Associate Professor Allan McRae
Interim Director
Genome Innovation Hub (GIH)
ARC Future Fellow - GL
Institute for Molecular Biosciences
| Featured projects | Duration |
|---|---|
|
Cas9 targeted enrichment for Nanopore sequencing Genome Innovation Hub Collaborative Project (UQ infrastructure) |
2023 |
Book Chapters
Abramson, David, Carroll, Jake, Jin, Chao, Mallon, Michael, van Iperen, Zane, Nguyen, Hoang, McRae, Allan and Ming, Liang (2019). A Cache-based data movement infrastructure for on-demand scientific cloud computing. Supercomputing frontiers. (pp. 38-56) Cham, Switzerland: Springer International Publishing. doi: 10.1007/978-3-030-18645-6_3
McRae, Allan F. (2017). Analysis of genome-wide association data. Bioinformatics. Volume II: structure, function, and applications. (pp. 161-173) edited by Jonathan M. Keith. New York, NY, United States: Humana Press. doi: 10.1007/978-1-4939-6613-4_9
Journal Articles
Yao, S., Prates, K., Freydenzon, A., Assante, G., McRae, A. F., Morris, M. J. and Youngson, N. A. (2024). Liver‐specific deletion of de novo DNA methyltransferases protects against glucose intolerance in high‐fat diet‐fed male mice. The FASEB Journal, 38 (10) e23690, e23690. doi: 10.1096/fj.202301546rr
Hatton, Alesha A., Cheng, Fei-Fei, Lin, Tian, Shen, Ren-Juan, Chen, Jie, Zheng, Zhili, Qu, Jia, Lyu, Fan, Harris, Sarah E., Cox, Simon R., Jin, Zi-Bing, Martin, Nicholas G., Fan, Dongsheng, Montgomery, Grant W., Yang, Jian, Wray, Naomi R., Marioni, Riccardo E., Visscher, Peter M. and McRae, Allan F. (2024). Genetic control of DNA methylation is largely shared across European and East Asian populations. Nature Communications, 15 (1) 2713, 1-12. doi: 10.1038/s41467-024-47005-0
Borbye-Lorenzen, Nis, Zhu, Zhihong, Agerbo, Esben, Albiñana, Clara, Benros, Michael E., Bian, Beilei, Børglum, Anders D., Bulik, Cynthia M., Debost, Jean-Christophe Philippe Goldtsche, Grove, Jakob, Hougaard, David M., McRae, Allan F., Mors, Ole, Mortensen, Preben Bo, Musliner, Katherine L., Nordentoft, Merete, Petersen, Liselotte V., Privé, Florian, Sidorenko, Julia, Skogstrand, Kristin, Werge, Thomas, Wray, Naomi R., Vilhjálmsson, Bjarni J. and McGrath, John J. (2023). The correlates of neonatal complement component 3 and 4 protein concentrations with a focus on psychiatric and autoimmune disorders. Cell Genomics, 3 (12) 100457, 1-23. doi: 10.1016/j.xgen.2023.100457
Merzbacher, Charlotte, Ryan, Barry, Goldsborough, Thibaut, Hillary, Robert F., Campbell, Archie, Murphy, Lee, McIntosh, Andrew M., Liewald, David, Harris, Sarah E., McRae, Allan F., Cox, Simon R., Cannings, Timothy I., Vallejos, Catalina A., McCartney, Daniel L. and Marioni, Riccardo E. (2023). Integration of datasets for individual prediction of DNA methylation-based biomarkers. Genome Biology, 24 (1) 278. doi: 10.1186/s13059-023-03114-5
Hatton, Alesha A., Hillary, Robert F., Bernabeu, Elena, McCartney, Daniel L., Marioni, Riccardo E. and McRae, Allan F. (2023). Blood-based genome-wide DNA methylation correlations across body-fat- and adiposity-related biochemical traits. The American Journal of Human Genetics, 110 (9), 1564-1573. doi: 10.1016/j.ajhg.2023.08.004
Boen, Rune, Kaufmann, Tobias, van der Meer, Dennis, Frei, Oleksandr, Agartz, Ingrid, Ames, David, Andersson, Micael, Armstrong, Nicola J., Artiges, Eric, Atkins, Joshua R., Bauer, Jochen, Benedetti, Francesco, Boomsma, Dorret I., Brodaty, Henry, Brosch, Katharina, Buckner, Randy L., Cairns, Murray J., Calhoun, Vince, Caspers, Svenja, Cichon, Sven, Corvin, Aiden P., Facorro, Benedicto Crespo, Dannlowski, Udo, David, Friederike S., de Geus, Eco J.C., de Zubicaray, Greig I., Desrivières, Sylvane, Doherty, Joanne L., Donohoe, Gary ... Sonderby, Ida E. (2023). Beyond the Global Brain Differences: Intra-individual Variability Differences in 1q21.1 Distal and 15q11.2 BP1-BP2 Deletion Carriers. Biological Psychiatry, 95 (2), 147-160. doi: 10.1016/j.biopsych.2023.08.018
Mortlock, Sally, Houshdaran, Sahar, Kosti, Idit, Rahmioglu, Nilufer, Nezhat, Camran, Vitonis, Allison F., Andrews, Shan V., Grosjean, Parker, Paranjpe, Manish, Horne, Andrew W., Jacoby, Alison, Lager, Jeannette, Opoku-Anane, Jessica, Vo, Kim Chi, Manvelyan, Evelina, Sen, Sushmita, Ghukasyan, Zhanna, Collins, Frances, Santamaria, Xavier, Saunders, Philippa, Kober, Kord, McRae, Allan F., Terry, Kathryn L., Vallvé-Juanico, Júlia, Becker, Christian, Rogers, Peter A. W., Irwin, Juan C., Zondervan, Krina, Montgomery, Grant W. ... Giudice, Linda (2023). Global endometrial DNA methylation analysis reveals insights into mQTL regulation and associated endometriosis disease risk and endometrial function. Communications Biology, 6 (1) 780, 1-17. doi: 10.1038/s42003-023-05070-z
Chundru, V. Kartik, Marioni, Riccardo E., Pendergast, James G. D., Lin, Tian, Beveridge, Allan J., Martin, Nicholas G, Montgomery, Grant W., Hume, David A., Deary, Ian J., Visscher, Peter M., Wray, Naomi R. and McRae, Allan F. (2023). Rare genetic variants underlie outlying levels of DNA methylation and gene-expression. Human Molecular Genetics, 32 (11), 1912-1921. doi: 10.1093/hmg/ddad028
Nabais, Marta F., Gadd, Danni A., Hannon, Eilis, Mill, Jonathan, McRae, Allan F. and Wray, Naomi R. (2023). An overview of DNA methylation-derived trait score methods and applications. Genome Biology, 24 (1) 28, 28. doi: 10.1186/s13059-023-02855-7
Weihs, Antoine, Chaker, Layal, Martin, Tiphaine Christiane, Braun, Kim V.E., Campbell, Purdey J, Cox, Simon R, Fornage, Myriam, Gieger, Christian, Grabe, Hans J, Grallert, Harald, Harris, Sarah E, Kühnel, Brigitte, Marioni, Riccardo E, Martin, Nicholas G, McCartney, Daniel L, McRae, Allan F, Meisinger, Christa, Meurs, Joyce van, Nano, Jana, Nauck, Matthias, Peters, Annette, Prokisch, Holger, Roden, Michael, Selvin, Elizabeth, Beekman, Marian, van Heemst, Diana, Slagboom, Eline P, Swenson, Brenton R, Tin, Adrienne ... Teumer, Alexander (2023). Epigenome-wide association study reveals CpG sites associated with thyroid function and regulatory effects on KLF9. Thyroid (ja), 301-311. doi: 10.1089/thy.2022.0373
Li, Zhixiu, McRae, Allan F., Wang, Geng, Ellis, Jonathan J., Whyte, Jessica, Kenna, Tony J., Brown, Matthew A. and Evans, David M. (2023). Genotype by sex interactions in ankylosing spondylitis. Nature Genetics, 55 (1), 14-16. doi: 10.1038/s41588-022-01250-5
Hillary, Robert F., McCartney, Daniel L., McRae, Allan F., Campbell, Archie, Walker, Rosie M., Hayward, Caroline, Horvath, Steve, Porteous, David J., Evans, Kathryn L. and Marioni, Riccardo E. (2022). Identification of influential probe types in epigenetic predictions of human traits: implications for microarray design. Clinical Epigenetics, 14 (1) 100, 100. doi: 10.1186/s13148-022-01320-9
Freydenzon, Anna, Nabais, Marta F., Lin, Tian, Williams, Kelly L., Wallace, Leanne, Henders, Anjali K., Blair, Ian P., Wray, Naomi R., Pamphlett, Roger and McRae, Allan F. (2022). Association between DNA methylation variability and self-reported exposure to heavy metals. Scientific Reports, 12 (1) 10582, 1-9. doi: 10.1038/s41598-022-13892-w
Bian, Beilei, Couvy-Duchesne, Baptiste, Wray, Naomi R. and McRae, Allan F. (2022). The role of critical immune genes in brain disorders: insights from neuroimaging immunogenetics. Brain Communications, 4 (2) fcac078, fcac078. doi: 10.1093/braincomms/fcac078
