2023
Hu P, Miller AE, Yeh CR, Bingham GC, Civelek M, Barker TH. SEMA7a primes integrin α5β1 engagement instructing fibroblast mechanotransduction, phenotype and transcriptional programming. Matrix Biol. 2023 Jul 6;S0945-053X(23)00076-8
Perry RN, Albarracin D, Aherrahrou R, Civelek M. Network Preservation Analysis Reveals Dysregulated Metabolic Pathways in Human Vascular Smooth Muscle Cell Phenotypic Switching. Circ Genom Precis Med. 2023 Jun 30:e003781.
Aberra YT, Ma L, Björkegren JLM, Civelek M. Predicting mechanisms of action at genetic loci associated with discordant effects on type 2 diabetes and abdominal fat accumulation. Elife. 2023 Jun 16;12:e79834.
Wong D, Auguste G, Lino Cardenas CL, Turner AW, Chen Y, Song Y, Ma L, Perry RN, Aherrahrou R, Kuppusamy M, Yang C, Mosquera JV, Dube CJ, Khan MD, Palmore M, Kalra J, Kavousi M, Peyser PA, Matic L, Hedin U, Manichaikul A, Sonkusare SK, Civelek M, Kovacic JC, Björkegren JLM, Malhotra R, Miller CL. FHL5 Controls Vascular Disease-Associated Gene Programs in Smooth Muscle Cells. Circ Res. 2023 Apr 28;132(9):1144-1161.
Xu P, Wang M, Sharma NK, Comeau ME, Wabistch M, Langefeld CD, Civelek M, Zhang B, Das SK. Multi-omic integration reveals cell-type-specific regulatory networks of insulin resistance in distinct ancestry populations. Cell Syst. 2023 Jan 4;S2405-4712(22)00493-8.
Aherrahrou R, Lue D, Perry RN, Aberra YT, Khan MD, Soh JY, Örd T, Singha P, Yang Q, Gilani H, Benavente ED, Wong D, Hinkle J, Ma L, Sheynkman GM, den Ruijter HM, Miller CL, Björkegren JLM, Kaikkonen MU, Civelek M. Genetic Regulation of SMC Gene Expression and Splicing Predict Causal CAD Genes. Circ Res. 2023 Jan 4.
2022
Aherrahrou R, Lue D, Civelek M. Genetic regulation of circular RNA expression in human aortic smooth muscle cells and vascular traits. HGG Adv. 2022 Nov 30;4(1):100164
Yang Q, Hinkle J, Reed JN, Aherrahrou R, Xu Z, Harris TE, Stephenson EJ, Musunuru K, Keller SR, Civelek M. Adipocyte-Specific Modulation of KLF14 Expression in Mice Leads to Sex-Dependent Impacts on Adiposity and Lipid Metabolism. Diabetes. 2022 Apr 1;71(4):677-693.
2021
Slenders L, Landsmeer LPL, Cui K, Depuydt MAC, Verwer M, Mekke J, Timmerman N, van den Dungen NAM, Kuiper J, de Winther MPJ, Prange KHM, Ma WF, Miller CL, Aherrahrou R, Civelek M, de Borst GJ, de Kleijn DPV, Asselbergs FW, den Ruijter HM, Boltjes A, Pasterkamp G, van der Laan SW, Mokry M. Intersecting single-cell transcriptomics and genome-wide association studies identifies crucial cell populations and candidate genes for atherosclerosis. Eur Heart J Open. 2021 Dec 21;2(1):oeab043
Xu H, Thomas MJ, Kaul S, Kallinger R, Ouweneel AB, Maruko E, Oussaada SM, Jongejan A, Cense HA, Nieuwdorp M, Serlie MJ, Goldberg IJ, Civelek M, Parks BW, Lusis AJ, Knaack D, Schill RL, May SC, Reho JJ, Grobe JL, Gantner B, Sahoo D, Sorci-Thomas MG. Pcpe2, a Novel Extracellular Matrix Protein, Regulates Adipocyte SR-BI-Mediated High-Density Lipoprotein Uptake. Arterioscler Thromb Vasc Biol. 2021;41(11):2708-2725
Ke W, Reed JN, Yang C, Higgason,N, Rayyan L, Wählby C, Carpenter AE, Civelek M, O’Rourke EJ. Genes in human obesity loci are causal obesity genes in C. elegans. PLoS Genet 2021;17(9):e1009736
Xu H, Thomas MJ, Kaul S, Kallinger R, Ouweneel AB, Maruko E, Oussaada SM, Jongejan A, Cense HA, Nieuwdorp M, Serlie MJ, Goldberg IJ, Civelek M, Parks BW, Lusis AJ, Knaack D, Schill RL, May SC, Reho JJ, Grobe JL, Gantner B, Sahoo D, Sorci-Thomas MG. Pcpe2, a Novel Extracellular Matrix Protein, Regulates Adipocyte SR-BI-Mediated High-Density Lipoprotein Uptake. Arterioscler Thromb Vasc Biol. 2021;41(11):2708-2725
T. Örd, K. Õunap, L. Stolze, R. Aherrahrou, V. Nurminen, I. Selvarajan, A. Toropainen, T. Lönnberg, E. Aavik, S. Yla-Herttuala, M. Civelek, C.E. Romanoski, M.U. Kaikkonen. “Single-Cell Epigenomics and Functional Fine-Mapping of Atherosclerosis GWAS Loci” Circ. Res. 2021 Jul 9;129(2):240-258.
S.E. Innis, K. Reinaltt, M. Civelek, W.D. Anderson. “GSEAplot: A Package for Customizing Gene Set Enrichment Analysis in R.” J Comput Biol. 2021 Jun;28(6):629-631.
