcell, S. M., Smit, A. B., et al. (2012) · Molecular Psychiatry · doi:10.1038/mp.2011.117 · Cited by 167 · see citing works

Network-Based Multiple Sclerosis Pathway Analysis with GWAS Data from 15,000 Cases and 30,000 Controls

Baranzini, S. E., Khankhanian, P., Patsopoulos, N. A., Li, M., Stankovich, J. M., Cotsapas, C. J., Søndergaard, H. B., Ban, M., Barizzone, N., Bergamaschi, L., et al. (2013) · The American Journal of Human Genetics · doi:10.1016/j.ajhg.2013.04.019 · Cited by 162 · see citing works

Methods for Investigating Gene-Environment Interactions in Candidate Pathway and Genome-Wide Association Studies

Thomas, D. C. (2010) · Annual Review of Public Health · doi:10.1146/annurev.publhealth.012809.103619 · Cited by 163 · see citing works

Association Between a Genetic Variant Related to Glutamic Acid Metabolism and Coronary Heart Disease in Individuals With Type 2 Diabetes

Qi, L., Qi, Q., Prudente, S., Mendonça, C., Andreozzi, F., Pietro, N. D., Sturma, M., Novelli, V., Mannino, G. C., Formoso, G., et al. (2013) · JAMA · doi:10.1001/jama.2013.276305 · Cited by 149 · see citing works

Common genetic variation and susceptibility to partial epilepsies: a genome-wide association study

Kasperavičiūtė, D., Catarino, C. B., Heinzen, E. L., Depondt, C., Cavalleri, G. L., Caboclo, L. O. S. F., Tate, S. K., Jamnadas-Khoda, J., Chinthapalli, K., Clayton, L. M. S., et al. (2010) · Brain · doi:10.1093/brain/awq130 · Cited by 153 · see citing works

Implication of the Immune System in Alzheimer's Disease: Evidence from Genome-Wide Pathway Analysis

Lambert, J.-C., Grenier-Boley, B., Chouraki, V., Heath, S., Zelenika, D., Fievet, N., Hannequin, D., Pasquier, F., Hanon, O., Brice, A., et al. (2010) · Journal of Alzheimer's Disease · doi:10.3233/jad-2010-100018 · Cited by 144 · see citing works

Insights into Colon Cancer Etiology via a Regularized Approach to Gene Set Analysis of GWAS Data

Chen, L., Hutter, C. M., Potter, J. D., Liu, Y., Prentice, R. L., Peters, U., & Hsu, L. (2010) · The American Journal of Human Genetics · doi:10.1016/j.ajhg.2010.04.014 · Cited by 145 · see citing works

A pathway-based analysis provides additional support for an immune-related genetic susceptibility to Parkinson's disease

Holmans, P., Moskvina, V., Jones, L., Sharma, M., Vedernikov, A., Büchel, F., Sadd, M., Brás, J., Bettella, F., Nicolaou, N., et al. (2012) · Human Molecular Genetics · doi:10.1093/hmg/dds492 · Cited by 139 · see citing works

Gene set analysis of SNP data: benefits, challenges, and future directions

Fridley, B. L., & Biernacka, J. M. (2011) · European Journal of Human Genetics · doi:10.1038/ejhg.2011.57 · Cited by 138 · see citing works

Pathway-Based Analysis Tools for Complex Diseases: A Review

Lv, J., Zuo, X., Su, W., Zhao, X., Yuan, M., Han, L., Zhao, X., Chen, Y., & Rao, S. (2014) · Genomics Proteomics & Bioinformatics · doi:10.1016/j.gpb.2014.10.002 · Cited by 138 · see citing works

Gowinda: unbiased analysis of gene set enrichment for genome-wide association studies

Kofler, R., & Schlötterer, C. (2012) · Bioinformatics · doi:10.1093/bioinformatics/bts315 · Cited by 138 · see citing works

Phenotypic Complexity, Measurement Bias, and Poor Phenotypic Resolution Contribute to the Missing Heritability Problem in Genetic Association Studies

van der Sluis, S., Verhage, M., Posthuma, D., & Dolan, C. (2010) · PLoS ONE · doi:10.1371/journal.pone.0013929 · Cited by 142 · see citing works

Genetic Predictors of Response to Serotonergic and Noradrenergic Antidepressants in Major Depressive Disorder: A Genome-Wide Analysis of Individual-Level Data and a Meta-Analysis

