Publications

Pan L, Zheng C, Yang Z, Pawitan Y, Vu TN, Shen X (2022). Hidden genetic regulation of human complex traits via brain isoforms. Phenomics, DOI: 10.1007/s43657-023-00100-6 LINK.

William Young, Jeffrey Haesser, Jan-Walter Benjamins, Linda Repetto, Jie Yao, Aaron Isaacs, Andrew Harper, Julia Ramirez, Sophie Garnier, Stefan van Duijvenboden, Antoine Baldassari, Maria Pina Concas, ThuyVy Duong, Luisa Foco, Jonas Isaksen, Hao Mei, Raymond Noordam, Casia Nursyifa, Anne Richmond, Meddly Santolalla, Colleen Sitlani, Negin Soroush, Sébastien Thériault, Stella Trompet, Stefanie Aeschbacher, Fariba Ahmadizar, Alvaro Alonso, Jennifer Brody, Archie Campbell, Adolfo Correa, Dawood Darbar, Antonio De Luca, Jean-François Deleuze, Christina Ellervik, Christian Fuchsberger, Anuj Goel, Christopher Grace, Xiuqing Guo, Torben Hansen, Susan Heckbert, Rebecca D. Jackson, Jan Kors, Maria Fernanda Lima-Costa, Allan Linneberg, Peter Macfarlane, Alanna Morrison, Pau Navarro, David Porteous, Peter Pramstaller, Alexander Reiner, Lorenz Risch, Ulrich Schotten, Xia Shen, Gianfranco Sinagra, Elsayed Z Soliman, Monika Stoll, Eduardo Tarazona-Santos, Andrew Tinker, Katerina Trajanoska, Eric Villard, Helen Warren, Eric Whitsel, Kerri Wiggins, Dan Eytan Arking, Christy Avery, David Conen, Giorgia Girotto, Niels Grarup, Caroline Hayward, J Wouter Jukema, Dennis Mook-Kanamori, Morten Olesen, Sandosh Padmanabhan, Bruce Psaty, Cristian Pattaro, Antonio Luiz Ribeiro, Jerome Rotter, Bruno Stricker, Pim van der Harst, Cornelia van Duijn, Niek Verweij, James Wilson, Michele Orini, Philippe Charron, Hugh Watkins, Charles Kooperberg, Henry Lin, James Wilson, Jørgen Kanters, Nona Sotoodehnia, Borbala Mifsud, Pier Lambiase, Larisa Tereshchenko, and Patricia Munroe (2023). Genetic architecture of spatial electrical biomarkers for cardiac arrhythmia and relationship with cardiovascular disease. Nature Communications, 14, 1411. LINK

Yuan S, Wang L, Zhang H, Xu F, Zhou X, Yu L, Sun J, Chen J, Ying H, Xu X, Yu Y, Spiliopoulou A, Shen X, Wilson J, Gill D, Theodoratou E, Larsson SC, Li X (2023). Mendelian randomization and clinical trial evidence supports TYK2 inhibition as a therapeutic target for autoimmune diseases. EBioMedicine, 89: 104488. LINK

Zhai R, Zheng C, Yang Z, Li T, Chen J, Shen X (2022). Contribution of CRISPRable DNA to human complex traits. Communications Biology, 5, 1111 LINK.