M. Wierer, J. Werner, J. Wobst, A. Kastrati, G. Cepele, R. Aherrahrou, H.B. Sager, J. Erdmann, M. Dichgans, V. Flockerzi, M. Civelek, A. Dietrich, M. Mann, H. Schunkert, T. Kessler. “A proteomic atlas of the neointima identifies novel druggable targets for preventive therapy.” Eur Heart J. 2021 May 7;42(18):1773-1785.
J.A. Hartiala, Y. Han, Q. Jia, J.R. Hilser, P. Huang, J. Gukasyan, W.S. Schwartzman, Z. Cai, S. Biswas, D.A. Trégouët, N.L. Smith; INVENT Consortium; CHARGE Consortium Hemostasis Working Group; GENIUS-CHD Consortium, M. Seldin, C. Pan, M. Mehrabian, A.J. Lusis, P. Bazeley, Y.V. Sun, C. Liu, A.A. Quyyumi, M. Scholz, J. Thiery, G.E. Delgado, M. E. Kleber, W. März, L.J. Howe, F.W. Asselbergs, M. van Vugt, G.J. Vlachojannis, R.S. Patel, L.P. Lyytikäinen, M. Kähönen, T. Lehtimäki, T.V.M. Nieminen, P. Kuukasjärvi, J.O. Laurikka, X. Chang, C.K. Heng, R. Jiang, W.E. Kraus, E.R. Hauser, J.F. Ferguson, M.P. Reilly, K. Ito, S. Koyama, Y. Kamatani, I. Komuro, Biobank Japan, L.K. Stolze, C.E. Romanoski, M.D. Khan, A. W. Turner, C.L. Miller, R. Aherrahrou, M. Civelek, L. Ma, J.L.M. Björkegren, S.R. Kumar, W.H.W. Tang, S.L. Hazen, H. Allayee. “Genome-wide analysis identifies novel susceptibility loci for myocardial infarction.” Eur. Heart J. 2021 Mar 1;42(9):919-933.
R.J.G. Hartman, K. Owsiany, L. Ma, S. Koplev, K. Hao, L. Slenders, M. Civelek, M. Mokry, J.C. Kovacic, G. Pasterkamp, G. K. Owens, J.L.M. Björkegren, H.M. den Ruijter. “Sex-Stratified Gene Regulatory Networks Reveal Female Key-Driver Genes of Atherosclerosis Involved in Smooth Muscle Cell Phenotype Switching.” Circulation. 2021 Feb 16;143(7):713-726.
2020
R. Aherrahrou, L. Guo, V.P. Nagraj, A.A. Aguhob, J. Hinkle, L. Chen, J.Y. Soh, D. Lue, G.F. Alencar, A. Boltjes, S.W. van der Laan, E. Farber, D. Fuller, R. Anane-Wae, N.D. Akingbesote, A.W. Manichaikul, L. Ma, M.U. Kaikkonen, J.L. Björkegren, S. Onengut-Gumuscu, G. Pasterkamp, C.L. Miller, G.K. Owens, A.V. Finn, M. Navab, A.M. Fogelman, J.A Berliner, M. Civelek. “Genetic Regulation of Atherosclerosis-Relevant Phenotypes in Human Vascular Smooth Muscle Cells.” Circ. Res. 2020 Dec 4;127(12):1552-1565.
W.D. Anderson, J.Y Soh, S.E. Innis, A. Dimanche, L. Ma, C.D. Langefeld, M.E. Comeau, S.K. Das, E.E. Schadt, J.L.M. Björkegren, M. Civelek. “Sex differences in human adipose tissue gene expression and genetic regulation involve adipogenesis.” Genome Res. 2020 Oct; 30 (10):1379-1392.
I. Tuominen, B.K. Fuqua, C. Pan, N. Renaud, K. Wroblewski, M. Civelek, K. Clerkin, A. Asaryan, S.G. Haroutunian, J. Loureiro, J. Borawski, G. Roma, J. Knehr, W. Carbone, S. French, B.W. Parks, S.T. Hui, M. Mehrabian, C. Magyar, R.M. Cantor, C. Ukomadu, A.J. Lusis, S.W. Beaven. “The Genetic Architecture of Carbon Tetrachloride-Induced Liver Fibrosis in Mice.” Cell Mol Gastroenterol Hepatol. 2020 Aug 28;11(1):199-220.
Z. Zhou, T.M. Moore, B.G. Drew, V. Ribas, J. Wanagat, M. Civelek, M. Segawa, D.M. Wolf, F. Norheim, M.M. Seldin, A.R. Strumwasser, K.A. Whitney, E. Lester, B.R. Reddish, L. Vergnes, K. Reue, P. Rajbhandari, P. Tontonoz, J. Lee, S.K. Mahata, S.C. Hewitt, O. Shirihai, C. Glastonbury, K.S. Small, M. Laakso, J. Jensen, S. Lee, C.A. Drevon, K.S. Korach, A.J. Lusis, A.L Hevener. “Estrogen receptor α controls metabolism in white and brown adipocytes by regulating Polg1 and mitochondrial remodeling.” Sci Transl Med. 2020 Aug 5;12(555):eaax8096.
R.J.G. Hartman, D.M.C Kapteijn, S. Haitjema, M.N. Bekker, M. Mokry, G. Pasterkamp, M. Civelek, H.M den Ruijter. “Intrinsic transcriptomic sex differences in human endothelial cells at birth and in adults are associated with coronary artery disease targets.” Sci Rep. 2020 Jul 23;10(1):12367.