Hop, Paul J., Zwamborn, Ramona A.J., Hannon, Eilis, Shireby, Gemma L., Nabais, Marta F., Walker, Emma M., van Rheenen, Wouter, van Vugt, Joke J.F.A., Dekker, Annelot M., Westeneng, Henk-Jan, Tazelaar, Gijs H.P., van Eijk, Kristel R., Moisse, Matthieu, Baird, Denis, Al Khleifat, Ahmad, Iacoangeli, Alfredo, Ticozzi, Nicola, Ratti, Antonia, Cooper-Knock, Jonathan, Morrison, Karen E., Shaw, Pamela J., Basak, A. Nazli, Chiò, Adriano, Calvo, Andrea, Moglia, Cristina, Canosa, Antonio, Brunetti, Maura, Grassano, Maurizio, Gotkine, Marc ... Brain MEND Consortium (2022). Genome-wide study of DNA methylation shows alterations in metabolic, inflammatory, and cholesterol pathways in ALS. Science Translational Medicine, 14 (633) eabj0264, 1-15. doi: 10.1126/scitranslmed.abj0264
van Rheenen, Wouter, van der Spek, Rick A. A., Bakker, Mark K., van Vugt, Joke J. F. A., Hop, Paul J., Zwamborn, Ramona A. J., de Klein, Niek, Westra, Harm-Jan, Bakker, Olivier B., Deelen, Patrick, Shireby, Gemma, Hannon, Eilis, Moisse, Matthieu, Baird, Denis, Restuadi, Restuadi, Dolzhenko, Egor, Dekker, Annelot M., Gawor, Klara, Westeneng, Henk-Jan, Tazelaar, Gijs H. P., van Eijk, Kristel R., Kooyman, Maarten, Byrne, Ross P., Doherty, Mark, Heverin, Mark, Al Khleifat, Ahmad, Iacoangeli, Alfredo, Shatunov, Aleksey, Ticozzi, Nicola ... SLAP Consortium (2022). Author Correction: Common and rare variant association analyses in amyotrophic lateral sclerosis identify 15 risk loci with distinct genetic architectures and neuron-specific biology. Nature Genetics, 54 (3), 361-361. doi: 10.1038/s41588-022-01020-3
Restuadi, Restuadi, Steyn, Frederik J., Kabashi, Edor, Ngo, Shyuan T., Cheng, Fei-Fei, Nabais, Marta F., Thompson, Mike J., Qi, Ting, Wu, Yang, Henders, Anjali K., Wallace, Leanne, Bye, Chris R., Turner, Bradley J., Ziser, Laura, Mathers, Susan, McCombe, Pamela A., Needham, Merrilee, Schultz, David, Kiernan, Matthew C., van Rheenen, Wouter, van den Berg, Leonard H., Veldink, Jan H., Ophoff, Roel, Gusev, Alexander, Zaitlen, Noah, McRae, Allan F., Henderson, Robert D., Wray, Naomi R., Giacomotto, Jean and Garton, Fleur C. (2022). Functional characterisation of the amyotrophic lateral sclerosis risk locus GPX3/TNIP1. Genome Medicine, 14 (1) 7, 7. doi: 10.1186/s13073-021-01006-6
Gadd, Danni A., Hillary, Robert F., McCartney, Daniel L., Zaghlool, Shaza B., Stevenson, Anna J., Cheng, Yipeng, Fawns-Ritchie, Chloe, Nangle, Cliff, Campbell, Archie, Flaig, Robin, Harris, Sarah E., Walker, Rosie M., Shi, Liu, Tucker-Drob, Elliot M., Gieger, Christian, Peters, Annette, Waldenberger, Melanie, Graumann, Johannes, McRae, Allan F., Deary, Ian J., Porteous, David J., Hayward, Caroline, Visscher, Peter M., Cox, Simon R., Evans, Kathryn L., McIntosh, Andrew M., Suhre, Karsten and Marioni, Riccardo E. (2022). Epigenetic scores for the circulating proteome as tools for disease prediction. eLife, 11 e71802, 1-24. doi: 10.7554/eLife.71802
van Rheenen, Wouter, van der Spek, Rick A. A., Bakker, Mark K., van Vugt, Joke J. F. A., Hop, Paul J., Zwamborn, Ramona A. J., de Klein, Niek, Westra, Harm-Jan, Bakker, Olivier B., Deelen, Patrick, Shireby, Gemma, Hannon, Eilis, Moisse, Matthieu, Baird, Denis, Restuadi, Restuadi, Dolzhenko, Egor, Dekker, Annelot M., Gawor, Klara, Westeneng, Henk-Jan, Tazelaar, Gijs H. P., van Eijk, Kristel R., Kooyman, Maarten, Byrne, Ross P., Doherty, Mark, Heverin, Mark, Al Khleifat, Ahmad, Iacoangeli, Alfredo, Shatunov, Aleksey, Ticozzi, Nicola ... SLAP Consortium (2021). Common and rare variant association analyses in amyotrophic lateral sclerosis identify 15 risk loci with distinct genetic architectures and neuron-specific biology. Nature Genetics, 53 (12), 1636-1648. doi: 10.1038/s41588-021-00973-1
Stevenson, Anna J, Gadd, Danni A, Hillary, Robert F, McCartney, Daniel L, Campbell, Archie, Walker, Rosie M, Evans, Kathryn L, Harris, Sarah E, Spires-Jones, Tara L, McRae, Allan F, Visscher, Peter M, McIntosh, Andrew M, Deary, Ian J and Marioni, Riccardo E (2021). Creating and validating a DNA methylation-based proxy for interleukin-6. Journals of Gerontology - Series A Biological Sciences and Medical Sciences, 76 (12), 2284-2292. doi: 10.1093/gerona/glab046
Yap, Chloe X., Henders, Anjali K., Alvares, Gail A., Wood, David L.A., Krause, Lutz, Tyson, Gene W., Restuadi, Restuadi, Wallace, Leanne, McLaren, Tiana, Hansell, Narelle K., Cleary, Dominique, Grove, Rachel, Hafekost, Claire, Harun, Alexis, Holdsworth, Helen, Jellett, Rachel, Khan, Feroza, Lawson, Lauren P., Leslie, Jodie, Frenk, Mira Levis, Masi, Anne, Mathew, Nisha E., Muniandy, Melanie, Nothard, Michaela, Miller, Jessica L., Nunn, Lorelle, Holtmann, Gerald, Strike, Lachlan T., de Zubicaray, Greig I. ... Gratten, Jacob (2021). Autism-related dietary preferences mediate autism-gut microbiome associations. Cell, 184 (24), 5916-5931.e17. doi: 10.1016/j.cell.2021.10.015
van Dongen, Jenny, Gordon, Scott D., McRae, Allan F., Odintsova, Veronika V., Mbarek, Hamdi, Breeze, Charles E., Sugden, Karen, Lundgren, Sara, Castillo-Fernandez, Juan E., Hannon, Eilis, Moffitt, Terrie E., Hagenbeek, Fiona A., van Beijsterveldt, Catharina E. M., Jan Hottenga, Jouke, Tsai, Pei-Chien, van Dongen, Jenny, Hottenga, Jouke-Jan, McRae, Allan F., Sugden, Karen, Castillo-Fernandez, Juan E., Hannon, Eilis, Moffitt, Terrie E., Hottenga, Jouke-Jan, de Geus, Eco J. C., Spector, Timothy D., Min, Josine L., Hemani, Gibran, Ehli, Erik A., Paul, Franziska ... Genetics of DNA Methylation Consortium (2021). Identical twins carry a persistent epigenetic signature of early genome programming. Nature Communications, 12 (1) 5618, 5618. doi: 10.1038/s41467-021-25583-7
Min, Josine L., Hemani, Gibran, Hannon, Eilis, Dekkers, Koen F., Castillo-Fernandez, Juan, Luijk, René, Carnero-Montoro, Elena, Lawson, Daniel J., Burrows, Kimberley, Suderman, Matthew, Bretherick, Andrew D., Richardson, Tom G., Klughammer, Johanna, Iotchkova, Valentina, Sharp, Gemma, Al Khleifat, Ahmad, Shatunov, Aleksey, Iacoangeli, Alfredo, McArdle, Wendy L., Ho, Karen M., Kumar, Ashish, Söderhäll, Cilla, Soriano-Tárraga, Carolina, Giralt-Steinhauer, Eva, Kazmi, Nabila, Mason, Dan, McRae, Allan F., Corcoran, David L., Sugden, Karen ... BIOS Consortium (2021). Genomic and phenotypic insights from an atlas of genetic effects on DNA methylation. Nature Genetics, 53 (9), 1311-1321. doi: 10.1038/s41588-021-00923-x
Hemani, Gibran, Powell, Joseph E., Wang, Huanwei, Shakhbazov, Konstantin, Westra, Harm-Jan, Esko, Tonu, Henders, Anjali K., McRae, Allan F., Martin, Nicholas G., Metspalu, Andres, Franke, Lude, Montgomery, Grant W., Goddard, Michael E., Gibson, Greg, Yang, Jian and Visscher, Peter M. (2021). Phantom epistasis between unlinked loci. Nature, 596 (7871), E1-E3. doi: 10.1038/s41586-021-03765-z
Bainomugisa, Charlotte K., Sutherland, Heidi G., Parker, Richard, Mcrae, Allan F., Haupt, Larisa M., Griffiths, Lyn R., Heath, Andrew, Nelson, Elliot C., Wright, Margaret J., Hickie, Ian B., Martin, Nicholas G., Nyholt, Dale R. and Mehta, Divya (2021). Using monozygotic twins to dissect common genes in posttraumatic stress disorder and migraine. Frontiers in Neuroscience, 15 678350, 678350. doi: 10.3389/fnins.2021.678350