Young WJ, Lahrouchi N, Isaacs A, Duong T, Foco L, Ahmed F, Brody JA, Salman R, Noordam R, Benjamins JW, Haessler J, Lyytikäinen LP, Repetto L, Concas MP, van den Berg ME, Weiss S, Baldassari AR, Bartz TM, Cook JP, Evans DS, Freudling R, Hines O, Isaksen JL, Lin H, Mei H, Moscati A, Müller-Nurasyid M, Nursyifa C, Qian Y, Richmond A, Roselli C, Ryan KA, Tarazona-Santos E, Thériault S, van Duijvenboden S, Warren HR, Yao J, Raza D, Aeschbacher S, Ahlberg G, Alonso A, Andreasen L, Bis JC, Boerwinkle E, Campbell A, Catamo E, Cocca M, Cutler MJ, Darbar D, De Grandi A, De Luca A, Ding J, Ellervik C, Ellinor PT, Felix SB, Froguel P, Fuchsberger C, Gögele M, Graff C, Graff M, Guo X, Hansen T, Heckbert SR, Huang PL, Huikuri HV, Hutri-Kähönen N, Ikram MA, Jackson RD, Junttila J, Kavousi M, Kors JA, Leal TP, Lemaitre RN, Lin HJ, Lind L, Linneberg A, Liu S, MacFarlane PW, Mangino M, Meitinger T, Mezzavilla M, Mishra PP, Mitchell RN, Mononen N, Montasser ME, Morrison AC, Nauck M, Nauffal V, Navarro P, Nikus K, Pare G, Patton KK, Pelliccione G, Pittman A, Porteous DJ, Pramstaller PP, Preuss MH, Raitakari OT, Reiner AP, Ribeiro ALP, Rice KM, Risch L, Schlessinger D, Schotten U, Schurmann C, Shen X, Shoemaker MB, Sinagra G, Sinner MF, Soliman EZ, Stoll M, Strauch K, Tarasov K, Taylor KD, Tinker A, Trompet S, Uitterlinden A, Völker U, Völzke H, Waldenberger M, Weng LC, Whitsel EA, Wilson JG, Avery CL, Conen D, Correa A, Cucca F, Dörr M, Gharib SA, Girotto G, Grarup N, Hayward C, Jamshidi Y, Järvelin MR, Jukema JW, Kääb S, Kähönen M, Kanters JK, Kooperberg C, Lehtimäki T, Lima-Costa MF, Liu Y, Loos RJF, Lubitz SA, Mook-Kanamori DO, Morris AP, O’Connell JR, Olesen MS, Orini M, Padmanabhan S, Pattaro C, Peters A, Psaty BM, Rotter JI, Stricker B, van der Harst P, van Duijn CM, Verweij N, Wilson JF, Arking DE, Ramirez J, Lambiase PD, Sotoodehnia N, Mifsud B, Newton-Cheh C, Munroe PB. Genetic analyses of the electrocardiographic QT interval and its components identify additional loci and pathways. Nature Communications, 13(1): 5144. LINK.

Huang J, Zheng C, Luo R, Cao X, Liu M, Gu Q, Li F, Li J, Wu X, Yang Z, Shen X, Li X. Integrative analysis of multiomics data identifies selenium-related gene ALAD associating with keshan disease (2022). Free Radic Biol Med, 193: 702-719. LINK

Yang Z, Macdonald-Dunlop E, Chen J, Zhai R, Li T, Richmond A, Klaric L, Pirastu N, Ning Z, Zheng C, Wang Y, Huang T, He Y, Guo H, Ying K, Gustafsson S, Prins B, Ramisch A, Dermitzakis ET, Png G, Eriksson N, Haessler J, Hu X, Zanetti D, Boutin T, Hwang S-J, Wheeler E, Pietzner M, Raffield LM, Kalnapenkis A, Peters JE, Viñuela A, Gilly A, Elmståhl S, Dedoussis G, Petrie JR, Polašek O, Folkersen L, Chen Y, Yao C, Võsa U, Pairo-Castineira E, Clohisey S, Bretherick AD, Rawlik K, GenOMICC Consortium, IMI-DIRECT Consortium, Esko T, Enroth S, Johansson Å, Gyllensten U, Langenberg C, Levy D, Hayward C, Assimes TL, Kooperberg C, Manichaikul AW, Siegbahn A, Wallentin L, Lind L, Zeggini E, Schwenk JM, Butterworth AS, Michaëlsson K, Pawitan Y, Joshi PK, Baillie JK, Mälarstig A, Reiner AP, Wilson JF, Shen X (2022). Genetic landscape of the ACE2 coronavirus receptor. Circulation, 145: 1398–1411. LINK.

Zhai R, Pan L, Yang Z, Li T, Ning Z, Pawitan Y, Wilson JF, Wu D, Shen X (2022). Genetic and phenotypic links between obesity and extracellular vesicles. Human Molecular Genetics, LINK.