B.A.T. Rodriguez, A. Bhan, A. Beswick, P.C. Elwood, T.J. Niiranen, V. Salomaa, FinnGen Study, D.A. Trégouët, P.E Morange, M. Civelek, Y. Ben-Shlomo, T. Schlaeger, M.H Chen, A.D. Johnson. “A Platelet Function Modulator of Thrombin Activation Is Causally Linked to Cardiovascular Disease and Affects PAR4 Receptor Signaling.” Am J Hum Genet. 2020 Aug 6;107(2):211-221.
Q. Yang, M. Civelek. “Transcription Factor KLF14 and Metabolic Syndrome.” Front Cardiovasc Med. 2020 May 27;7:91.
S.A. Reifeis, M.G. Hudgens, M. Civelek, K.L. Mohlke, M.I. Love. “Assessing exposure effects on gene expression. ” Genet Epidemiol. 2020 Sep;44(6):601-610.
W.D. Anderson, F.M. Duarte, M. M. Civelek, M.J. Guertin. “Defining data-driven primary transcript annotations with primaryTranscriptAnnotation in R. ” Bioinformatics. 2020 May 1;36(9):2926-2928.
J.W. Olin, A.F. Di Narzo, V. d’Escamard, D. Kadian-Dodov, H. Cheng, A. Georges, A. King, A. Thomas, T. Barwari, K.C. Michelis, R. Bouchareb, E. Bander, A. Anyanwu, P. Stelzer, F. Filsoufi, S. Florman, M. Civelek, S. Debette, X. Jeunemaitre, J. Lm Björkegren, M. Mayr, N. Bouatia-Naji, K. Hao, J.C. Kovacic. “A plasma proteogenomic signature for fibromuscular dysplasia. ” Cardiovasc Res. 2020 Jan 1;116(1):63-77.
2019
Y. Wu, K.A. Broadaway, C.K. Raulerson, L.J. Scott, C. Pan, A. Ko, A. He, C. Tilford, C. Fuchsberger, A.E. Locke, H.M. Stringham, A.U. Jackson, N. Narisu, J. Kuusisto, P. Pajukanta, F.S. Collins, M. Boehnke, M. Laakso, A.J. Lusis, M. Civelek, K.L. Mohlke. “Colocalization of GWAS and eQTL signals at loci with multiple signals identifies additional candidate genes for body fat distribution. ” Hum Mol Genet. 2019 Dec 15;28(24):4161-4172.
R.N. Helsley, V. Varadharajan, A.L. Brown, A.D. Gromovsky, R.C. Schugar, I. Ramachandiran, K. Fung, M.N. Kabbany, R. Banerjee, C.K. Neumann, C. Finney, P. Pathak, D. Orabi, L.J. Osborn, W. Massey, R. Zhang, A. Kadam, B.E. Sansbury, C. Pan, J. Sacks, R.G. Lee, R.M. Crooke, M.J. Graham, M.E. Lemieux, V. Gogonea, J.P. Kirwan, D.S. Allende, M. Civelek, P.L. Fox, L.L. Rudel, A.J. Lusis, M. Spite, J.M. Brown. “Obesity-linked suppression of membrane-bound O-acyltransferase 7 (MBOAT7) drives non-alcoholic fatty liver disease. ” Elife. 2019 Oct 17;8:e49882.
C.K. Raulerson, A. Ko, J.C. Kidd, K.W. Currin, S.M. Brotman, M.E. Cannon, Y. Wu, C.N. Spracklen, A.U. Jackson, H.M. Stringham, R.P. Welch, C. Fuchsberger, A.E. Locke, N. Narisu, A.J. Lusis, M. Civelek, T.S. Furey, J. Kuusisto, F.S. Collins, M. Boehnke, L.J. Scott, D.Y. Lin, M.I. Love, M. Laakso, P. Pajukanta, K.L. Mohlke. “Adipose Tissue Gene Expression Associations Reveal Hundreds of Candidate Genes for Cardiometabolic Traits.” Am J Hum Genet. 2019 Oct 3;105(4):773-787
M. Prestel, C. Prell-Schicker, T. Webb, R. Malik, B. Lindner, N. Ziesch, M. Rex-Haffner, S. Röh, T. Viturawong, M. Lehm, M. Mokry, H. den Ruijter, S. Haitjema, Y. Asare, F. Söllner, M.G. Najafabadi, R. Aherrahrou, M. Civelek, N.J. Samani, M. Mann, C. Haffner, M. Dichgans. “The Atherosclerosis Risk Variant rs2107595 Mediates Allele-Specific Transcriptional Regulation of HDAC9 via E2F3 and Rb1.” Stroke. 2019 Oct;50(10):2651-2660
C. Kalliora, I.D. Kyriazis, S.I. Oka, M.J. Lieu, Y. Yue, E. Area-Gomez, C.J. Pol, Y. Tian, W. Mizushima, A. Chin, D. Scerbo, P.C. Schulze, M. Civelek, J. Sadoshima, M. Madesh, I.J. Goldberg, K. Drosatos. “Dual peroxisome-proliferator-activated-receptor-α/γ activation inhibits SIRT1-PGC1α axis and causes cardiac dysfunction.” JCI Insight. 2019 Aug 8;5(17):e129556
F. Thibord, L. Hardy, M. Ibrahim-Kosta, N. Saut, A.S. Pulcrano-Nicolas, L. Goumidi, M. Civelek, P. Eriksson, J.F. Deleuze, W. Le Goff, D.A. Trégouët, P.E. Morange. “A Genome Wide Association Study on plasma FV levels identified PLXDC2 as a new modifier of the coagulation process.” J Thromb Haemost. 2019 Nov;17(11):1808-1814.
M. Civelek and J. Erdmann. “miRNAs and regulation of cardiometabolic phenotypes – novel insights into the complexity of GWAS loci.” Cardiovasc. Res. 2019 Sep 1;115(11):1570-1571.