Restuadi, Restuadi, Garton, Fleur C., Benyamin, Beben, Lin, Tian, Williams, Kelly L., Vinkhuyzen, Anna, van Rheenen, Wouter, Zhu, Zhihong, Laing, Nigel G., Mather, Karen A., Sachdev, Perminder S., Ngo, Shyuan T., Steyn, Frederik J., Wallace, Leanne, Henders, Anjali K., Visscher, Peter M., Needham, Merrilee, Mathers, Susan, Nicholson, Garth, Rowe, Dominic B., Henderson, Robert D., McCombe, Pamela A., Pamphlett, Roger, Blair, Ian P., Wray, Naomi R. and McRae, Allan F. (2021). Polygenic risk score analysis for amyotrophic lateral sclerosis leveraging cognitive performance, educational attainment and schizophrenia. European Journal of Human Genetics, 30 (5), 1-8. doi: 10.1038/s41431-021-00885-y
Lafontaine, Nicole, Campbell, Purdey J., Castillo-Fernandez, Juan E., Mullin, Shelby, Lim, Ee Mun, Kendrew, Phillip, Lewer, Michelle, Brown, Suzanne J., Huang, Rae-Chi, Melton, Phillip E., Mori, Trevor A., Beilin, Lawrence J., Dudbridge, Frank, Spector, Tim D., Wright, Margaret J., Martin, Nicholas G., McRae, Allan F., Panicker, Vijay, Zhu, Gu, Walsh, John P., Bell, Jordana T. and Wilson, Scott G. (2021). Epigenome-wide association study of thyroid function traits identifies novel associations of fT3 with KLF9 and DOT1L. The Journal of Clinical Endocrinology and Metabolism, 106 (5), e2191-e2202. doi: 10.1210/clinem/dgaa975
Nabais, Marta F., Laws, Simon M., Lin, Tian, Vallerga, Costanza L., Armstrong, Nicola J., Blair, Ian P., Kwok, John B., Mather, Karen A., Mellick, George D., Sachdev, Perminder S., Wallace, Leanne, Henders, Anjali K., Zwamborn, Ramona A. J., Hop, Paul J., Lunnon, Katie, Pishva, Ehsan, Roubroeks, Janou A. Y., Soininen, Hilkka, Tsolaki, Magda, Mecocci, Patrizia, Lovestone, Simon, Kloszewska, Iwona, Vellas, Bruno, Furlong, Sarah, Garton, Fleur C., Henderson, Robert D., Mathers, Susan, McCombe, Pamela A., Needham, Merrilee ... McRae, Allan F. (2021). Meta-analysis of genome-wide DNA methylation identifies shared associations across neurodegenerative disorders. Genome Biology, 22 (1) 90, 1-30. doi: 10.1186/s13059-021-02275-5
Sønderby, Ida E., van der Meer, Dennis, Moreau, Clara, Kaufmann, Tobias, Walters, G Bragi, Ellegaard, Maria, Abdellaoui, Abdel, Ames, David, Amunts, Katrin, Andersson, Micael, Armstrong, Nicola J., Bernard, Manon, Blackburn, Nicholas B., Blangero, John, Boomsma, Dorret I., Brodaty, Henry, Brouwer, Rachel M., Bülow, Robin, Bøen, Rune, Cahn, Wiepke, Calhoun, Vince D., Caspers, Svenja, Ching, Christopher R. K., Cichon, Sven, Ciufolini, Simone, Crespo-Facorro, Benedicto, Curran, Joanne E., Dale, Anders M., Dalvie, Shareefa ... ENIGMA-CNV working group (2021). 1q21.1 distal copy number variants are associated with cerebral and cognitive alterations in humans. Translational Psychiatry, 11 (1) 182, 1-16. doi: 10.1038/s41398-021-01213-0
Sønderby, Ida E, Ching, Christopher R. K., Thomopoulos, Sophia I., van der Meer, Dennis, Sun, Daqiang, Villalon-Reina, Julio E., Agartz, Ingrid, Amunts, Katrin, Arango, Celso, Armstrong, Nicola J., Ayesa-Arriola, Rosa, Bakker, Geor, Bassett, Anne S., Boomsma, Dorret I., Bülow, Robin, Butcher, Nancy J., Calhoun, Vince D., Caspers, Svenja, Chow, Eva W. C., Cichon, Sven, Ciufolini, Simone, Craig, Michael C., Crespo-Facorro, Benedicto, Cunningham, Adam C., Dale, Anders M., Dazzan, Paola, de Zubicaray, Greig I., Djurovic, Srdjan, Doherty, Joanne L. ... Wright, Margaret (2021). Effects of copy number variations on brain structure and risk for psychiatric illness: Large-scale studies from the ENIGMA working groups on CNVs. Human Brain Mapping, 43 (1) hbm.25354, 300-328. doi: 10.1002/hbm.25354
Van Dongen, Jenny, Gordon, Scott D., Odintsova, Veronika V., McRae, Allan F., Robinson, Wendy P., Hall, Judith G., Boomsma, Dorret I. and Martin, Nicholas G. (2021). Examining the Vanishing Twin Hypothesis of Neural Tube Defects: Application of an Epigenetic Predictor for Monozygotic Twinning. Twin Research and Human Genetics, 24 (3) PII S1832427421000256, 155-159. doi: 10.1017/thg.2021.25
Trejo Banos, Daniel, McCartney, Daniel L., Patxot, Marion, Anchieri, Lucas, Battram, Thomas, Christiansen, Colette, Costeira, Ricardo, Walker, Rosie M., Morris, Stewart W., Campbell, Archie, Zhang, Qian, Porteous, David J., McRae, Allan F., Wray, Naomi R., Visscher, Peter M., Haley, Chris S., Evans, Kathryn L., Deary, Ian J., McIntosh, Andrew M., Hemani, Gibran, Bell, Jordana T., Marioni, Riccardo E. and Robinson, Matthew R. (2020). Bayesian reassessment of the epigenetic architecture of complex traits. Nature Communications, 11 (1) 2865, 2865. doi: 10.1038/s41467-020-16520-1
Banos, Daniel Trejo, McCartney, Daniel L., Patxot, Marion, Anchieri, Lucas, Battram, Thomas, Christiansen, Colette, Costeira, Ricardo, Walker, Rosie M., Morris, Stewart W., Campbell, Archie, Zhang, Qian, Porteous, David J., McRae, Allan F., Wray, Naomi R., Visscher, Peter M., Haley, Chris S., Evans, Kathryn L., Deary, Ian J., McIntosh, Andrew M., Hemani, Gibran, Bell, Jordana T., Marioni, Riccardo E. and Robinson, Matthew R. (2020). Author Correction: Bayesian reassessment of the epigenetic architecture of complex traits (Nature Communications, (2020), 11, 1, (2865), 10.1038/s41467-020-16520-1). Nature Communications, 11 (1) 5186, 5186. doi: 10.1038/s41467-020-19099-9
Zhang, Qian, Sidorenko, Julia, Couvy-Duchesne, Baptiste, Marioni, Riccardo E., Wright, Margaret J., Goate, Alison M., Marcora, Edoardo, Huang, Kuan-lin, Porter, Tenielle, Laws, Simon M., Australian Imaging Biomarkers and Lifestyle (AIBL) Study, Sachdev, Perminder S., Mather, Karen A., Armstrong, Nicola J., Thalamuthu, Anbupalam, Brodaty, Henry, Yengo, Loic, Yang, Jian, Wray, Naomi R., McRae, Allan F. and Visscher, Peter M. (2020). Risk prediction of late-onset Alzheimer’s disease implies an oligogenic architecture. Nature Communications, 11 (1) 4799, 1-11. doi: 10.1038/s41467-020-18534-1
Colicino, Elena, Marioni, Riccardo, Ward-Caviness, Cavin, Gondalia, Rahul, Guan, Weihua, Chen, Brian, Tsai, Pei-Chien, Huan, Tianxiao, Xu, Gao, Golareh, Agha, Schwartz, Joel, Vokonas, Pantel, Just, Allan, Starr, John M., McRae, Allan F., Wray, Naomi R., Visscher, Peter M., Bressler, Jan, Zhang, Wen, Tanaka, Toshiko, Moore, Ann Zenobia, Pilling, Luke C., Zhang, Guosheng, Stewart, James D., Li, Yun, Hou, Lifang, Castillo-Fernandez, Juan, Spector, Tim, Kiel, Douglas P. ... Baccarelli, Andrea (2020). Blood DNA methylation sites predict death risk in a longitudinal study of 12,300 individuals. Aging, 12 (14), 14092-14124. doi: 10.18632/aging.103408
Stevenson, Anna J., McCartney, Daniel L., Hillary, Robert F., Campbell, Archie, Morris, Stewart W., Bermingham, Mairead L., Walker, Rosie M., Evans, Kathryn L., Boutin, Thibaud S., Hayward, Caroline, McRae, Allan F., McColl, Barry W., Spires-Jones, Tara L., McIntosh, Andrew M., Deary, Ian J. and Marioni, Riccardo E. (2020). Characterisation of an inflammation-related epigenetic score and its association with cognitive ability. Clinical Epigenetics, 12 (1) 113, 113. doi: 10.1186/s13148-020-00903-8
Hillary, Robert F., Trejo-Banos, Daniel, Kousathanas, Athanasios, McCartney, Daniel L., Harris, Sarah E., Stevenson, Anna J., Patxot, Marion, Ojavee, Sven Erik, Zhang, Qian, Liewald, David C., Ritchie, Craig W., Evans, Kathryn L., Tucker-Drob, Elliot M., Wray, Naomi R., McRae, Allan F., Visscher, Peter M., Deary, Ian J., Robinson, Matthew R. and Marioni, Riccardo E. (2020). Multi-method genome- and epigenome-wide studies of inflammatory protein levels in healthy older adults. Genome Medicine, 12 (1) 60, 60. doi: 10.1186/s13073-020-00754-1