Kousathanas A, Pairo-Castineira E, Rawlik K, Stuckey A, Odhams CA, Walker S, Russell CD, Malinauskas T, Wu Y, Millar J, Shen X, Elliott ES, Griffiths F, Oosthuyzen W, Morrice K, Keating S, Wang B, Rhodes D, Klaric L, Zechner M, Parkinson N, Siddiq A, Goddard P, Donovan S, Maslove D, Nichol A, Semple MG, Zainy T, Maleady-Crowe F, Todd L, Salehi S, Knight J, Elgar A, Chan G, Arumugam P, Patch C, Rendon A, Bentley D, Kingsley C, Kosmicki JA, Horowitz JE, Baras A, Abecasis GR, Ferreira MAR, Justice A, Mirshahi T, Oetjens M, Rader DJ, Ritchie MD, Verma A, Fowle TA, Shankar-Hari M, Summers C, Hinds C, Horby P, Ling L, McAuley D, Montgomery H, Openshaw PJM, Elliott P, Walsh T, Tenesa A, GenOMICC Investigators, 23andMe, Covid-19 Human Genetics Initiative, Fawkes A, Murphy L, Rowan K, Ponting CP, Vitart V, Wilson JF, Yang J, Bretherick AD, Scott RH, Hendry SC, Moutsianas L, Law A, Caulfield MJ, Baillie JK (2022). Whole genome sequencing reveals host factors underlying critical Covid-19. Nature, 607, 97–103. LINK.

Yang Z, Xu W, Zhai R, Li T, Ning Z, Pawitan Y, Shen X (2022). Integration of distinct analysis strategies improves tissue-trait association identification. Frontiers in Genetics, 12: 787107. LINK

Deng W, Murugan S, Lindberg J, Chellappa V, Shen X, Pawitan Y and Vu TN (2022) Fusion Gene Detection Using Whole-Exome Sequencing Data in Cancer Patients. Frontiers in Genetics, 13: 820493. LINK

Rannikmäe K, Rawlik K, Ferguson AC, Avramidis N, Jiang M, Pirastu N, Shen X, Davidson E, Woodfield R, Malik R, Dichgans M, Tenesa A, Sudlow C (2022). Physician-confirmed and administrative definitions of stroke in UK Biobank reflect the same underlying genetic trait. Frontiers in Neurology, 12: 787107. LINK

Png G, Barysenka A, Repetto L, Navarro P, Shen X, Pietzner M, Wheeler E, Wareham N, Langenberg C, Tsafantakis E, Karaleftheri M, Dedoussis G, Mälarstig A, Wilson JF, Gilly A, Zeggini E (2021). Mapping the serum proteome to neurological diseases using whole genome sequencing. Nature Communications, 12, 7042. LINK

Zhu H, Zheng F, Li L, Jin Y, Luo Y, Li Z, Zeng J, Tang L, Li Z, Xia N, Liu P, Han D, Shan Y, Zhu X, Liu S, Xie R, Chen Y, Liu W, Liu L, Xu X, Wang J, Yang H, Shen X, Jin X, Cheng F (2021). A Chinese host genetic study discovered IFNs and causality of laboratory traits on COVID-19 severity. iScience, 24(10): 103186. LINK

Chen W, Ren Z-H, Tang N, Chai G, Zhang H, Zhang Y, Ma J, Wu Z, Shen X, Huang X, Luo G-Z, Ji Q (2021). Targeted genetic screening in bacteria with a Cas12k-guided transposase. Cell Reports, 36(9): 109635. LINK

Ying K, Zhai R, Pyrkov TV, Shindyapina AV, Mariotti M, Fedichev PO, Shen X, Gladyshev VN (2021). Genetic and phenotypic analysis of the causal relationship between aging and COVID-19. Communications Medicine, 1:35. LINK

He Y, Shu C, Li T, Wu Q, Wang Z, Chen X, Shen X (2021). Non-inferiority in cancer clinical trials was associated with more lenient margins and higher hypothesized outcome event rates. Journal of Clinical Epidemiology, 139, 214-221. LINK

Li T, Ning Z, Shen X (2021). Improved estimation of phenotypic correlations using summary association statistics. Frontiers in Genetics, 12: 665252. LINK

Li T, Ning Z, Yang Z, Zhai R, Xu W, Ying K, Wang Y, Chen Y, Shen X (2021). Total genetic contribution assessment across the human genome. Nature Communications, 12, 1845; doi: 10.1038/s41467-021-23124-w. LINK