N.K. Sharma, C.C. Chuang Key, M. Civelek, M. Wabitsch, M.E. Comeau, C.D. Langefeld, J.S. Parks, S.K. Das. “Genetic Regulation of enoyl-CoA hydratase Domain-Containing 3 in Adipose Tissue Determines Insulin Sensitivity in African Americans and Europeans.” Diabetes. 2019 Jul;68(7):1508-1522.
S.T. Bond, S.C. Moody, Y. Liu, M. Civelek, C.J. Villanueva, P. Gregorevic, B.A. Kingwell, A.L. Hevener, A.J. Lusis, D.C. Henstridge, A.C. Calkin, B.G. Drew. “The E3 ligase March5 is a PPARγ target gene that regulates mitochondria and metabolism in adipocytes.” Am J Physiol Endocrinol Metab. 2019 Feb 1;316(2):E293-E304.
2018
M.D. Krause, R.T. Huang, D. Wu, T.P Shentu, D.L. Harrison, M.B. Whalen, L.K. Stolze, A. Di Rienzo, I.P. Moskowitz, M. Civelek, C.E. Romanoski, Y. Fang. “Genetic variant at coronary artery disease and ischemic stroke locus 1p32.2 regulates endothelial responses to hemodynamics.” Proc Natl Acad Sci U S A. 2018, Nov 27; 115(48): E11349-E11358.
P. Dusart, L. Fagerberg, L. Perisic, M. Civelek, E. Struck, U. Hedin, M. Uhlén, D.A. Trégouët, T. Renné, J. Odeberg, L.M. Butler. “A systems-approach reveals human nestin is an endothelial-enriched, angiogenesis-independent intermediate filament protein.” Sci Rep. 2018, Oct 2; 8(1):14668.
L.D. Orozco, C. Farrell, C. Hale, L. Rubbi, A. Rinaldi, M. Civelek, C. Pan, L. Lam, D. Montaya, C. Edillor, M. Seldin, M. Boehnke, K.L. Mohlke, S. Jacobsen, J. Kuusisto, M. Laakso, A.J. Lusis, M. Pellegrini. “Epigenome-wide association in adipose tissue from the METSIM cohort.” Hum Mol Genet. 2018, May 15; 27(10): 1830-1846.
M.M. Seldin, S. Koplev, P. Rajbhandari, L. Vergnes, G.M. Rosenberg, Y. Meng, C. Pan, T.M.N. Phuong, R. Gharakhanian, N. Che, S. Mäkinen, D.M. Shih, M. Civelek, B.W. Parks, E.D. Kim, F. Norheim, K. Chella Krishnan, Y. Hasin-Brumshtein, M. Mehrabian, M. Laakso, C.A. Drevon, H.A. Koistinen, P. Tontonoz, K. Reue, R.M. Cantor, J.L.M. Björkegren, A.J. Lusis. “A Strategy for Discovery of Endocrine Interactions with Application to Whole-Body Metabolism.” Cell Metab. 2018 May 1;27(5):1138-1155
D.Z. Pan, K.M. Garske, M. Alvarez, Y.V. Bhagat, J. Boocock, E. Nikkola, Z. Miao, C.K. Raulerson, R.M. Cantor, M. Civelek, C.A. Glastonbury, K.S. Small, M. Boehnke, A.J. Lusis, J.S. Sinsheimer, K.L. Mohlke, M. Laakso, P. Pajukanta, A. Ko. “Integration of human adipocyte chromosomal interactions with adipose gene expression prioritizes obesity-related genes from GWAS.” Nat Commun. 2018 Apr 17;9(1):1512
K.S. Small*, M. Todorčević*, M. Civelek*, J.S.E. Moustafa*, X. Wang*, M.M. Simon, J. Fernandez-Tajes, A. Mahajan, M. Horikoshi, A. Hugill, C.A. Glastonbury, L. Quaye, M.J. Neville, S. Sethi, M. Yon, C. Pan, N. Che, A. Viñuela, P. Tsai, A. Nag, A. Buil, G. Thorleifsson, A. Raghavan, Q. Ding, A.P. Morris, J.T. Bell, U. Thorsteinsdottir, K. Stefansson, M. Laakso, I. Dahlman, P. Arner, A.L. Gloyn, K. Musunuru, A.J. Lusis, R.D. Cox, F. Karpe, M.I. McCarthy “Regulatory variants at KLF14 influence type 2 diabetes risk via a female-specific effect on adipocyte size and body composition.” Nat Genet. 2018 Apr;50(4):572-580. *Equal contribution
Z. Wang, M. Civelek, C.L. Miller, N.C. Sheffield, M.J. Guertin, C. Zang. “BART: a transcription factor prediction tool with query gene sets or epigenomic profiles.” Bioinformatics. 2018 Mar 28.
MEGASTROKE Consortium. “Multiancestry genome-wide association study of 520,000 subjects identifies 32 loci associated with stroke and stroke subtypes.” Nat Genet. 2018 Apr;50(4):524-537.
T. Sallam, M. Jones, B.J. Thomas, X. Wu, T. Gilliland, K. Qian, A. Eskin, D. Casero, Z. Zhang, J. Sandhu, D. Salisbury, P. Rajbhandari, M. Civelek, C. Hong, A. Ito, X. Liu, B. Daniel, A.J. Lusis, J. Whitelegge, L. Nagy, A. Castrillo, S. Smale, P. Tontonoz. “Transcriptional regulation of macrophage cholesterol efflux and atherogenesis by a long noncoding RNA.” Nat Med. 2018 Mar;24(3):304-312.