Wu, Yang, Qi, Ting, Wang, Huanwei, Zhang, Futao, Zheng, Zhili, Phillips-Cremins, Jennifer E., Deary, Ian J., McRae, Allan F., Wray, Naomi R., Zeng, Jian and Yang, Jian (2020). Promoter-anchored chromatin interactions predicted from genetic analysis of epigenomic data. Nature Communications, 11 (1) 2061, 1-12. doi: 10.1038/s41467-020-15587-0
Vallerga, Costanza L., Zhang, Futao, Fowdar, Javed, McRae, Allan F., Qi, Ting, Nabais, Marta F., Zhang, Qian, Kassam, Irfahan, Henders, Anjali K., Wallace, Leanne, Montgomery, Grant, Chuang, Yu-Hsuan, Horvath, Steve, Ritz, Beate, Halliday, Glenda, Hickie, Ian, Kwok, John B., Pearson, John, Pitcher, Toni, Kennedy, Martin, Bentley, Steven R., Silburn, Peter A., Yang, Jian, Wray, Naomi R., Lewis, Simon J. G., Anderson, Tim, Dalrymple-Alford, John, Mellick, George D., Visscher, Peter M. and Gratten, Jacob (2020). Analysis of DNA methylation associates the cystine–glutamate antiporter SLC7A11 with risk of Parkinson’s disease. Nature Communications, 11 (1) 1238, 1238. doi: 10.1038/s41467-020-15065-7
Sønderby, Ida E., Gústafsson, Ómar, Doan, Nhat Trung, Hibar, Derrek P., Martin-Brevet, Sandra, Abdellaoui, Abdel, Ames, David, Amunts, Katrin, Andersson, Michael, Armstrong, Nicola J., Bernard, Manon, Blackburn, Nicholas, Blangero, John, Boomsma, Dorret I., Bralten, Janita, Brattbak, Hans-Richard, Brodaty, Henry, Brouwer, Rachel M., Bülow, Robin, Calhoun, Vince, Caspers, Svenja, Cavalleri, Gianpiero, Chen, Chi-Hua, Cichon, Sven, Ciufolini, Simone, Corvin, Aiden, Crespo-Facorro, Benedicto, Curran, Joanne E., Dale, Anders M. ... Andreassen, Ole A. (2020). Erratum: Correction: Dose response of the 16p11.2 distal copy number variant on intracranial volume and basal ganglia (Molecular psychiatry (2020) 25 3 (584-602)). Molecular Psychiatry, 25 (3), 692-695. doi: 10.1038/s41380-019-0358-8
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Lloyd-Jones, Luke R., Holloway, Alexander, McRae, Allan, Yang, Jian, Small, Kerrin, Zhao, Jing, Zeng, Biao, Bakshi, Andrew, Metspalu, Andres, Dermitzakis, Manolis, Gibson, Greg, Spector, Tim, Montgomery, Grant, Esko, Tonu, Visscher, Peter M. and Powell, Joseph E. (2017). The Genetic Architecture of Gene Expression in Peripheral Blood (vol 100, pg 228, 2017). American Journal of Human Genetics, 100 (2), 371-371. doi: 10.1016/j.ajhg.2017.01.026
Mendelson, Michael M., Marioni, Riccardo E., Joehanes, Roby, Liu, Chunyu, Hedman, Åsa K., Aslibekyan, Stella, Demerath, Ellen W., Guan, Weihua, Zhi, Degui, Yao, Chen, Huan, Tianxiao, Willinger, Christine, Chen, Brian, Courchesne, Paul, Multhaup, Michael, Irvin, Marguerite R., Cohain, Ariella, Schadt, Eric E., Grove, Megan L., Bressler, Jan, North, Kari, Sundstrom, Johan, Gustafsson, Stefan, Shah, Sonia, McRae, Allan F., Harris, Sarah E., Gibson, Jude, Redmond, Paul, Corley, Janie ... Deary, Ian J. (2017). Association of body mass index with DNA methylation and gene expression in blood cells and relations to cardiometabolic disease: a Mendelian randomization approach. PLoS Medicine, 14 (1) e1002215, e1002215. doi: 10.1371/journal.pmed.1002215
Lloyd-Jones, Luke R., Holloway, Alexander, McRae, Allan, Yang, Jian, Small, Kerrin, Zeng, Biao, Bakshi, Andrew, Metspalu, Andres, Dermitzakis, Manolis, Gibson, Greg, Spector, Tim, Montgomery, Grant, Esko, Tonu, Visscher, Peter M. and Powell, Joseph E. (2017). The genetic architecture of gene expression in peripheral blood. American Journal of Human Genetics, 100 (2), 228-237. doi: 10.1016/j.ajhg.2016.12.008
Ligthart, Symen, Marzi, Carola, Aslibekyan, Stella, Mendelson, Michael M., Conneely, Karen N., Tanaka, Toshiko, Colicino, Elena, Waite, Lindsay L., Joehanes, Roby, Guan, Weihua, Brody, Jennifer A., Elks, Cathy, Marioni, Riccardo, Jhun, Min A., Agha, Golareh, Bressler, Jan, Ward-Caviness, Cavin K., Chen, Brian H., Huan, Tianxiao, Bakulski, Kelly, Salfati, Elias L., Fiorito, Giovanni, Wahl, Simone, Schramm, Katharina, Sha, Jin, Hernandez, Dena G., Just, Allan C., Smith, Jennifer A., Sotoodehnia, Nona ... Dehghan, Abbas (2016). DNA methylation signatures of chronic low-grade inflammation are associated with complex diseases. Genome Biology, 17 (1) 255, 255-255. doi: 10.1186/s13059-016-1119-5
Kassam, Irfahan, Lloyd-Jones, Luke, Holloway, Alexander, Small, Kerrin S., Zeng, Biao, Bakshi, Andrew, Metspalu, Andres, Gibson, Greg, Spector, Tim D., Esko, Tonu, Montgomery, Grant W., Powell, Joseph E., Yang, Jian, Visscher, Peter M. and McRae, Allan F. (2016). Autosomal genetic control of human gene expression does not differ across the sexes. Genome Biology, 17 (1) 248, 248.1-248.10. doi: 10.1186/s13059-016-1111-0
Liu, C., Marioni, R. E., Hedman, K., Pfeiffer, L., Tsai, P. -C., Reynolds, L. M., Just, A. C., Duan, Q., Boer, C. G., Tanaka, T., Elks, C. E., Aslibekyan, S., Brody, J. A., Kuhnel, B., Herder, C., Almli, L. M., Zhi, D., Wang, Y., Huan, T., Yao, C., Mendelson, M. M., Joehanes, R., Liang, L., Love, S. -A., Guan, W., Shah, S., McRae, A. F., Kretschmer, A., Prokisch, H. ... Levy, D. (2016). A DNA methylation biomarker of alcohol consumption. Molecular Psychiatry, 23 (2), 422-433. doi: 10.1038/mp.2016.192
Kassam, Irfahan, Qi, Tuan, Lloyd-Jones, Luke, Holloway, Alexander, Bonder, Marc Jan, Henders, Anjali K., Martin, Nicholas G., Powell, Joseph E., Franke, Lude, Montgomery, Grant W., Visscher, Peter M. and McRae, Allan F. (2016). Evidence for mitochondrial genetic control of autosomal gene expression. Human Molecular Genetics, 25 (24), 5332-5338. doi: 10.1093/hmg/ddw347
Joehanes, Roby, Just, Allan C., Marioni, Riccardo E., Pilling, Luke C., Reynolds, Lindsay M., Mandaviya, Pooja R., Guan, Weihua, Xu, Tao, Elks, Cathy E., Aslibekyan, Stella, Moreno-Macias, Hortensia, Smith, Jennifer A., Brody, Jennifer A., Dhingra, Radhika, Yousefi, Paul, Pankow, James S., Kunze, Sonja, Shah, Sonia H., McRae, Allan F., Lohman, Kurt, Sha, Jin, Absher, Devin M., Ferrucci, Luigi, Zhao, Wei, Demerath, Ellen W., Bressler, Jan, Grove, Megan L., Huan, Tianxiao, Liu, Chunyu ... London, Stephanie J. (2016). Epigenetic signatures of cigarette smoking. Circulation: Cardiovascular Genetics, 9 (5), 436-447. doi: 10.1161/CIRCGENETICS.116.001506
Bakshi, Andrew, Zhu, Zhihong, Vinkhuyzen, Anna A. E., Hill, W. David, Mcrae, Allan F., Visscher, Peter M. and Yang, Jian (2016). Fast set-based association analysis using summary data from GWAS identifies novel gene loci for human complex traits. Scientific Reports, 6 (1) 32894, 32894. doi: 10.1038/srep32894
Kassam, Irfahan and McRae, Allan F. (2016). The autosomal genetic control of sexually dimorphic traits in humans is largely the same across the sexes. Genome Biology, 17 (1) 169. doi: 10.1186/s13059-016-1035-8
Pavlides, Jennifer M. Whitehead, Zhu, Zhihong, Gratten, Jacob, Mcrae, Allan F., Wray, Naomi R. and Yang, Jian (2016). Predicting gene targets from integrative analyses of summary data from GWAS and eQTL studies for 28 human complex traits. Genome Medicine, 8 (1) 84, 84. doi: 10.1186/s13073-016-0338-4
Mbarek, Hamdi, Steinberg, Stacy, Nyholt, Dale R., Gordon, Scott D., Miller, Michael B., McRae, Allan F, Hottenga, Jouke Jan, Day, Felix R., Willemsen, Gonneke, de Geus, Eco J., Davies, Gareth E, Martin, Hilary C, Penninx, Brenda W, Jansen, Rick, McAloney, Kerrie, Vink, Jacqueline M., Kaprio, Jaakko, Plomin, Robert, Spector, Tim D., Magnusson, Patrik K., Reversade, Bruno, Harris, R. Alan, Aagaard, Kjersti, Kristjansson, Ragnar P., Olafsson, Isleifur, Eyjolfsson, Gudmundur Ingi, Sigurdardottir, Olof, Iacono, William G., Lambalk, Cornelis B ... Boomsman, Dorret I. (2016). Identification of common genetic variants influencing spontaneous dizygotic twinning and female fertility. American Journal of Human Genetics, 98 (5), 898-908. doi: 10.1016/j.ajhg.2016.03.008