Ning Z, Tsepilov YA, Sharapov SZ, Wang Z, Grishenko AK, Feng X, Shirali M, Joshi PK, Wilson JF, Pawitan Y, Haley CS, Aulchenko YS, Shen X (2021). Nontrivial Replication of Loci Detected by Multi-Trait Methods. Frontiers in Genetics, 12: 627989. LINK

Pairo-Castineira E, Clohisey S, Klaric L, Bretherick AD, Rawlik K, Pasko D, Walker S, Parkinson N, Fourman MH, Russell CD, Furniss J, Richmond A, Gountouna E, Wrobel N, Harrison D, Wang B, Wu Y, Meynert A, Griffiths F, Oosthuyzen W, Kousathanas A, Moutsianas L, Yang Z, Zhai R, Zheng C, Grimes G, Beale R, Millar J, Shih B, Keating S, Zechner M, Haley C, Porteous DJ, Hayward C, Yang J, Knight J, Summers C, Shankar-Hari M, Klenerman P, Turtle L, Ho A, Moore SC, Hinds C, Horby P, Nichol A, Maslove D, Ling L, McAuley D, Montgomery H, Walsh T, Pereira A, Renieri A; GenOMICC Investigators; ISARICC Investigators; COVID-19 Human Genetics Initiative; 23andMe Investigators; BRACOVID Investigators; Gen-COVID Investigators, Shen X, Ponting CP, Fawkes A, Tenesa A, Caulfield M, Scott R, Rowan K, Murphy L, Openshaw PJM, Semple MG, Law A, Vitart V, Wilson JF, Baillie JK (2020). Genetic mechanisms of critical illness in Covid-19. Nature, 591, 92–98. LINK

Ning Z, Pawitan Y, Shen X (2020). High-definition likelihood inference of genetic correlations across human complex traits. Nature Genetics, 52: 859–864. LINK

Luo R, Zheng C, Yang H, Chen X, Jiang P, Wu X, Yang Z, Shen X, Li X (2020). Identification of potential candidate genes and pathways in atrioventricular nodal reentry tachycardia by whole-exome Sequencing. Clinical and Translational Medicine, 10: 238-257. LINK

Wu D, Yan J, Shen X, Sun Y, Thulin M, Cai Y, Wik L, Shen Q, Oelrich J, Qian X, Dubois KL, Ronquist KG, Nilsson M, Landegren U, Kamali-Moghaddam M (2019). Profiling surface proteins on individual exosomes using a proximity barcoding assay. Nature Communications, 10, 3854; doi: 10.1038/s41467-017-00934-5. LINK

Fang F, Zhan Y, Hammar N, Shen X , Wirdefeldt K, Walldius G, Mariosa D (2019). Lipids, Apolipoproteins, and the Risk of Parkinson Disease: A Prospective Cohort Study and a Mendelian Randomization Analysis. Circulation Research, 125: 643–652. LINK

Li T, Shen X (2019). Pleiotropy complicates human gene editing: CCR5Δ32 and beyond. Frontiers in Genetics, 10: 669. LINK

Ooi BNS, Loh H, Ho PJ, Milne R, Giles G, Gao C, Kraft P, John EM, Swerdlow A, Brenner H, Wu AH, Haiman C, Evans DG, Zheng W, Fasching P, Castelao JE, Kwong A, Shen X, Czene K, Hall P, Dunning A, Easton D, Hartman M, Li J (2019). The genetic interplay between body mass index, breast size and breast cancer risk: a Mendelian randomization analysis. International Journal of Epidemiology, 48(3): 781–794. LINK