2017
M. Civelek. “A smoking-associated miRNA-mRNA co-expression network.” Circ Cardiovasc Genet. 2017;10(5). pii: e001914
Y. Liu, N.M. Walavalkar, M.G. Dozmorov, S.S. Rich, M. Civelek, M.J. Guertin. “Identification of breast cancer associated variants that modulate transcription factor binding.” PLoS Genet. 2017;13(9):e1006761
M.E. Cannon, Q. Duan, Y. Wu, M. Zeynalzadeh, Z. Xu, A.J. Kangas, P. Soininen, M. Ala-Korpela, M. Civelek, A.J. Lusis, J. Kuusisto, F.S. Collins, M. Boehnke, H. Tang, M. Laakso, Y. Li, K.L. Mohlke. “Trans-ancestry Fine Mapping and Molecular Assays Identify Regulatory Variants at the ANGPTL8 HDL-C GWAS Locus.” G3 (Bethesda). 2017; 7(9):3217-3227
R.C. Schugar, D.M. Shih, M. Warrier, R.N. Helsley, A. Burrows, D. Ferguson, A.L. Brown, A.D. Gromovsky, M. Heine, A. Chatterjee, L. Li, X.S. Li, Z. Wang, B. Willard, Y. Meng, H. Kim, N. Che, C. Pan, R.G. Lee, R.M. Crooke, M.J. Graham, R.E. Morton, C.D. Langefeld, S.K. Das, L.L. Rudel, N. Zein, A.J. McCullough, S. Dasarathy, W.H.W. Tang, B.O. Erokwu, C.A. Flask, M. Laakso, M. Civelek, S.V. Naga Prasad, J. Heeren, A.J. Lusis, S.L. Hazen, J.M. Brown. “The TMAO-Producing Enzyme Flavin-Containing Monooxygenase 3 Regulates Obesity and the Beiging of White Adipose Tissue.” Cell Rep. 2017; 19(12):2451-2461
D. Wu, R.T. Huang, R.B. Hamanaka, M. Krause, M.J. Oh, C.H. Kuo, R. Nigdelioglu, A.Y. Meliton, L. Witt, G. Dai, M Civelek, N.R. Prabhakar, Y. Fang, G.M. Mutlu. “HIF-1α is required for disturbed flow-induced metabolic reprogramming in human and porcine vascular endothelium.” eLife. 2017;6:e25217
T. Kessler, J. Wobst, B. Wolf, J. Eckhold, B. Vilne, R. Hollstein, S. von Ameln, T.A. Dang, H.B. Sager, P. M Rumpf, R. Aherrahrou, A. Kastrati, J.L.M. Björkegren, J. Erdmann, A.J. Lusis, M. Civelek, F.J. Kaiser, H. Schunkert. “Functional Characterization of the GUCY1A3 Coronary Artery Disease Risk Locus.” Circulation. 2017;136(5):476-489
M. Civelek*, Y. Wu*, C. Pan, C.K. Raulerson, A. Ko, A. He, C. Tilford, N.K. Saleem, A. Stancakova, L.J. Scott, C. Fuchsberger, H.M. Stringham, A.U. Jackson, N. Narisu, P.S. Chines, K.S. Small, J. Kuusisto, B.W. Parks, P. Pajukanta, T. Kirchgessner, F.S. Collins, P.S. Gargalovic, M. Boehnke, M. Laakso, K.L. Mohlke, A.J. Lusis. “Genetic regulation of adipose gene expression and cardio-metabolic traits.” Am J. Hum. Genet. 2017; 100(3): 428-43 *Equal contribution
C.D. Rau, M. Civelek, C. Pan, A. J. Lusis. “A Suite of Tools for Biologists That Improve Accessibility and Visualization of Large Systems Genetics Datasets: Applications to the Hybrid Mouse Diversity Panel.” Methods Mol Biol. 2017; 1488:153-188
2016
J. Dennis, V. Truong, D. Aïssi, A. Medina-Rivera, S. Blankenberg, M. Germain, M. Lemire, L. Antounians, M. Civelek, R. Schnabel, P. Wells, M.D. Wilson, P.E. Morange, D.A. Trégouët, F. Gagnon. “Single nucleotide polymorphisms in an intergenic chromosome 2q region associated with tissue factor pathway inhibitor plasma levels and venous thromboembolism.” J. Thromb Haemos. 2016; 14(10):1960-1970.
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V. Codoni, Y. Blum, M. Civelek, C. Proust, O. Franzén, J. L. Björkegren, W. Le Goff, F. Cambien, A. J. Lusis, D. A. Trégouët. “Preservation Analysis of Macrophage Gene Co-expression Between Human and Mouse Identifies PARK2 as a Genetically controlled Master Regulator of Oxydative Phosphorylation in Humans.” G3 (Bethesda). 2016; 6(10):3361-3371.
Y. Kojima, J. P. Volkmer, K. McKenna, M. Civelek, A. J. Lusis, C. L. Miller, D. Direnzo, V. Nanda, J. Ye, A. J. Connolly, E. E. Schadt, T. Quertermous, P. Betancur, L. Maegdefessel, L. P. Matic, U. Hedin, I. L. Weissman, N. J. Leeper. “CD-47 blocking antibodies restore restore phagocytosis and prevent atherosclerosis.” Nature. 2016; 536(7614):86-90.
H. A. Talukdar, H. Foroughi Asl, R. K. Jain, R. Ermel, A. Ruusalepp, O. Franzén, B. A. Kidd, B. Readhead, C. Giannarelli, J. C. Kovacic, T. Ivert, J. T. Dudley, M. Civelek, A. J. Lusis, E. E. Schadt, J. Skogsberg, T. Michoel, J. L. Björkegren. “Cross-tissue gene regulatory networks in coronary artery disease.” Cell Syst. 2016; 2(3):196-208.