Marioni, Riccardo E., Harris, Sarah E., Shah, Sonia, McRae, Allan F., von Zglinicki, Thomas, Martin-Ruiz, Carmen, Wray, Naomi R., Visscher, Peter M. and Deary, Ian J. (2016). Corrigendum: The epigenetic clock and telomere length are independently associated with chronological age and mortality [Int J Epidemiol., 45, 2, (424-432)(2016)] DOI: 10.1093/ije/dyw041. International Journal of Epidemiology, 47 (1) dyx217, 356-356. doi: 10.1093/ije/dyx233
Marioni, Riccardo E., Harris, Sarah E., Shah, Sonia, McRae, Allan F., von Zglinicki, Thomas, Martin-Ruiz, Carmen, Wray, Naomi R., Visscher, Peter M. and Deary, Ian J. (2016). The epigenetic clock and telomere length are independently associated with chronological age and mortality. International Journal of Epidemiology, 45 (2), 424-432. doi: 10.1093/ije/dyw041
Shakhbazov, Konstantin, Powell, Joseph E., Hemani, Gibran, Henders, Anjali K., Martin, Nicholas G., Visscher, Peter M., Montgomery, Grant W. and McRae, Allan F. (2016). Shared genetic control of expression and methylation in peripheral blood. BMC Genomics, 17 (1) 278, 278. doi: 10.1186/s12864-016-2498-4
Tseng, Hsu-Wen, Pitt, Miranda E., Glant, Tibor T., McRae, Allan F., Kenna, Tony J., Brown, Matthew A., Pettit, Allison R. and Thomas, Gethin P. (2016). Inflammation-driven bone formation in a mouse model of ankylosing spondylitis: sequential not parallel processes. Arthritis Research and Therapy, 18 (1) 35, 35. doi: 10.1186/s13075-015-0805-0
Chen, Brian H., Marioni, Riccardo E., Colicino, Elena, Peters, Marjolein J., Ward-Caviness, Cavin K., Tsai, Pei-Chien, Roetker, Nicholas S., Just, Allan C., Demerath, Ellen W., Guan, Weihua, Bressler, Jan, Fornage, Myriam, Studenski, Stephanie, Vandiver, Amy R., Moore, Ann Zenobia, Tanaka, Toshiko, Kiel, Douglas P., Liang, Liming, Vokonas, Pantel, Schwartz, Joel, Lunetta, Kathryn L., Murabito, Joanne M., Bandinelli, Stefania, Hernandez, Dena G., Melzer, David, Nalls, Michael, Pilling, Luke C., Price, Timothy R., Singleton, Andrew B. ... Horvath, Steve (2016). DNA methylation-based measures of biological age: meta-analysis predicting time to death. Aging, 8 (9), 1844-1865. doi: 10.18632/aging.101020
Bui, Masato, Benyamin, Beben, Shah, Sonia, Henders, Anjali K., Martin, Nicholas G., Montgomery, Grant W. and McRae, Allan F. (2015). Sharing a placenta is associated with a greater similarity in DNA methylation in monochorionic versus dichorionic twin pars in blood at age 14. Twin Research and Human Genetics, 18 (6), 680-685. doi: 10.1017/thg.2015.87
Peters, Marjolein J., Joehanes, Roby, Pilling, Luke C., Schurmann, Claudia, Conneely, Karen N., Powell, Joseph, Reinmaa, Eva, Sutphin, George L., Zhernakova, Alexandra, Schramm, Katharina, Wilson, Yana A., Kobes, Sayuko, Tukiainen, Taru, Ramos, Yolande F., Goring, Harald H. H., Fornage, Myriam, Liu, Yongmei, Gharib, Sina A., Stranger, Barbara E., De Jager, Philip L., Aviv, Abraham, Levy, Daniel, Murabito, Joanne M., Munson, Peter J., Huan, Tianxiao, Hofman, Albert, Uitterlinden, Andre G., Rivadeneira, Fernando, Van Rooij, Jeroen ... NABEC/UKBEC Consortium (2015). The transcriptional landscape of age in human peripheral blood. Nature Communications, 6 (1) 8570, 8570.1-8570.14. doi: 10.1038/ncomms9570
Howrigan, D.P., Simonson, M.A., Davies, G., Harris, S.E., Tenesa, A., Starr, J.M., Liewald, D.C., Deary, I.J., McRae, A., Wright, M.J., Montgomery, G.W., Hansell, N., Martin, N.G., Payton, A., Horan, M., Ollier, W.E., Abdellaoui, A., Boomsma, D.I., DeRosse, P., Knowles, E.E.M., Glahn, D.C., Djurovic, S., Melle, I., Andreassen, O.A., Christoforou, A., Steen, V.M., Hellard, S.L., Sundet, K., Reinvang, I. ... Keller, M.C. (2015). Genome-wide autozygosity is associated with lower general cognitive ability. Molecular Psychiatry, 21 (6), 837-843. doi: 10.1038/mp.2015.120
Marioni, Riccardo E., Shah, Sonia, McRae, Allan F., Ritchie, Stuart J., Muniz-Terrera, Graciela, Harris, Sarah E., Gibson, Jude, Redmond, Paul, Cox, Simon R., Pattie, Alison, Corley, Janie, Taylor, Adele, Murphy, Lee, Starr, John M., Horvath, Steve, Visscher, Peter M., Wray, Naomi R. and Deary, Ian J. (2015). The epigenetic clock is correlated with physical and cognitive fitness in the Lothian Birth Cohort 1936. International Journal of Epidemiology, 44 (4), 1388-1396. doi: 10.1093/ije/dyu277
Shah, Sonia, Bonder, Marc J., Marioni, Riccardo E., Zhu, Zhihong, McRae, Allan F., Zhernakova, Alexandra, Harris, Sarah E., Liewald, Dave, Henders, Anjali K., Mendelson, Michael M., Liu, Chunyu, Joehanes, Roby, Liang, Liming, Levy, Daniel, Martin, Nicholas G., Starr, John M., Wijmenga, Cisca, Wray, Naomi R., Yang, Jian, Montgomery, Grant W., Franke, Luke, Deary, Ian J., Visscher, Peter M. and BIOS Consortium (2015). Improving phenotypic prediction by combining genetic and epigenetic associations. American Journal of Human Genetics, 97 (1), 75-85. doi: 10.1016/j.ajhg.2015.05.014
Goldinger, Anita, Shakhbazov, Konstantin, Henders, Anjali K., McRae, Allan F., Montgomery, Grant W. and Powell, Joseph E. (2015). Seasonal effects on gene expression. PLoS ONE, 10 (5) e0126995, 1-16. doi: 10.1371/journal.pone.0126995
Mcrae, Allan F., Visscher, Peter M., Montgomery, Grant W. and Martin, Nicholas G. (2015). Large autosomal copy-number differences within unselected monozygotic twin pairs are rare. Twin Research and Human Genetics, 18 (1), 13-18. doi: 10.1017/thg.2014.85
Marioni, Riccardo E., Shah, Sonia, McRae, Allan F., Chen, Brian H., Colicino, Elena, Harris, Sarah E., Gibson, Jude, Henders, Anjali K., Redmond, Paul, Cox, Simon R., Pattie, Alison, Corley, Janie, Murphy, Lee, Martin, Nicholas G., Montgomery, Grant W., Feinberg, Andrew P., Fallin, M. Daniele, Multhaup, Michael L., Jaffe, Andrew E., Joehanes, Roby, Schwartz, Joel, Just, Allan C., Lunetta, Kathryn L., Murabito, Joanne M., Starr, John M., Horvath, Steve, Baccarelli, Andrea A., Levy, Daniel, Visscher, Peter M. ... Deary, Ian J. (2015). DNA methylation age of blood predicts all-cause mortality in later life. Genome Biology, 16 (1) 25, 25.1-25.12. doi: 10.1186/s13059-015-0584-6
Shah, Sonia, McRae, Allan F., Marioni, Riccardo E., Harris, Sarah E., Gibson, Jude, Henders, Anjali K., Redmond, Paul, Cox, Simon R., Pattie, Alison, Corley, Janie, Murphy, Lee, Martin, Nicholas G., Montgomery, Grant W., Starr, John M., Wray, Naomi R., Deary, Ian J. and Visscher, Peter M. (2014). Genetic and environmental exposures constrain epigenetic drift over the human life course. Genome Research, 24 (11), 1725-1733. doi: 10.1101/gr.176933.114
Hemani, Gibran, Shakhbazov, Konstantin, Westra, Harm-Jan, Esko, Tonu, Henders, Anjali K., McRae, Allan F., Yang, Jian, Gibson, Greg, Martin, Nicholas G., Metspalu, Andres, Franke, Lude, Montgomery, Grant W., Visscher, Peter M. and Powell, Joseph E. (2014). Another explanation for apparent epistasis: reply. Nature, 514 (7520), E5-E6. doi: 10.1038/nature13692