Noordam R, Young WJ, Salman R, Kanters JK, van den Berg ME, van Heemst D, Lin HJ, Barreto SM, Biggs ML, Biino G, Catamo E, Concas MP, Ding J, Evans DS, Foco L, Grarup N, Lyytikäinen LP, Mangino M, Mei H, van der Most PJ, Müller-Nurasyid M, Nelson CP, Qian Y, Repetto L, Said MA, Shah N, Schramm K, Vidigal PG, Weiss S, Yao J, Zilhao NR, Brody JA, Braund PS, Brumat M, Campana E, Christofidou P, Caulfield MJ, De Grandi A, Dominiczak AF, Doney ASF, Eiriksdottir G, Ellervik C, Giatti L, Gögele M, Graff C, Guo X, van der Harst P, Joshi PK, Kähönen M, Kestenbaum B, Lima-Costa MF, Linneberg A, Maan AC, Meitinger T, Padmanabhan S, Pattaro C, Peters A, Petersmann A, Sever P, Sinner MF, Shen X, Stanton A, Strauch K, Soliman EZ, Tarasov KV, Taylor KD, Thio CHL, Uitterlinden AG, Vaccargiu S, Waldenberger M, Robino A, Correa A, Cucca F, Cummings SR, Dörr M, Girotto G, Gudnason V, Hansen T, Heckbert SR, Juhl CR, Kääb S, Lehtimäki T, Liu Y, Lotufo PA, Palmer CNA, Pirastu M, Pramstaller PP, Ribeiro ALP, Rotter JI, Samani NJ, Snieder H, Spector TD, Stricker BH, Verweij N, Wilson JF, Wilson JG, Jukema JW, Tinker A, Newton-Cheh CH, Sotoodehnia N, Mook-Kanamori DO, Munroe PB, Warren HR (2019). Effects of Calcium, Magnesium, and Potassium Concentrations on Ventricular Repolarization in Unselected Individuals. Journal of the American College of Cardiology, 73(24): 3118-3131. LINK

Timmers PRHJ, Mounier N, Läll K, Fischer K, Ning Z, Feng X, Bretherick A, Clark DW, eQTLGen Consortium, Shen X, Esko T, Kutalik Z, Wilson JF, Joshi PK (2019): Genomics of 1 million parent lifespans implicates novel pathways and common diseases and distinguishes survival chances. eLife, 8:e39856. LINK

Nowak C, Hetty S, Salihovic S, Castillejo-Lopez C, Ganna A, Cook N, Broeckling CD, Prenni J, Shen X, Giedraitis V, Ärnlöv J, Lind L, Berne C, Sundström J, Fall T, Ingelsson E (2018): Glucose challenge metabolomics implicates medium-chain acylcarnitines in insulin resistance. Scientific Reports, 8, 8691. LINK

Li X, Meng X, Spiliopoulou A, Timofeeva M, Wei W-Q, Gifford A, Shen X, He Y, Varley T, Tzoulaki I, Wright AF, Denny JC, Campbell H, Theodoratou E (2018): MR-PheWAS: exploring the causal effect of SUA level on multiple disease outcomes by using genetic instruments in UK Biobank. Annals of the Rheumatic Diseases, 77(7): 1039-1047. LINK

Ning Z, Lee Y, Joshi PK, Wilson JF, Pawitan Y, Shen X (2017): A selection operator for summary association statistics reveals allelic heterogeneity of complex traits. American Journal of Human Genetics, 101(6): 903-912; doi: 10.1016/j.ajhg.2017.09.027. LINK

Joshi PK, Pirastu N, Kentistou KA, Fischer K, Hofer E, Schraut KE, Clark DW, Nutile T, Barnes CLK, Timmers PRHJ, Shen X, Gandin I, McDaid AF, Hansen TF, Gordon SD, Giulianini F, Boutin TS, Abdellaoui A, Zhao W, Medina-Gomez C, Bartz TM, Trompet S, Lange LA, Raffield L, van der Spek A, Galesloot TE, Proitsi P, Yanek LR, Bielak LF, Payton A, Murgia F, Concas MP, Biino G, Tajuddin SM, Seppälä I, Amin N, Boerwinkle E, Børglum AD, Campbell A, Demerath EW, Demuth I, Faul JD, Ford I, Gialluisi A, Gögele M, Graff M, Hingorani A, Hottenga JJ, Hougaard DM, Hurme MA, Ikram MA, Jylhä M, Kuh D, Ligthart L, Lill CM, Lindenberger U, Lumley T, Mägi R, Marques-Vidal P, Medland SE, Milani L, Nagy R, Ollier WER, Peyser PA, Pramstaller PP, Ridker PM, Rivadeneira F, Ruggiero D, Saba Y, Schmidt R, Schmidt H, Slagboom PE, Smith BH, Smith JA, Sotoodehnia N, Steinhagen-Thiessen E, van Rooij FJA, Verbeek AL, Vermeulen SH, Vollenweider P, Wang Y, Werge T, Whitfield JB, Zonderman AB, Lehtimäki T, Evans MK, Pirastu M, Fuchsberger C, Bertram L, Pendleton N, Kardia SLR, Ciullo M, Becker DM, Wong A, Psaty BM, van Duijn CM, Wilson JG, Jukema JW, Kiemeney L, Uitterlinden AG, Franceschini N, North KE, Weir DR, Metspalu A, Boomsma DI, Hayward C, Chasman D, Martin NG, Sattar N, Campbell H, Esko T, Kutalik Z, Wilson JF (2017): Genome-wide meta-analysis associates HLA-DQA1/DRB1 and LPA and lifestyle factors with human longevity. Nature Communications, 8, 910; doi: 10.1038/s41467-017-00934-5. LINK