A. J. Lusis, M. M. Seldin, H. Allayee, B. J. Bennett, M. Civelek, R. C. Davis, E. Eskin, C. R. Farber, S. Hui, M. Mehrabian, F. Norheim, C. Pan, B. Parks, C. D. Rau, D. J. Smith, T. Vallim, Y. Wang, J. Wang. “The Hybrid Mouse Diversity Panel: a resource for systems genetics analyses of metabolic and cardiovascular traits.” J. Lipid Res. 2016; 57(6):925-42
A. Gusev, A. Ko, H. Shi, G. Bhatia, W. Chung, B. W. Penninx, R. Jansen, E.J. de Geus, D. I. Boomsma, F. A. Wright, P. F. Sullivan, E. Nikkola, M. Alvarez, M. Civelek, A. J. Lusis, T. Lehtimäki, E. Raitoharju, M. Kähönen, I. Seppälä, O. T. Raitakari, J. Kuusisto, M. Laakso, A. L. Price, P. Pajukanta, B. Pasaniuc. “Integrative approaches for large scale transcriptome-wide association studies.” Nat. Genet. 2016; 48(3):245-52
2015
B. J. Bennett, R. Davis, M. Civelek, L. Orozco, J. Wu, H. Qi, C. Pan, R. Packard, E. Eskin, T. Kirchgessner, S. Hazen, P. Gargalovic, A. J. Lusis. “Genetic architecture of atherosclerosis: a systems genetics analysis of common inbred strains of mice.” PLoS Genet. 2015; 11(12):e105711
T. S. Roman, A. F. Marvelle, M. P. Fogarty, S. Vadlamudi, A. J. Gonzalez, M. L. Buchkovich, J. R. Huyghe, C. Fuchsberger, A. U. Jackson, Y. Wu, M. Civelek, A. J. Lusis, K. J. Gaulton, P. Sethupathy, A. J. Kangas, P. Soininen, M. Ala-Korpela, J. Kuusisto, F. S. Collins, M. Laakso, M. Boehnke, K. L. Mohlke. “Multiple hepatic regulatory variants at the GALNT2 GWAS locus associated with high-density lipoprotein cholesterol.” Am. J. Hum. Genet. 2015; 97(6):801-15
A. Briot, M. Civelek, A. Seki, K. Hoi, H. Yu, G. A. Fishbein, L. Vakili, M. Fishbein, A. J. Lusis, M. Navab, J. A. Berliner, M. L. Iruela-Arispe. “Endothelial NOTCH1 is repressed by circulating lipids and antagonizes inflammation during atherosclerosis.” J. Exp. Med. 2015; 212(12):2147-63
I. Brænne*, M. Civelek*, B. Vilne*, A. Di Narzo, A. D. Johnson, Y. Zhao, B. Reiz, V. Codoni, T. R. Webb, H. Foroughi-Asl, S. E. Hamby, L. Zeng, D. A. Trégouët, K. Hao, E. J. Topol, E. E. Schadt, X. Yang, N. J. Samani, J. L. Björkegren, J. Erdmann, H. Schunkert, A. J. Lusis. “Prediction of causal candidate genes in coronary artery disease loci.” Arterioscler. Thromb. Vasc. Biol. 2015; 35(10):2207-17 *Equal contribution
R. E. Soccio, E. R. Chen, S. R. Rajapurkar, P. Safabakhsh, J. M. Marinis, J. R. Dispirito, M. J. Emmett, E. R. Briggs, B. Fang, L. J. Everett, H. W. Lim, K. J. Won, D. J. Steger, Y. Wu, M. Civelek, B. F. Voight, M. A. Lazar. “Genetic variation determines PPARγ function and anti-diabetic drug response in vivo.” Cell. 2015; 162(1):33-44
Y. Wu, R. T. Huang, C. H. Kuo, S. Kumar, C. W. Kim, Y. C. Lin, Y. J. Chen, A. Birukova, K. G. Birukov, N. O. Dulin, M. Civelek, A. J. Lusis, X. Loyer, A. Tedgui, G. Dai, H. Jo, Y. Fang. “Mechanosensitive PPAP2B regulates endothelial responses to atherorelevant hemodynamic forces” Circ. Res. 2015; 117(4):e41-53
R. D. Kenagy*, M. Civelek*, S. Kikuchi, L. Chen, M. Sobel, A. J. Lusis, A. W. Clowes. “SCARA5 and Suprabasin are hub genes of co-expression network modules associated with peripheral vein graft patency.” J. Vasc. Surg. 2015; *Equal contribution
M. Germain, D. I. Chasman, H. deHaan, W. Tang, S. Lindström, L. Weng, M. de Andrade, M. de Visser, K. L. Wiggins, P. Suchon, N. Saut, D. Smadja, G. Legal, A. Di Narzo, K. Hao, C. P. Nelson, A. Rocanin-Arjo, L. Folkersen, R. Monajemi, L. M. Rose, J. A. Brody, E. Slagboom, D. Aissi, F. Gagnon, J. F. Deleuze, P. Deloukas, C. Tzourio, J. Dartigues, C. Berr, K. D. Taylor, M. Civelek, P. Eriksson, Cardiogenics Consortium, B. M. Psaty, J. Houwing-Duitermaat, A. H. Goodall, F. Cambien, N. J. Samani, P. Kraft, P. Amouyel, S. Basu, P. M. Ridker, F. R. Rosendaal, C. Kabrhel, A. R. Folsom, J. Heit, P. Reitsma, D. Trégouët, N. L. Smith, P. Morange. “Meta-analysis of 65,734 individuals identifies two new susceptibility loci for venous thrombosis” Am J Human Genet.2015; 96(4):532-42.
J. H. Bahn, J. Ahn, X. Lin, J. H. Lee, Q. Zhang, M. Civelek and X. Xiao. “ADAR1 binds to non-Alu regions and regulates multiple RNA processing pathways.” Nat. Commun. 2015; 6:6355.