Tansey, K. E., Guipponi, M., Perroud, N. A., Bondolfi, G., Domenici, E., Evans, D. M., Hall, S. K., Hauser, J., Henigsberg, N., Hu, X., et al. (2012) · PLoS Medicine · doi:10.1371/journal.pmed.1001326 · Cited by 131 · see citing works

The pursuit of susceptibility genes for Alzheimer's disease: progress and prospects

Sleegers, K., Lambert, J.-C., Bertram, L., Cruts, M., Amouyel, P., & Van Broeckhoven, C. (2010) · Trends in Genetics · doi:10.1016/j.tig.2009.12.004 · Cited by 129 · see citing works

Suggestion of Roles for Both Common and Rare Risk Variants in Genome-wide Studies of Schizophrenia

Owen, M. J., Craddock, N. J., & O’Donovan, M. C. (2010) · Archives of General Psychiatry · doi:10.1001/archgenpsychiatry.2010.69 · Cited by 126 · see citing works

Genome-Wide Association Study of Clinical Dimensions of Schizophrenia: Polygenic Effect on Disorganized Symptoms

Fanous, A. H., Zhou, B., Aggen, S. H., Bergen, S. E., AMDUR, R. L., Duan, J., Sanders, A. R., Shi, J., Mowry, B. J., D, A. O. M., et al. (2012) · American Journal of Psychiatry · doi:10.1176/appi.ajp.2012.12020218 · Cited by 127 · see citing works

What psychiatric genetics has taught us about the nature of psychiatric illness and what is left to learn

Kendler, K. S. (2013) · Molecular Psychiatry · doi:10.1038/mp.2013.50 · Cited by 178 · see citing works

SNP-based pathway enrichment analysis for genome-wide association studies

Weng, L., Macciardi, F. M., Subramanian, A., Guffanti, G., Potkin, S. G., Yu, Z., & Xie, X. S. (2011) · BMC Bioinformatics · doi:10.1186/1471-2105-12-99 · Cited by 121 · see citing works

Genomewide Association Analysis of Symptoms of Alcohol Dependence in the Molecular Genetics of Schizophrenia (MGS2) Control Sample: SYMPTOMS OF AD IN THE MGS2 CONTROL SAMPLE

Kendler, K. S., Kalsi, G., Holmans, P. A., Sanders, A. R., Aggen, S. H., Dick, D. M., Aliev, F., Shi, J., Levinson, D. F., & Gejman, P. V. (2011) · Alcoholism: Clinical and Experimental Research · doi:10.1111/j.1530-0277.2010.01427.x · Cited by 121 · see citing works

Alcohol Dependence Genetics: Lessons Learned From Genome-Wide Association Studies (GWAS) and Post-GWAS Analyses

Hart, A. B., & Kranzler, H. R. (2015) · Alcoholism Clinical and Experimental Research · doi:10.1111/acer.12792 · Cited by 119 · see citing works

Use of next-generation sequencing and other whole-genome strategies to dissect neurological disease

Brás, J., Guerreiro, R. J., & Hardy, J. (2012) · Nature reviews. Neuroscience · doi:10.1038/nrn3271 · Cited by 124 · see citing works

Specific Glial Functions Contribute to Schizophrenia Susceptibility

Goudriaan, A., de Leeuw, C., Ripke, S., Hultman, C. M., Sklar, P., Sullivan, P. F., Smit, A. B., Posthuma, D., & Verheijen, M. H. G. (2014) · Schizophrenia Bulletin · doi:10.1093/schbul/sbt109 · Cited by 114 · see citing works

Functional Gene Group Analysis Reveals a Role of Synaptic Heterotrimeric G Proteins in Cognitive Ability

Ruano, D., Abecasis, G. R., Pourcain, B. S., Lips, E. H., Cornelisse, L. N., de Jong, A. P. H., Evans, D. M., Smith, G. D., Timpson, N. J., Smit, A. B., et al. (2010) · The American Journal of Human Genetics · doi:10.1016/j.ajhg.2009.12.006 · Cited by 118 · see citing works

The Genetics of Alzheimer’s Disease

Barber, R. C. (2012) · Scientifica · doi:10.6064/2012/246210 · Cited by 111 · see citing works

