Safabakhsh S, Ma WF, Miller CL, Laksman Z.
Cardiovascular utility of single cell RNA-Seq. Curr Opin Cardiol. 2022 Dec 23.

Mokry M, Boltjes A, Cui K, Slenders L, Mekke JM, Marie AC, Timmerman NM, Waissi F, Verwer MC, Turner AW, Khan MD, Hodonsky CJ, Benavente ED, Hartman RJG, van den Dungen NAM, Lansu N, Nagyova E, Prange KHM, Pavlos E, Andreakos E, Schunkert H, Owens GK, Monaco C, Finn AV, Virmani R, Leeper NJ, de Winther MPJ, Kuiper J, de Borst GJ, Stroes ESG, Civelek M, de Kleijn DPV, den Ruijter HM, Asselbergs FW, van der Laan SW, Miller CL, Pasterkamp G. Transcriptomic-based clustering of human atherosclerotic plaques identifies subgroups with different underlying biology and clinical presentation. Nat Cardiovasc Res 2022 1, 1140–1155.

Mosquera JV, Wong D, Auguste G, Turner AW, Hodonsky CJ, Lino Cardenas CL, Theofilatos K, Bos M, Kavousi M, Peyser P, Mayr M, Kovacic JC, Bjorkegren JLM, Malhotra R, van der Laan SW, Zang C, Sheffield NC, Miller CL. Integrative single-cell meta-analysis reveals disease-relevant vascular cell states and markers in human atherosclerosis. bioRxiv 2022.10.24.513520.

Song Y, Cisternino F, Mekke JM, de Borst G, de Kleijn DPV, Pasterkamp G, Vink A, Glastonbury CA, van der Laan SW, Miller CL. An automatic entropy method to mask histology whole-slide images. medRxiv 2022.09.01.22279487.

Ma WF, Turner AW, Gancayco C, Wong D, Song Y, Mosquera JV, Auguste G, Hodonsky CJ, Prabhakar A, Ekiz HA, van der Laan SW, Miller CL. PlaqView 2.0: A comprehensive web portal for cardiovascular single-cell genomics. Front Cardiovasc Med. 2022 Aug 8;9:969421.

Wang Y, Gao H, Wang F, Ye Z, Mokry M, Turner AW, Ye J, Koplev S, Luo L, Alsaigh T, Adkar SS, Elishaev M, Gao X, Maegdefessel L, Björkegren JLM, Pasterkamp G, Miller CL, Ross EG, Leeper NJ. Dynamic changes in chromatin accessibility are associated with the atherogenic transitioning of vascular smooth muscle cells. Cardiovasc Res. 2022 Oct 21;118(13):2792-2804.

Wong D, Auguste G, Lino Cardenas CL, Turner AW, Chen Y, Ma L, Perry RN, Aherrahrou R, Kuppusamy M, Yang C, Mosquera JV, Dube CJ, Khan MD, Palmore M, 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. bioRxiv 2022.07.23.501247.

Ma L, Bryce NS, Turner AW, Di Narzo AF, Rahman K, Xu Y, Ermel R, Sukhavasi K, d’Escamard V, Chandel N, V’Gangula B, Wolhuter K, Kadian-Dodov D, Franzen O, Ruusalepp A, Hao K, Miller CL, Björkegren JLM, Kovacic JC. The HDAC9-associated risk locus promotes coronary artery disease by governing TWIST1. PLoS Genet. 2022 Jun 17;18(6):e1010261.

Zheng J, Wheeler E, Pietzner M, Andlauer T, Yau M, Hartley A, Brumpton BM, Rasheed H, Kemp JP, Frysz M, Robinson J, Reppe S, Prijatel V, Gautvik KM, Falk L, Maerz W, Gergei I, Peyser PA, Kavousi M, de Vries PS, Miller CL, Bos MM, van der Laan SW, Malhotra R, Herrmann M, Scharnagl H, Kleber M, Dedoussis G, Zeggini E, Nethander M, Ohlsson C, Lorentzon M, Wareham N, Langenberg C, Holmes MV, Davey Smith G, Tobias JH. Lowering of circulating sclerostin may increase risk of atherosclerosis and its risk factors: evidence from a genome-wide association meta-analysis followed by Mendelian randomization. medRxiv 2022.06.13.22275915.

Turner AW, Hu SS, Mosquera JV, Ma WF, Hodonsky CJ, Wong D, Auguste G, Song Y, Sol-Church K, Farber E, Kundu S, Kundaje A, Lopez NG, Ma L, Ghosh SKB, Onengut-Gumuscu S, Ashley EA, Quertermous T, Finn AV, Leeper NJ, Kovacic JC, Björkgren JLM, Zang C, Miller CL. Single-nucleus chromatin accessibility profiling highlights regulatory mechanisms of coronary artery disease risk. Nat Genet. 2022 Jun;54(6):804-816.

Lino Cardenas CL, Jiang W, Cherbonneau F, Shahrooz Z, Nicholson C, Chou E, Li R, Boerboom S, Ostrom K, Ichinose F, Bloch D, Nigwekar S, Ellinor P, Musolino P, Lindsay ME, Miller CL, Malhotra R. Novel treatment of small and large artery calcific disease via epigenetic activation of autophagy initiation genes. Research Square. 2022.05.03.

Kavousi M, Bos MM, Barnes HJ, Lino Cardenas CL, Wong D, Hodonsky CJ, Turner AW, CHARGE Subclinical and Clinical Atherosclerosis Working Groups, O’Donnell CJ, Bielak LF, Peyser PA, Malhotra R, van der Laan SW, Miller CL. Multi-ancestry genome-wide analysis identifies effector genes and druggable pathways for coronary artery calcification. medRxiv 2022.05.02.22273844.

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.

Hao K, Ermel R, Sukhavasi K, Cheng H, Ma L, Li L, Amadori L, Koplev S, Franzén O, d’Escamard V, Chandel N, Wolhuter K, Bryce NS, Venkata VRM, Miller CL, Ruusalepp A, Schunkert H, Björkegren JLM, Kovacic JC. Integrative Prioritization of Causal Genes for Coronary Artery Disease. Circ Genom Precis Med. 2022 Feb;15(1):e003365.

Ma WF, Hodonsky CJ, Turner AW, Wong D, Song Y, Mosquera JV, Ligay AV, Slenders L, Gancayco C, Pan H, Barrientos NB, Mai D, Alencar GF, Owsiany K, Owens GK, Reilly MP, Li M, Pasterkamp G, Mokry M, van der Laan SW, Khomtchouk BB, Miller CL. Enhanced single-cell RNA-seq workflow reveals coronary artery disease cellular cross-talk and candidate drug targets. Atherosclerosis. 2022 Jan;340:12-22.