McRae, Allan F., Powell, Joseph E., Henders, Anjali K., Bowdler, Lisa, Hemani, Gibran, Shah, Sonia, Painter, Jodie N., Martin, Nicholas G., Visscher, Peter M. and Montgomery, Grant W. (2014). Contribution of genetic variation to transgenerational inheritance of DNA methylation. Genome Biology, 15 (5) ARTN R73, 1-10. doi: 10.1186/gb-2014-15-5-r73
Derks, Eske M., Ayub, Muhammad, Chambert, Kimberly, Del Favero, Jurgen, Johnstone, Mandy, Macgregor, Stuart, Maclean, Alan, McKechanie, Andrew G., McRae, Allan F., Moran, Jennifer L., Pickard, Benjamin S., Purcell, Shaun, Sklar, Pamela, St Clair, David M., Wray, Naomi R., Visscher, Peter M. and Blackwood, Douglas H. R. (2013). A genome wide survey supports the involvement of large copy number variants in schizophrenia with and without intellectual disability. American Journal of Medical Genetics. Part B: Neuropsychiatric Genetics, 162 (8), 847-854. doi: 10.1002/ajmg.b.32189
Thomson, P. A., Parla, J. S., McRae, A. F., Kramer, M., Ramakrushnan, K., Yao, J., Soares, D. C., McCarthy, S., Morris, S. W., Cardone, L., Cass, S., Ghiban, E., Hennah, W., Evans, K. L., Rebolini, D., Millar, J. K., Harris, S. E., Starr, J. M., MacIntyre, J., Generation Scotland, McIntosh, A. M., Watson, J. D., Deary, I. J., Visscher, P. M., Blackwood, D. H., McCombie, W. R. and Porteous, D. J. (2013). 708 common and 2010 rare DISC1 locus variants identified in 1542 subjects: analysis for association with psychiatric disorder and cognitive traits. Molecular Psychiatry, Advance online publication (6), 1-8. doi: 10.1038/mp.2013.68
McRae, Allan F., Richter, Melinda M. and Lind, Penelope A. (2013). Case-control association testing of common variants from sequencing of DNA pools. PLoS One, 8 (6) e65410, e65410.1-e65410.4. doi: 10.1371/journal.pone.0065410
Byrne, E. M., Carrillo-Roa, T., Henders, A. K., Bowdler, L., McRae, A. F., Heath, A. C., Martin, N. G., Montgomery, G. W., Krause, L. and Wray, N. R. (2013). Monozygotic twins affected with major depressive disorder have greater variance in methylation than their unaffected co-twin. Translational Psychiatry, 3 (6) e269, e269.1-e269.6. doi: 10.1038/tp.2013.45
Powell, Joseph E., Henders, Anjali K., McRae, Allan F., Kim, Jinhee, Hemani, Gibran, Martin, Nicholas G., Dermitzakis, Emmanouil T., Gibson, Greg, Montgomery, Grant W. and Visscher, Peter M. (2013). Congruence of additive and non-additive effects on gene expression estimated from pedigree and SNP data. PLoS Genetics, 9 (5) e1003502, e1003502.1-e1003502.10. doi: 10.1371/journal.pgen.1003502
McRae, Allan F., Wright, Margaret J., Hansell, Narelle K., Montgomery, Grant W. and Martin, Nicholas G. (2013). No association between general cognitive ability and rare copy number variation. Behavior Genetics, 43 (3), 202-207. doi: 10.1007/s10519-013-9587-9
Goldinger, Anita, Henders, Anjali K., McRae, Allan F., Martin, Nicholas G., Gibson, Greg, Montgomery, Grant W., Visscher, Peter M. and Powell, Joseph E. (2013). Genetic and nongenetic variation revealed for the principal components of human gene expression. Genetics, 195 (3), 1117-1128. doi: 10.1534/genetics.113.153221
Byrne, Enda M., Johnson, Julie, McRae, Allan F., Nyholt, Dale R., Medland, Sarah E., Gehrman, Philip R., Heath, Andrew C., Madden, Pamela A. F., Montgomery, Grant W., Chenevix-Trench, Georgia and Martin, Nicholas G. (2012). A genome-wide association study of caffeine-related sleep disturbance: confirmation of a role for a common variant in the adenosine receptor. Sleep, 35 (7), 967-975. doi: 10.5665/sleep.1962
Powell, Joseph E., Henders, Anjali K., McRae, Allan F., Caracella, Anthony, Smith, Sara, Wright, Margaret J., Whitfield, John B., Dermitzakis, Emmanouil T., Martin, Nicholas G., Visscher, Peter M. and Montgomery, Grant W. (2012). The Brisbane systems genetics study: genetical genomics meets complex trait genetics. PLoS One, 7 (4) e35430, e35430.1-e35430.9. doi: 10.1371/journal.pone.0035430
Powell, Joseph E., Henders, Anjali K., McRae, Allan F., Wright, Margaret J., Martin, Nicholas G., Dermitzakis, Emmanouil T., Montgomery, Grant W. and Visscher, Peter M. (2012). Genetic control of gene expression in whole blood and lymphoblastoid cell lines is largely independent. Genome Research, 22 (3), 456-466. doi: 10.1101/gr.126540.111
Mosing, Miriam A., Medland, Sarah E., McRae, Allan, Landers, Joseph George, Wright, Margaret J. and Martin, Nicholas G. (2012). Genetic influences on life span and its relationship to personality: A 16-year follow-up study of a sample of aging twins. Psychosomatic Medicine, 74 (1), 16-22. doi: 10.1097/PSY.0b013e3182385784
Jablensky, A ., Angelicheva, D ., Donohoe, G. J., Cruickshank, M., Azmanov, D. N., Morris, D. W., McRae, A., Weickert, C. S., Carter, K. W., Chandler, D., Alexandrov, B., Usheva, A., Morar, B., Verbrugghe, P. L., Filipovska, A., Rackham, O., Bishop, A. R., Rasmussen, K. Ø., Dragovic, M., Cooper, M., Phillips, M., Badcock, J., Bramon-Bosch, E., Almeida, O. P., Flicker, L., Gill, M., Corvin, A., MacGregor, S. and Kalaydjieva, L. (2012). Promoter polymorphisms in two overlapping 6p25 genes implicate mitochondrial proteins in cognitive deficit in schizophrenia. Molecular Psychiatry, 17 (12), 1328-1339. doi: 10.1038/mp.2011.129
Luong, Hein T. T., Chaplin, Justin, McRae, Allan F., Medland, Sarah E., Willemsen, Gonneke, Nyholt, Dale R., Henders, Anjali K., Hoekstra, Chantal, Duffy, David L., Martin, Nicholas G., Boomsma, Dorret I., Montgomery, Grant W. and Painter, Jodie N. (2011). Variation in BMPR1B, TGFRB1 and BMPR2 and control of dizygotic twinning. Twin Research and Human Genetics, 14 (5), 408-416. doi: 10.1375/twin.14.5.408
Larsson, Mats, Duffy, David L., Zhu, Gu, Liu, Jimmy Z., Macgregor, Stuart, McRae, Allan F., Wright, Margaret J., Sturm, Richard A., Mackey, David A., Montgomery, Grant W., Martin, Nicholas G. and Medland, Sarah E. (2011). GWAS findings for human iris patterns: Associations with variants in genes that influence normal neuronal pattern development. American Journal of Human Genetics, 89 (2), 334-343. doi: 10.1016/j.ajhg.2011.07.011
Ferreira, Manuel A. R., McRae, Allan F., Medland, Sarah E., Nyholt, Dale R., Gordon, Scott D., Wright, Margaret J., Henders, Anjali K., Madden, Pamela A., Visscher, Peter M., Wray, Naomi R., Heath, Andrew C., Montgomery, Grant W., Duffy, David L. and Martin, Nicholas G. (2011). Association between ORMDL3, IL1RL1 and a deletion on chromosome 17q21 with asthma risk in Australia. European Journal of Human Genetics, 19 (4), 458-464. doi: 10.1038/ejhg.2010.191
Frank, Rene A. W., McRae, Allan F., Pocklington, Andrew J., van de Lagemaat, Louie N., Navarro, Pau, Croning, Mike D. R., Komiyama, Noboru H., Bradley, Sophie J., Challiss, R. A. John, Armstrong, J. Douglas, Finn, Robert D., Malloy, Mary P., MacLean, Alan W., Harris, Sarah E., Starr, John M., Bhaskar, Sanjeev S., Howard, Eleanor K., Hunt, Sarah E., Coffey, Alison J., Ranganath, Venkatesh, Deloukas, Panos, Rogers, Jane, Muir, Walter J., Deary, Ian J., Blackwood, Douglas H., Visscher, Peter M. and Grant, Seth G. N. (2011). Clustered coding variants in the glutamate receptor complexes of individuals with schizophrenia and bipolar disorder. PLoS One, 6 (4) e19011, e19011.1-e19011.9. doi: 10.1371/journal.pone.0019011
Gratten, J., Wilson, A. J., McRae, A. F., Beraldi, D., Visscher, P. M., Pemberton, J. M. and Slate, J. (2010). No evidence for warming climate theory of coat colour change in Soay sheep: A comment on Maloney et al.. Biology Letters, 6 (5), 678-679. doi: 10.1098/rsbl.2010.0160