GenNet framework: interpretable deep learning for predicting phenotypes from genetic data

van Hilten, A., Kushner, S. A., Kayser, M., Ikram, M. A., Adams, H. H. H., Klaver, C. C. W., Niessen, W. J., & Roshchupkin, G. V. (2021) · Communications Biology · doi:10.1038/s42003-021-02622-z · Cited by 118 · see citing works

Genome-wide association studies: a primer

Corvin, A. P., Craddock, N. J., & Sullivan, P. F. (2009) · Psychological Medicine · doi:10.1017/s0033291709991723 · Cited by 111 · see citing works

Neurodevelopmental origins of bipolar disorder: iPSC models

O’Shea, K. S., & McInnis, M. G. (2015) · Molecular and Cellular Neuroscience · doi:10.1016/j.mcn.2015.11.006 · Cited by 107 · see citing works

Discovering genetic interactions bridging pathways in genome-wide association studies

Fang, G., Wang, W., Paunić, V., Heydari, H., Costanzo, M., Liu, X., Liu, X., VanderSluis, B., Oately, B., Steinbach, M. S., et al. (2019) · Nature Communications · doi:10.1038/s41467-019-12131-7 · Cited by 101 · see citing works

Statistical Methods for Pathway Analysis of Genome-Wide Data for Association with Complex Genetic Traits

Holmans, P. (2010) · Advances in genetics · doi:10.1016/b978-0-12-380862-2.00007-2 · Cited by 99 · see citing works

Network-assisted analysis to prioritize GWAS results: principles, methods and perspectives

Jia, P., & Zhao, Z. (2013) · Human Genetics · doi:10.1007/s00439-013-1377-1 · Cited by 99 · see citing works

Integrating Sequence-based GWAS and RNA-Seq Provides Novel Insights into the Genetic Basis of Mastitis and Milk Production in Dairy Cattle

Fang, L., Sahana, G., Su, G., Yu, Y., Zhang, S., Lund, M. S., & Sørensen, P. (2017) · Scientific Reports · doi:10.1038/srep45560 · Cited by 100 · see citing works

Hypothesis-driven candidate genes for schizophrenia compared to genome-wide association results

Collins, A. L., Kim, Y., Sklar, P. B., O’Donovan, M. C., & Sullivan, P. F. (2011) · Psychological Medicine · doi:10.1017/s0033291711001607 · Cited by 98 · see citing works

Functional and genomic context in pathway analysis of GWAS data

Mooney, M. A., Nigg, J. T., McWeeney, S. K., & Wilmot, B. (2014) · Trends in Genetics · doi:10.1016/j.tig.2014.07.004 · Cited by 97 · see citing works

Identification of Novel Candidate Genes for Treatment Response to Risperidone and Susceptibility for Schizophrenia: Integrated Analysis Among Pharmacogenomics, Mouse Expression, and Genetic Case-Control Association Approaches

Ikeda, M., Tomita, Y., Mouri, A., Koga, M., Okochi, T., Yoshimura, R., Yamanouchi, Y., Kinoshita, Y., Hashimoto, R., Williams, H. J., et al. (2009) · Biological Psychiatry · doi:10.1016/j.biopsych.2009.08.030 · Cited by 96 · see citing works

Transcription and pathway analysis of the superior temporal cortex and anterior prefrontal cortex in schizophrenia

Barnes, M. R., Huxley‐Jones, J., Maycox, P. R., Lennon, M. G., Thornber, A., Kelly, F., Bates, S., Taylor, A. R., Reid, J. L., Jones, N. A., et al. (2011) · Journal of Neuroscience Research · doi:10.1002/jnr.22647 · Cited by 95 · see citing works

Converging Genetic and Functional Brain Imaging Evidence Links Neuronal Excitability to Working Memory, Psychiatric Disease, and Brain Activity

Heck, A., Fastenrath, M., Ackermann, S., Auschra, B., Bickel, H., Coynel, D., Gschwind, L., Jessen, F., Kaduszkiewicz, H., Maier, W., et al. (2014) · Neuron · doi:10.1016/j.neuron.2014.01.010 · Cited by 92 · see citing works

Genome-wide association reveals genetic effects on human Aβ 42 and τ protein levels in cerebrospinal fluids: a case control study

Han, M.-R., Schellenberg, G. D., Wang, L.-S., & Initiative, T. A. D. N. (2010) · BMC Neurology · doi:10.1186/1471-2377-10-90 · Cited by 93 · see citing works

Genetic evidence for role of integration of fast and slow neurotransmission in schizophrenia