M. Germain, M. G. Pezzolesi, N. Sandholm, A. J. McKnight, K. Susztak, M. Lajer, C. Forsblom, M. Marre, H. H. Parving, P. Rossing, I. Toppila, J. Skupien, R. Roussel, Y. Ko, N. Ledo, L. Folkerssen, M. Civelek, P. A. Maxwell, D. A. Tregouet, P. H. Groop, L. Tarnow and S. Hadjadj. “SORBS1 gene, a new candidate for diabetic nephropathy: results from a multi-stage genome wide association study in patients with Type 1 diabetes.” Diabetologia. 2015; 58(3): 543-48
M. C. Romay, N. Che, S. Becker, D. Pouldar, R. Hagopian, X. Xiao, A. J. Lusis, J. B. Berliner and M. Civelek. “Regulation of NF-κB signaling by oxidized glycerophospholipid and IL-1β induced miRs-21-3p and -27a-5p in human aortic endothelial cells.” J. Lipid Res. 2015; 56(1):38-50.
2014
M. Civelek and A. J. Lusis. “From hairballs to an understanding of transendothelial migration of monocytes in atherosclerosis.” Arterioscler. Thromb. Vasc. Biol. 2014; 34:1809-1810.
V-P. Mäkinen, M. Civelek, Q-Y. Meng, B. Zhang, J. Zhu, C. Levian, S. Ghosh, J. Vivar, M. Nikpay, A. F. R. Stewart, C. P. Nelson, C. Willenborg, A. Segre, J. Erdmann, S. Blakenberg, C. O’Donnell, U. Thorsteinsdóttir, W. März, R. Laaksonen, S. E. Epstein, S. Kathiresan, S. H. Shah, S. L. Hazen, M. P. Reilly, CARDIoGRAM consortium, A. J. Lusis, N. J. Samani, H. Schunkert, T. Quertermous, R. McPherson, X. Yang and T. Assimes. “Integrative genomics reveals novel molecular pathways and gene networks for coronary artery disease.” PloS Genet. 2014; 10(7): e1004502.
I. Iatan, H. Choi, I. Ruel, M. V. Reddy, H. Kil, J. Lee, M. A. Odeh, Z. Salah, M. Abu-Remaileh, D. Weissglas-Volkov, E. Nikkola, M. Civelek, Z. Awan, C. Croce, R. Aqeilan, P. Pajukanta, M. Aldaz and J. Genest. “The WWOX Gene Modulates HDL and Lipid Metabolism.” Circ. Cardiovasc. Genet. 2014; 7(4):491-504.
M. Civelek and A. J. Lusis. “Systems genetics approaches to study complex traits.” Nat Rev Gen. 2014; 15(1):34-48.
2013
A. Erbilgin*, M. Civelek*, C. E. Romanoski, C. Pan, R. Hagopian, J. A. Berliner and A. J. Lusis. “Identification of CAD candidate genes in GWAS loci and their expression in vascular cells.” J. Lipid Res. 2013; 54(7):1894-905. *Equal contribution.
P. F. Davies, M. Civelek, Y. Fang and I. Fleming. “The atherosusceptible endothelium: endothelial phenotypes in complex haemodynamic shear stress regions in vivo.” Cardiovasc. Res. 2013; 99(2):315-27.
M. Civelek, R. Hagopian, C. Pan, N. Che, W. P. Yang, P. S. Kayne, N. K. Saleem, H. Cederberg, J. Kuusisto, P. S. Gargalovic, T. G. Kirchgessner, M. Laakso and A. J. Lusis. “Genetic regulation of human adipose microRNA expression and its consequences for metabolic traits.” Hum. Mol. Genet. 2013; 22(15):3023-37.
Y. Mahendran, J. Vangipurapu, H. Cederberg, A. Stancáková, J. Pihlajamäki, P. Soininen, A. J. Kangas, J. Paananen, M. Civelek, N. K. Saleem, P. Pajukanta, A. J. Lusis, L. L. Bonnycastle, M. A. Morken, F. S. Collins, K. L. Mohlke, M. Boehnke, M. Ala-Korpela, J. Kuusisto and M. Laakso. “Association of ketone body levels with hyperglycemia and type 2 diabetes in 9,398 Finnish men.” Diabetes. 2013; 62(10):3618-26.
T. Q. de Aguiar Vallim, E. J. Tarling, T. Kim, M. Civelek, A. Baldán, C. Esau and P. A. Edwards. “MicroRNA-144 regulates hepatic ATP binding cassette transporter A1 and plasma high-density lipoprotein after activation of the nuclear receptor farnesoid X receptor.” Circ. Res. 2013; 112(12):1602-12.
B. W. Parks, E. Nam, E. Org, E. Kostem, F. Norheim, S. T. Hui, C. Pan, M. Civelek, C. D. Rau, B. J. Bennett, M. Mehrabian, L. K. Ursell, A. He, L. W. Castellani, B. Zinker, M. Kirby, T. A. Drake, C. A. Drevon, R. Knight, P. Gargalovic, T. G. Kirchgessner, E. Eskin and A. J. Lusis. “Genetic control of obesity and gut microbiota composition in response to high-fat, high-sucrose diet in mice.” Cell Metab. 2013; 17(1):141-52.
2012
B. E. Haas, S. Horvath, K. H. Pietiläinen, R. M. Cantor, E. Nikkola, D. Weissglas-Volkov, A. Rissanen, M. Civelek, I. Cruz-Bautista, L. Riba, J. Kuusisto, J. Kaprio, T. Tusie-Luna, M. Laakso, C. A. Aguilar-Salinas and P. Pajukanta. “Adipose co-expression networks across Finns and Mexicans identify novel triglyceride-associated genes.” BMC Med. Genomics. 2012; 5:61.