Sommerlad, Susan, McRae, Allan F., McDonald, Brenda, Johnstone, Isobel, Cuttell, Leigh, Seddon, Jennifer M. and O'Leary, Caroline A. (2010). Congenital sensorineural deafness in Australian Stumpy-tail Cattle Dogs is an autosomal recessive trait that maps to CFA10. PLoS One, 5 (10) e13364, e13364. doi: 10.1371/journal.pone.0013364
Liu, Jimmy Z., McRae, Allan F., Nyholt, Dale R., Medland, Sarah E., Wray, Naomi R., Brown, Kevin M., AMFS Investigators, Hayward, Nicholas K., Montgomery, Grant W., Visscher, Peter M., Martin, Nicholas G. and Macgregor, Stuart (2010). A versatile gene-based test for genome-wide association studies. American Journal of Human Genetics, 87 (1), 139-145. doi: 10.1016/j.ajhg.2010.06.009
Liu, Jimmy Z., Medland, Sarah E., Wright, Margaret J., Henders, Anjali K., Heath, Andrew C., Madden, Pamela A. F., Duncan, Alexis, Montgomery, Grant W., Martin, Nicholas G. and McRae, Allan F. (2010). Genome-wide association study of height and body mass index in Australian twin families. Twin Research And Human Genetics, 13 (2), 179-193. doi: 10.1375/twin.13.2.179
Johnston, S. E., Beraldi, D., McRae, A. F., Pemberton, J. M. and Slate, J. (2010). Horn type and horn length genes map to the same chromosomal region in Soay sheep. Heredity, 104 (2), 196-205. doi: 10.1038/hdy.2009.109
Nichols, Krista M., Neale, David B., Gratten, Jake, Wilson, Alastair J., McRae, Allan F., Beraldi, Dario, Visscher, Peter M., Pemberton, Josephine M. and Slate, Jon (2010). Association genetics, population genomics, and conservation: Revealing the genes underlying adaptation in natural populations of plants and animals. Molecular Approaches in Natural Resource Conservation and Management, 123-168.
Medland, S, Nyholt, D, Painter, JN, McEnvoy, BP, Allan McRae, Zhu, G, Gordon, SD, Ferreira, MAR, Wright, MJ, Henders, AK, Campbell MJ, Duffy, D, Hansell, N K, Macgregor, S, Slutske, WS, Heath, AC, Montgomery, GW and Martin, NG (2009). Common Variants in the Trichohyalin Gene Are Associated with Straight Hair in Europeans. American Journal of Human Genetics, 85 (5), 750-755. doi: 10.1016/j.ajhg.2009.10.009
E. M. Byrne, A. F. McRae, D. L. Duffy, Z. Z. Zhao, N. G. Martin, J. B. Whitfield, P. M. Visscher and G. W. Montgomery (2009). Family-based mitochondrial association study of traits related to type 2 diabetes and the metabolic syndrome in adolescents. Diabetologia, 52 (11), 2359-2368. doi: 10.1007/s00125-009-1510-9
Byrne, EM, McRae, AF, Duffy, DL, Zhao, ZZ, Martin, NG, Wright, MJ, Montgomery, GW and Visscher, PM (2009). Association Study of Common Mitochondrial Variants and Cognitive Ability. BEHAVIOR GENETICS, 39 (5), 504-512. doi: 10.1007/s10519-009-9276-x
Matthew C. Keller, Allan F. McRae, Julie M. McGaughran, Peter M. Visscher, Nicholas G. Martin and Grant W. Montgomery (2009). Non-pathological paternal isodisomy of chromosome 2 detected from a genome-wide SNP scan.. American Journal of Medical Genetics. Part A, 149A (8), 1823-1826. doi: 10.1002/ajmg.a.32973
Brian P. McEvoy, Grant W. Montgomery, Allan F. McRae, Samuli Ripatti, Markus Perola, Tim D. Spector, Lynn Cherkas, Kourosh R. Ahmadi, Dorret Boomsma, Gonneke Willemsen, Jouke J. Hottenga, Nancy L. Pedersen, Patrik K.E. Magnusson, Kirsten Ohm Kyvik, Kaare Christensen, Jaakko Kaprio, Kauko Heikkilä, Aarno Palotie, Elisabeth Widen, Juha Muilu, Ann-Christine Syvänen, Ulrika Liljedahl, Orla Hardiman, Simon Cronin, Leena Peltonen, Nicholas G. Martin and Peter M. Visscher (2009). Geographical structure and differential natural selection among North European populations. Genome Research, 19 (5), 804-814. doi: 10.1101/gr.083394.108
Benyamin, Beben, Visscher, Peter M. and McRae, Allan F. (2009). Family-based genome-wide association studies. Pharmacogenomics, 10 (2), 181-190. doi: 10.2217/14622416.10.2.181
Zachary A Kaminsky, Thomas Tang, Sun-Chong Wang, Carolyn Ptak, Gabriel H T Oh, Albert H C Wong, Laura A Feldcamp, Carl Virtanen, Jonas Halfvarson, Curt Tysk, Allan F McRae, Peter M Visscher, Grant W Montgomery, Irving I Gottesman, Nicholas G Martin and Art Petronis (2009). DNA methylation profiles in monozygotic and dizygotic twins. Nature Genetics, 41 (2), 240-245. doi: 10.1038/ng.286
Beben Benyamin, Allan F. McRae, Gu Zhu, Scott Gordon, Anjali K. Henders, Aarno Palotie, Leena Peltonen, Nicholas G. Martin, Grant W. Montgomery, John B. Whitfield and Peter M. Visscher (2009). Variants in TF and HFE Explain 40% of Genetic Variation in Serum-Transferrin Levels. American Journal of Human Genetics, 84 (1), 60-65. doi: 10.1016/j.ajhg.2008.11.011
Knight, Helen M., Pickard, Benjamin S., Maclean, Alan, Malloy, Mary P., Soares, Dinesh C., McRae, Allan F., Condie, Alison, White, Angela, Hawkins, William, McGhee, Kevin, van Beck, Margaret, MacIntyre, Donald J., Starr, John M., Deary, Ian J., Visscher, Peter M., Porteous, David J., Cannon, Ronald E., St Clair, David, Muir, Walter J. and Blackwood, Douglas H. R. (2009). A cytogenetic abnormality and rare coding variants identify ABCA13 as a candidate gene in schizophrenia, bipolar disorder, and depression. American Journal of Human Genetics, 85 (6), 833-846. doi: 10.1016/j.ajhg.2009.11.003
Sved, John A., McRae, Allan F. and Visscher, Peter M. (2008). Divergence between human populations estimated from linkage disequilibrium. American Journal of Human Genetics, 83 (6), 737-743. doi: 10.1016/j.ajhg.2008.10.019
Middelberg, Rita P., Gordon, Scott D., Zhu, Gu, McRae, Allan, Montgomery, Grant W., Martin, Nicholas G. and Whitfield, John B. (2008). Linkage and Association Analyses of Longitudinally Measured Lipid Phenotypes in Adolescence. Twin Research and Human Genetics, 11 (6), 603-620. doi: 10.1375/twin.11.6.603
Byrne, Enda M., Mcrae, Allan F., Zhao, Zhen-Zhen, Martin, Nicholas G., Montgomery, Grant W. and Visscher, Peter M. (2008). The use of common mitochondrial variants to detect and characterise population structure in the Australian population: Implications for genome-wide association studies. European Journal of Human Genetics, 16 (11), 1396-1403. doi: 10.1038/ejhg.2008.117
Keith, Jonathan M., McRae, Allan, Duffy, David, Mengersen, Kerrie and Visscher, Peter M. (2008). Calculation of IBD probabilities with dense SNP or sequence data. Genetic Epidemiology, 32 (6), 513-519. doi: 10.1002/gepi.20324
McRae, Allan F., Byrne, Enda M., Zhao, Zhen Zhen, Montgomery, Grant W. and Visscher, Peter M. (2008). Power and SNP tagging in whole mitochondrial genome association studies. Genome Research, 18 (6), 911-917. doi: 10.1101/gr.074872.107
Gratten, J., Wilson, A. J., McRae, A. F., Beraldi, D., Visscher, P. M., Pemberton, J. M. and Slate, J. (2008). A localized negative genetic correlation constrains microevolution of coat color in wild sheep. Science, 319 (5861), 318-320. doi: 10.1126/science.1151182
Beraldi, Dario, McRae, Allan F., Gratten, Jacob, Slate, Jon, Visscher, Peter M. and Pemberton, Josephine M. (2007). Mapping quantitative trait loci underlying fitness-related traits in a free-living sheep population. Evolution, 61 (6), 1403-1416. doi: 10.1111/j.1558-5646.2007.00106.x
Gratten, J., Beraldi, D., Lowder, B. V., McRae, A. F., Visscher, P. M., Pemberton, J. M. and Slate, J. (2007). Compelling evidence that a single nucleotide substitution in TYRP1 is responsible for coat-colour polymorphism in a free-living population of Soay sheep. Proceedings of the Royal Society of London: Biological Sciences, 274 (1610), 619-626. doi: 10.1098/rspb.2006.3762