Devor, A., Andreassen, O. A., Wang, Y., Mäki‐Marttunen, T., Smeland, O. B., Fan, C.-C., Schork, A. J., Holland, D., Thompson, W. K., Witoelar, A., et al. (2017) · Molecular Psychiatry · doi:10.1038/mp.2017.33 · Cited by 89 · see citing works

Multi-locus genome-wide association analysis supports the role of glutamatergic synaptic transmission in the etiology of major depressive disorder

Lee, P. H., Perlis, R. H., Jung, J. Y., Byrne, E. M., Rueckert, E. H., Siburian, R., Haddad, S. A., Mayerfeld, C., Heath, A. C., Pergadia, M. L., et al. (2012) · Translational Psychiatry · doi:10.1038/tp.2012.95 · Cited by 86 · see citing works

Gene set analysis: A step‐by‐step guide

Mooney, M. A., & Wilmot, B. (2015) · American Journal of Medical Genetics Part B Neuropsychiatric Genetics · doi:10.1002/ajmg.b.32328 · Cited by 86 · see citing works

Identification of gene pathways implicated in Alzheimer's disease using longitudinal imaging phenotypes with sparse regression

Silver, M. J., Janoušová, E., Hua, X., Thompson, P. M., & Montana, G. (2012) · NeuroImage · doi:10.1016/j.neuroimage.2012.08.002 · Cited by 86 · see citing works

Cell adhesion molecules contribute to Alzheimer’s disease: multiple pathway analyses of two genome‐wide association studies

Liu, G., Jiang, Y., Wang, P., Feng, R., Jiang, N., Chen, X., Song, H., & Chen, Z. (2011) · Journal of Neurochemistry · doi:10.1111/j.1471-4159.2011.07547.x · Cited by 83 · see citing works

Limited Evidence for Classic Selective Sweeps in African Populations

Granka, J. M., Henn, B. M., Gignoux, C. R., Kidd, J. M., Bustamante, C. D., & Feldman, M. W. (2012) · Genetics · doi:10.1534/genetics.112.144071 · Cited by 78 · see citing works

Genetic Relationship between Schizophrenia and Nicotine Dependence

Chen, J., Bacanu, S., Yu, H., Zhao, Z., Jia, P., Kendler, K. S., Kranzler, H. R., Gelernter, J. E., Farrer, L. A., Minică, C. C., et al. (2016) · Scientific Reports · doi:10.1038/srep25671 · Cited by 82 · see citing works

Insights into Pancreatic Cancer Etiology from Pathway Analysis of Genome-Wide Association Study Data

Wei, P., Tang, H., & Li, D. (2012) · PLoS ONE · doi:10.1371/journal.pone.0046887 · Cited by 82 · see citing works

Efficient pathway enrichment and network analysis of GWAS summary data using GSA-SNP2

Yoon, S., Nguyen, H. C. T., Yoo, Y. J., Kim, J., Baik, B., Kim, S., Kim, J., Kim, S., & Nam, D. (2018) · Nucleic Acids Research · doi:10.1093/nar/gky175 · Cited by 81 · see citing works

Inferring gene ontologies from pairwise similarity data

Kramer, M. H., Dutkowski, J., Yu, M., Bafna, V., & Ideker, T. (2014) · Bioinformatics · doi:10.1093/bioinformatics/btu282 · Cited by 78 · see citing works

Genome-wide association study of primary tooth eruption identifies pleiotropic loci associated with height and craniofacial distances

Fatemifar, G., Hoggart, C. J., Paternoster, L., Kemp, J. P., Prokopenko, I., Horikoshi, M., Wright, V. J., Tobias, J. H., Richmond, S., Zhurov, A. I., et al. (2013) · Human Molecular Genetics · doi:10.1093/hmg/ddt231 · Cited by 79 · see citing works

Pharmacogenetics of Lithium Response in Bipolar Disorder

McCarthy, M. J., Leckband, S. G., & Kelsoe, J. R. (2010) · Pharmacogenomics · doi:10.2217/pgs.10.127 · Cited by 78 · see citing works

Whole genome association scan for genetic polymorphisms influencing information processing speed

Michelle Luciano, A., Hansell, N. K., Lahti, J. M. T., Davies, G., Medland, S. E., Räikkönen, K., Tenesa, A., Widén, E., McGhee, K. A., Palotie, A. V., et al. (2010) · Biological Psychology · doi:10.1016/j.biopsycho.2010.11.008 · Cited by 78 · see citing works