Shen X, Klarić L, Sharapov S, Mangino M, Ning Z, Wu D, Trbojević-Akmačić I, Pučić-Baković M, Rudan I, Polašek O, Hayward C, Spector TD, Wilson JF, Lauc G, Aulchenko YS (2017): Multivariate discovery and replication of five novel loci associated with Immunoglobulin G N-glycosylation. Nature Communications, 8, 447; doi: 10.1038/s41467-017-00453-3. LINK

Wang B, Li Z, Xu W, Feng X, Wan Q, Zan Y, Sheng S, Shen X (2017): Bivariate genomic analysis identifies a hidden locus associated with bacteria hypersensitive response in Arabidopsis thaliana. Scientific Reports, 7, 45281; doi: 10.1038/srep45281. LINK

Barban N, Jansen R, de Vlaming R, Vaez A, Mandemakers JJ, Tropf FC, Shen X, Wilson JF, Chasman DI, Nolte IM, Tragante V, van der Laan SW, Perry JR, Kong A; BIOS Consortium, Ahluwalia TS, Albrecht E, Yerges-Armstrong L, Atzmon G, Auro K, Ayers K, Bakshi A, Ben-Avraham D, Berger K, Bergman A, Bertram L, Bielak LF, Bjornsdottir G, Bonder MJ, Broer L, Bui M, Barbieri C, Cavadino A, Chavarro JE, Turman C, Concas MP, Cordell HJ, Davies G, Eibich P, Eriksson N, Esko T, Eriksson J, Falahi F, Felix JF, Fontana MA, Franke L, Gandin I, Gaskins AJ, Gieger C, Gunderson EP, Guo X, Hayward C, He C, Hofer E, Huang H, Joshi PK, Kanoni S, Karlsson R, Kiechl S, Kifley A, Kluttig A, Kraft P, Lagou V, Lecoeur C, Lahti J, Li-Gao R, Lind PA, Liu T, Makalic E, Mamasoula C, Matteson L, Mbarek H, McArdle PF, McMahon G, Meddens SF, Mihailov E, Miller M, Missmer SA, Monnereau C, van der Most PJ, Myhre R, Nalls MA, Nutile T, Kalafati IP, Porcu E, Prokopenko I, Rajan KB, Rich-Edwards J, Rietveld CA, Robino A, Rose LM, Rueedi R, Ryan KA, Saba Y, Schmidt D, Smith JA, Stolk L, Streeten E, Tönjes A, Thorleifsson G, Ulivi S, Wedenoja J, Wellmann J, Willeit P, Yao J, Yengo L, Zhao JH, Zhao W, Zhernakova DV, Amin N, Andrews H, Balkau B, Barzilai N, Bergmann S, Biino G, Bisgaard H, Bønnelykke K, Boomsma DI, Buring JE, Campbell H, Cappellani S, Ciullo M, Cox SR, Cucca F, Toniolo D, Davey-Smith G, Deary IJ, Dedoussis G, Deloukas P, van Duijn CM, de Geus EJ, Eriksson JG, Evans DA, Faul JD, Sala CF, Froguel P, Gasparini P, Girotto G, Grabe HJ, Greiser KH, Groenen PJ, de Haan HG, Haerting J, Harris TB, Heath AC, Heikkilä K, Hofman A, Homuth G, Holliday EG, Hopper J, Hyppönen E, Jacobsson B, Jaddoe VW, Johannesson M, Jugessur A, Kähönen M, Kajantie E, Kardia SL, Keavney B, Kolcic I, Koponen P, Kovacs P, Kronenberg F, Kutalik Z, La Bianca M, Lachance G, Iacono WG, Lai S, Lehtimäki T, Liewald DC; LifeLines Cohort Study, Lindgren CM, Liu Y, Luben R, Lucht M, Luoto R, Magnus P, Magnusson PK, Martin NG, McGue M, McQuillan R, Medland SE, Meisinger C, Mellström D, Metspalu A, Traglia M, Milani L, Mitchell P, Montgomery GW, Mook-Kanamori D, de Mutsert R, Nohr EA, Ohlsson C, Olsen J, Ong KK, Paternoster L, Pattie A, Penninx BW, Perola M, Peyser PA, Pirastu M, Polasek O, Power C, Kaprio J, Raffel LJ, Räikkönen K, Raitakari O, Ridker PM, Ring SM, Roll K, Rudan I, Ruggiero D, Rujescu D, Salomaa V, Schlessinger D, Schmidt H, Schmidt R, Schupf N, Smit J, Sorice R, Spector TD, Starr JM, Stöckl D, Strauch K, Stumvoll M, Swertz MA, Thorsteinsdottir U, Thurik AR, Timpson NJ, Tung JY, Uitterlinden AG, Vaccargiu S, Viikari J, Vitart V, Völzke H, Vollenweider P, Vuckovic D, Waage J, Wagner GG, Wang JJ, Wareham NJ, Weir DR, Willemsen G, Willeit J, Wright AF, Zondervan KT, Stefansson K, Krueger RF, Lee JJ, Benjamin DJ, Cesarini D, Koellinger PD, den Hoed M, Snieder H, Mills MC (2016): Genome-wide analysis identifies 12 loci influencing human reproductive behavior. Nature Genetics, 48, 1462-1472. LINK