McRae, A. F., Matigian, N. A., Vadlamudi, L., Mulley, J. C., Mowry, B., Martin, N. G., Berkovic, S. F., Hayward, N. K. and Visscher, P. M. (2007). Replicated effects of sex and genotype on gene expression in human lymphoblastoid cell lines. Human Molecular Genetics, 16 (4), 364-373. doi: 10.1093/hmg/ddl456
Beraldi, Dario, McRae, Allan F., Gratten, Jacob, Slate, Jon, Visscher, Peter M., Pemberton, Josephine M. and Pilkington, Jill G. (2007). Quantitative trait loci (QTL) mapping of resistance to strongyles and coccidia in the free-living Soay sheep (Ovis aries). Journal of Parasitology, 37 (1), 121-129. doi: 10.1016/j.ijpara.2006.09.007
Beraldi, Dario, McRae, Allan F., Gratten, Jacob, Slate, Jon, Visscher, Peter M. and Pemberton, Josephine M. (2006). Development of a linkage map and mapping of phenotypic polymorphisms in a free-living population of Soay sheep (Ovis aries). Genetics, 173 (3), 1521-1537. doi: 10.1534/genetics.106.057141
Anderson, Carl A., McRae, Allan F. and Visscher, Peter M. (2006). A simple linear regression method for quantitative trait loci linkage analysis with censored observations. Genetics, 173 (3), 1735-1745. doi: 10.1534/genetics.106.055921
McRae, AF and Beraldi, D (2006). Examination of a region showing linkage map discrepancies across sheep breeds. Mammalian Genome, 17 (4), 346-353. doi: 10.1007/s00335-005-0087-y
McRae, AF, Pemberton, JM and Visscher, PM (2005). Modeling linkage disequilibrium in natural populations: The example of the Soay sheep population of St. Kilda, Scotland. Genetics, 171 (1), 251-258. doi: 10.1534/genetics.105.040972
McRae, AF, Bishop, SC, Walling, GA, Wilson, AD and Visscher, PM (2005). Mapping of multiple quantitative trait loci for growth and carcass traits in a complex commercial sheep pedigree. Animal Science, 80 (8), 135-141. doi: 10.1079/ASC41040135
Campbell, AW, Bain, WE, McRae, AF, Broad, TE, Johnstone, PD, Dodds, KG, Veenvliet, BA, Greer, GJ, Glass, BC, Beattie, AE, Jopson, NB and McEwan, JC (2003). Bone density in sheep: genetic variation and quantitative trait loci localisation. Bone, 33 (4), 540-548. doi: 10.1016/S8756-3282(03)00228-X
McRae, AF, McEwan, JC, Dodds, KG, Wilson, T, Crawford, AM and Slate, J (2002). Linkage disequilibrium in domestic sheep. Genetics, 160 (3), 1113-1122.
Conference Papers
Mortlock, Sally, Fung, Jenny N., Girling, Jane E., Holdsworth-Carson, Sarah J., Healey, Martin, Lukowski, Samuel W., McKinnon, Brett D., Yang, Jian, McRae, Allan, Rogers, Peter A. W. and Montgomery, Grant W. (2019). Identifying Target Genes for Endometriosis through Integration of Genetic Effects on Transcription and Methylation in Human Endometrium. 66th Annual Scientific Meeting of the Society for Reproductive Investigation (SRI), Paris, France, 12-16 March 2019. Thousand Oaks, CA, United States: Sage.
Gratten, Jacob, Yang, Yuanhao, Trzaskowski, Maciej, Kemper, Kathryn, Yengo, Loic, Zheng, Zhili, Zhang, Futao, Zhu, Zhihong, Mcrae, Allan, Yang, Jian, Wray, Naomi and Visscher, Peter (2019). Common genetic variation explains a high proportion of the elevated risk of psychiatric disorders in children of younger mothers. 26th World Congress of Psychiatric Genetics (WCPG), Glasgow, Scotland, 11-15 October, 2018. Amsterdam, Netherlands: Elsevier BV. doi: 10.1016/j.euroneuro.2018.08.167
Zeng, Jian, de Vlaming, Ronald, Wu, Yang, Robinson, Matthew R., Lloyd-Jones, Luke R., Yengo, Loic, Yap, Chloe X., Xue, Angli, Sidorenko, Julia, Mcrae, Allan F., Powell, Joseph E., Montgomery, Grant W., Metspalu, Andres, Esko, Tonu, Gibson, Greg, Wray, Naomi R., Visscher, Peter M. and Yang, Jian (2018). Signatures of negative selection in the genetic architecture of human complex traits. 48th Annual Meeting of the Behavior-Genetics-Association (BGA), Boston MA, United States, 20-23 June 2018. New York, NY United States: Springer New York.
Chundru, V. Kartik, Marioni, Riccardo E., Deary, Ian J., Wray, Naomi R., Visscher, Peter M. and McRae, Allan F. (2018). Fine-mapping reveals complex genetic architecture underlying DNA methylation. Human Genome Meeting, Yokohama, Japan, 12-15 March 2018. London, United Kingdom: Henry Stewart Publications. doi: 10.1186/s40246-018-0138-6
Kassam, Irfahan, Wu, Yang, Visscher, Peter M. and McRae, Allan F. (2017). Tissue-specific sexual dimorphism in autosomal gene expression. Annual Meeting of the International-Genetic-Epidemiology-Society (IGES), Cambridge, England, 9-11 September 2017. Hoboken, NJ, United States: John Wiley & Sons. doi: 10.1002/gepi.22062
Steyn, Frederik J., Restuadi, Restuadi, Ioannides, Zara, Ngo, Shyuan T., McRae, Allan, Wray, Naomi R., Henderson, Robert and McCombe, Pamela (2017). Comparison of Faecal Microbe Diversity Between Motor Neurone Disease (Mnd) and Control Participants. Annual Scientific Meeting of the Australian-and-New-Zealand-Association-of-Neurologists (ANZAN), Gold Coast, Australia, 9-12 May 2017. London, United Kingdom: BMJ. doi: 10.1136/jnnp-2017-316074.81
Kwok, J., Coupland, K., Mellick, G., Mather, K., Thalamuthu, A., Armstrong, N., Sachdev, P., Brodaty, H., Wright, M., Ames, D., Allen, M., Ertekin-Taner, N., McRae, A., Bennett, D., Jager, P. D., Kim, W., Halliday, G. and Dobson-Stone, C. (2015). Genome-wide association study identifies the SLC2A14 gene on chromosome 12P13 as a trans-acting locus for methylation of MAPT gene. 25th Biennial Meeting of the International Society for Neurochemistry Jointly with the 13th Meeting of the Asian Pacific Society for Neurochemistry in Conjunction with the 35th Meeting of the Australasian Neuroscience Society, Cairns, QLD Australia, 23-27 August 2015. Chichester, West Sussex, United Kingdom: Wiley-Blackwell Publishing. doi: 10.1111/jnc.13188
Thomas, Gethin P., Tseng, Hsu-Wen, Pettit, Allison, Glant, Tibor T., McRae, Allan and Brown, Matthew A. (2013). Endochondral Bone Formation and Advanced Enthesitis Are Key Features Of Proteoglycan Induced Spondylitis Mouse Model Of Ankylosing Spondylitis. 77th Annual Meeting of the American College of Rheumatology / 48th Annual Meeting of the Association of Rheumatology Health Professionals, San Diego CA, United States, 25-30 October 2013. Hoboken, NJ United States: John Wiley and Sons. doi: 10.1002/art.38216
Mosing, Miriam, Medland, Sarah, McRae, Allan, Wright, Margaret and Martin, Nick G. (2011). Genetic influences on life-span and its relationship to personality: a 16 year follow-up study of a sample of ageing twins. 41st Annual Meeting of the Behaviour Genetics Association, Newport, Rhode Island, 6-9 June 2011. New York, NY, United States: Springer.
Medland, S. E., Nyholt, D. R., Painter, J. N., McEvoy, B. P., McRae, A. F., Montgomery, G. W. and Martin, N. G. (2010). Common variants in the Trichohyalin gene are associated with straight hair in Europeans genetics and genodermatoses. 6th World Congress for Hair Research, Cairns, QLD, Australia, 16-19 June 2010. Oxford, United Kingdom: Wiley-Blackwell. doi: 10.1111/j.1600-0625.2010.01097.x
Data Collection
Anna Freydenzon, Allan F. McRaee, Shyuan Ngo, Naomi R. Wray, Leanne Wallace, Anjali K. Henders, Pamela A. McCombe, Robert D. Henderson and Frederik J. Steyn (2023). Skeletal muscle and blood RNA-seq counts in motor neurone disease cases and controls. The University of Queensland. (Dataset) doi: 10.48610/b722f1f