J. B. Kim, A. Deluna, I. N. Mungrue, C. Vu, D. Pouldar, M. Civelek, L. Orozco, J. Wu, X. Wang, S. Charugundla, L. W. Castellani, M. Rusek, H. Jakubowski and A. J. Lusis. “Effect of 9p21.3 coronary artery disease locus neighboring genes on atherosclerosis in mice.” Circulation. 2012; 126(15):1896-906.
A. Ghazalpour, C. D. Rau, C. R. Farber, B. J. Bennett, L. D. Orozco, A. van Nas, C. Pan, H. Allayee, S. W. Beaven, M. Civelek, R. C. Davis, T. A. Drake, R. A. Friedman, N. Furlotte, S. T. Hui, J. D. Jentsch, E. Kostem, H. M. Kang, E. Y. Kang, J. W. Joo, V. A. Korshunov, R. E. Laughlin, L. J. Martin, J. D. Ohmen, B. W. Parks, M. Pellegrini, K. Reue, D. J. Smith, S. Tetradis, J. Wang, Y. Wang, J. N. Weiss, T. Kirchgessner, P. S. Gargalovic, E. Eskin, A. J. Lusis and R. C. LeBoeuf. “Hybrid mouse diversity panel: a panel of inbred mouse strains suitable for analysis of complex genetic traits.” Mamm. Genome. 2012; 23(9-10):680-92.
A. Stancáková, M. Civelek, N. K. Saleem, P. Soininen, A. J. Kangas, H. Cederberg, J. Paananen, J. Pihlajamäki, L. L. Bonnycastle, M. A. Morken, M. Boehnke, P. Pajukanta, A. J. Lusis, F. S. Collins, J. Kuusisto, M. Ala-Korpela and M. Laakso. “Hyperglycemia and a common variant of GCKR are associated with the levels of eight amino acids in 9,369 Finnish men.” Diabetes. 2012; 61(7):1895-902.
2011
C. E. Romanoski, N. Che, F. Yin, N. Mai, D. Pouldar, M. Civelek, C. Pan, S. Lee, L. Vakili, W. P. Yang, P. Kayne, I. N. Mungrue, J. A. Araujo, J. A. Berliner and A. J. Lusis. “Network for activation of human endothelial cells by oxidized phospholipids: a critical role of heme oxygenase 1.” Circ Res. 2011; 109(5):e27-41.
M. Civelek and A. J. Lusis. “Conducting the metabolic syndrome orchestra.” Nat. Genet. 2011; 43(6):506-8.
M. Civelek, E. Manduchi, R. J. Riley, C. J. Stoeckert Jr and P. F. Davies. “Coronary artery endothelial transcriptome in vivo: identification of endoplasmic reticulum stress and enhanced reactive oxygen species by gene connectivity network analysis.” Circ. Cardiovasc. Genet. 2011; 4(3):243-52.
M. Civelek, E. Manduchi, G. R. Grant, C. J. Stoeckert Jr and P. F. Davies. “Discovery approaches to UPR in athero-susceptible endothelium in vivo.” Methods Enzymol. 2011; 489:109-26.
P. F. Davies and M. Civelek. “Endoplasmic reticulum stress, redox, and a proinflammatory environment in athero-susceptible endothelium in vivo at sites of complex hemodynamic shear stress.” Antioxid. Redox Signal. 2011; 15(5):1427-32.
2010
Y. Fang, C. Shi, E. Manduchi, M. Civelek M and P. F. Davies. “MicroRNA-10a regulation of proinflammatory phenotype in athero-susceptible endothelium in vivo and in vitro.” Proc. Natl. Acad. Sci. USA. 2010; 107(30):13450-5.
P. F. Davies, M. Civelek, Y. Fang, M. A. Guerraty and A. G. Passerini. “Endothelial heterogeneity associated with regional athero-susceptibility and adaptation to disturbed blood flow in vivo.” Semin. Thromb. Hemost. 2010; 36(3):265-75.
M. Civelek, G. R. Grant, C. R. Irolla, C. Shi, R. J. Riley, O. A. Chiesa, C. J. Stoeckert Jr, J. W. Karanian, W. F. Pritchard and P. F. Davies. “Prelesional arterial endothelial phenotypes in hypercholesterolemia: universal ABCA1 upregulation contrasts with region-specific gene expression in vivo.” Am. J. Physiol. Heart Circ. Physiol. 2010; 298(1):H163-70.
2009
M. Civelek, E. Manduchi, R. J. Riley, C. J. Stoeckert Jr and P. F. Davies. “Chronic endoplasmic reticulum stress activates unfolded protein response in arterial endothelium in regions of susceptibility to atherosclerosis.” Circ. Res. 2009; 105(5):453-61.
2003
J. M. Tarbell, M. Civelek and J. S. Garanich. “Fluid Shear Stress Control of Vascular Smooth Muscle Cell.” Chapter in Molecular Basis for Microcirculatory Disorders. Editors: G. W. Schmid-Schönbein and D. N. Granger, Springer, 2003.
2002
M. Civelek, K. Ainslie, J. S. Garanich and J. M. Tarbell. “Smooth muscle cells contract in response to fluid flow via a Ca2+-independent signaling mechanism.” J. Appl. Physiol. 2002; 93(6):1907-17.
R. Sharma, C. E. Yellowley, M. Civelek, K. Ainslie, L. Hodgson, J. M. Tarbell and H. J. Donahue. “Intracellular changes in rat aortic smooth muscle cells in response to fluid flow.” Ann. Biomed. Eng. 2002; 30(3):371-8.