Weng Z, Wolc A, Shen X, Fernando RL, Dekkers JCM, Arango J, Settar P, Fulton JE, O’Sullivan NP and Garrick DJ (2016): Effects of number of training generations on genomic prediction for various traits in a layer chicken population. Genetics Selection Evolution, 48:22. LINK

Zan Y, Shen X, Forsberg S, and Carlborg O (2016): Genetic Regulation of Transcriptional Variation in Natural Arabidopsis thaliana Accessions. G3, 6(8):2319-2328. LINK

(Authors in alphabetical order) Allen GI, Amoroso N, Anghel C, Balagurusamy V, Bare CJ, Beaton D, Bellotti R, Bennett DA, Boehme KL, Boutros PC, Caberlotto L, Caloian C, Campbell F, Chaibub Neto E, Chang YC, Chen B, Chen CY, Chien TY, Clark T, Das S, Davatzikos C, Deng J, Dillenberger D, Dobson RJ, Dong Q, Doshi J, Duma D, Errico R, Erus G, Everett E, Fardo DW, Friend SH, Fröhlich H, Gan J, St George-Hyslop P, Ghosh SS, Glaab E, Green RC, Guan Y, Hong MY, Huang C, Hwang J, Ibrahim J, Inglese P, Iyappan A, Jiang Q, Katsumata Y, Kauwe JS, Klein A, Kong D, Krause R, Lalonde E, Lauria M, Lee E, Lin X, Liu Z, Livingstone J, Logsdon BA, Lovestone S, Ma TW, Malhotra A, Mangravite LM, Maxwell TJ, Merrill E, Nagorski J, Namasivayam A, Narayan M, Naz M, Newhouse SJ, Norman TC, Nurtdinov RN, Oyang YJ, Pawitan Y, Peng S, Peters MA, Piccolo SR, Praveen P, Priami C, Sabelnykova VY, Senger P, Shen X, Simmons A, Sotiras A, Stolovitzky G, Tangaro S, Tateo A, Tung YA, Tustison NJ, Varol E, Vradenburg G, Weiner MW, Xiao G, Xie L, Xie Y, Xu J, Yang H, Zhan X, Zhou Y, Zhu F, Zhu H, Zhu S; Alzheimer’s Disease Neuroimaging Initiative (2016): Crowdsourced estimation of cognitive decline and resilience in Alzheimer’s disease. Alzheimer’s & Dementia, 12(6): 645-53. LINK