From SNPs to Genes: Disease Association at the Gene Level

Lehne, B. C., Lewis, C. M., & Schlitt, T. (2011) · PLoS ONE · doi:10.1371/journal.pone.0020133 · Cited by 77 · see citing works

Uncovering Networks from Genome-Wide Association Studies via Circular Genomic Permutation

Cabrera, C., Navarro, P., Huffman, J. E., Wright, A. F., Hayward, C., Campbell, H. J., Wilson, J. F., Rudan, I., Hastie, N. D., Vitart, V., et al. (2012) · G3 Genes Genomes Genetics · doi:10.1534/g3.112.002618 · Cited by 78 · see citing works

The Canadian Biomarker Integration Network in Depression (CAN-BIND): Advances in Response Prediction

Kennedy, S. H., Downar, J. H., Evans, K., Feilotter, H. E., Lam, R. W. M., MacQUEEN, G. M., Milev, R. V., Parikh, S. V., Rotzinger, S., & Soares, C. N. (2012) · Current Pharmaceutical Design · doi:10.2174/138161212803523635 · Cited by 76 · see citing works

REVIEW: Genome‐Wide Findings in Schizophrenia and the Role of Gene–Environment Interplay

van Winkel, R., Esquivel, G., Kenis, G., Wichers, M., Collip, D., Peerbooms, O., Rutten, B. P. F., Myin‐Germeys, I., & van Os, J. (2010) · CNS Neuroscience & Therapeutics · doi:10.1111/j.1755-5949.2010.00155.x · Cited by 73 · see citing works

A potential endophenotype for Alzheimer's disease: cerebrospinal fluid clusterin

Deming, Y., Xia, J., Cai, Y., Lord, J., Holmans, P., Bertelsen, S., Holtzman, D., Morris, J. C., Bales, K., Pickering, E. H., et al. (2016) · Neurobiology of Aging · doi:10.1016/j.neurobiolaging.2015.09.009 · Cited by 66 · see citing works

Using Biological Knowledge to Uncover the Mystery in the Search for Epistasis in Genome-Wide Association Studies

Ritchie, M. D. (2010) · Annals of Human Genetics · doi:10.1111/j.1469-1809.2010.00630.x · Cited by 74 · see citing works

Synthesizing genome-wide association studies and expression microarray reveals novel genes that act in the human growth plate to modulate height

Lui, J. C. K., Nilsson, O., Chan, Y., Palmer, C. D., de Andrade, A. C., Hirschhorn, J. N., & Baron, J. (2012) · Human Molecular Genetics · doi:10.1093/hmg/dds347 · Cited by 73 · see citing works

AKAPs integrate genetic findings for autism spectrum disorders

Poelmans, G., Franke, B., Pauls, D. L., Glennon, J. C., & Buitelaar, J. K. (2013) · Translational Psychiatry · doi:10.1038/tp.2013.48 · Cited by 72 · see citing works

Pathway-based analysis for genome-wide association study data of bipolar disorder provides new insights for genetic study

Suhua, Chang, Jinglu, Wang, Kunlin, Zhang, & Jing (2015) · 蛋白质与细胞：英文版

Pathway Analysis Using Information from Allele-Specific Gene Methylation in Genome-Wide Association Studies for Bipolar Disorder

Chuang, L.-C., Kao, C.-F., Shih, W., & Kuo, P. (2013) · PLoS ONE · doi:10.1371/journal.pone.0053092 · Cited by 28 · see citing works

Identification of Pathways for Bipolar Disorder: A Meta-analysis

Nurnberger, J. I., Koller, D. L., Jung, J., Edenberg, H. J., Foroud, T., Guella, I., Vawter, M. P., & Kelsoe, J. R. (2014) · JAMA Psychiatry · doi:10.1001/jamapsychiatry.2014.176 · Cited by 234 · see citing works

Pathway analysis using information from allele-specific gene methylation in genome-wide association studies for bipolar disorder. PLoS ONE

Chuang, L.-C., Kao, C.-F., Shih, W.-L., & Kuo, P.-H. (2012)

Identification of Pathways for Bipolar Disorder AMeta-analysis

Nürnberger, J. I., Daniel, P., Koller, L., Jung, J., Howard, P., Edenberg, H. J., Foroud, T., Guella, I., Marquis, P., Vawter, P., et al. (2016)