Lachowiec J, Shen X, Queitsch C and Carlborg O (2015): A genome-wide association analysis reveals epistatic cancellation of additive genetic variance for root length in Arabidopsis thaliana. PLoS Genetics, 11(9), e1005541. LINK

Shen X and Zhan Y (2015): RE: The effect on melanoma risk of genes previously associated with telomere length. Journal of the National Cancer Institute, 107(10): djv237. LINK

Alam M and Ronnegard L and Shen X (2015): Fitting conditional and simultaneous autoregressive spatial models in hglm. The R Journal, 7(2): 5-18. LINK

Besnier F, Glover K, Lien S, Kent M, Hansen M, Shen X and Skaala O (2015). Identification of quantitative genetic components of fitness variation in farmed, hybrid and native salmon in the wild. Heredity, 115, 47-55. LINK

Shen X, Forsberg S, Pettersson M, Sheng Z and Carlborg O (2014): Natural CMT2 variation is associated with genome-wide methylation changes and temperature seasonality. PLoS Genetics, 10(12), e1004842. LINK

Shen X and Hill WG (2014): Opportunities for improvement of phenotypic variability: influence of direct vs epistatic effects. Proceedings of the 10th WCGALP. LINK

Ronnegard L, Felleki M, Alam M and Shen X (2014): Simultaneous estimation of spatial and genetic effects using hierarchical generalized linear models. Proceedings of the 10th WCGALP. LINK

Shen X, Alam M and Ronnegard L (2014): Mixed models through the lens of hglm: applications and grand challenges. JSM Proceedings. LINK

Shen X, Li Y, Ronnegard L, Uden P and Carlborg O (2014): Application of a genomic model in chemometrics analysis. Journal of Chemometrics, 28: 548-557. LINK

Shen X (2013): The curse of the missing heritability. Frontiers in Genetics, 4:225. LINK

Nelson RM, Nettelblad C, Pettersson ME, Shen X, Crooks L, Besnier F, Alvarez-Castro Jose, Ronnegard L, Ek W, Sheng Z, Kierczak M, Holmgren S, Carlborg O (2013): MAPfastR: QTL mapping in outbred line crosses. G3, 3(12): 2147-2149. LINK

Shen X and Ronnegard L (2013): Issues with data transformation in genome-wide association studies for phenotypic variability. F1000Research, 2:200. LINK

Shen X and Carlborg O (2013): Beware of risk for increased false positive rates in genome-wide association studies for phenotypic variability. Frontiers in Genetics, 4:93. LINK

Shen X, Alam M, Fikse F and Ronnegard L (2013): A novel generalized ridge regression method for quantitative genetics. Genetics,193, 1255-1268. LINK

Sheng Z, Pettersson ME, Hu X, Luo C, Qu H, Shu D, Shen X, Carlborg O and Li N (2013): Genetic dissection of growth traits in a Chinese indigenous x commercial broiler chicken cross. BMC Genomics, 14:151. LINK

Li X, Kierczak M, Shen X, Ahsan M, Carlborg O and Marklund S (2013): PASE: a novel method for functional prediction of amino acid substitutions based on physicochemical properties. Frontiers in Genetics, 4:21. LINK

Shen X, Ronnegard L and Carlborg O (2011): How to Deal with Genotype Uncertainty in Variance Component Quantitative Trait Loci Analyses. Genetics Research, Cambridge, 93(5), 333-342. LINK

Nelson R, Shen X and Carlborg O (2011): qtl.outbred: interfacing outbred line cross data with the R/qtl mapping software. BMC Research Notes, 4:154. LINK

Shen X, Ronnegard L and Carlborg O (2011): Hierarchical likelihood opens a new way of estimating genetic values using dense marker maps. BMC Proceedings, 5(Suppl 3):S14. LINK