MGH Center for Systems Biology :: Laboratories :: Base

McCullar KS, Abbaspour S, Wang W, Aguirre AD, Westover MB, Klerman EB

Timing of diuretic administration effects on urine volume in hospitalized patients.

Front Physiol. 2024;14:1208324 - PMID: 38321985 - PMCID: PMC10844419 - DOI: 10.3389/fphys.2023.1208324

Chandrasekhar A, Padrós-Valls R, Pallarès-López R, Palanques-Tost E, Houstis N, Sundt TM, Lee HS, Sodini CG, Aguirre AD

Tissue perfusion pressure enables continuous hemodynamic evaluation and risk prediction in the intensive care unit.

Nat Med. 2023;29(8):1998-2006 - PMID: 37550417 - DOI: 10.1038/s41591-023-02474-6

Hwang WL, Su J, Shiau C, Wang PL, Guo JA, Lester NA, Barth JL, Hoffman HI, Aguirre A, Hong TS, Wo JY, Ting D, Zheng L, Mino-Kenudson M, Jacks T

Molecular Mechanisms of Intratumoral Nerve Recruitment and Perineural Invasion Elucidated with Spatial Transcriptomics and CRISPR Activation.

Int J Radiat Oncol Biol Phys. 2023;117(2S):S21 - PMID: 37784453 - DOI: 10.1016/j.ijrobp.2023.06.244

Alam R, Aguirre AD, Stultz CM

QTNet: Deep Learning for Estimating QT Intervals Using a Single Lead ECG.

Annu Int Conf IEEE Eng Med Biol Soc. 2023;2023:1-4 - PMID: 38261472 - DOI: 10.1109/EMBC40787.2023.10341204

Hwang WL, Jagadeesh KA, Guo JA, Hoffman HI, Yadollahpour P, Reeves JW, Mohan R, Drokhlyansky E, Van Wittenberghe N, Ashenberg O, Farhi SL, Schapiro D, Divakar P, Miller E, Zollinger DR, Eng G, Schenkel JM, Su J, Shiau C, Yu P, Freed-Pastor WA, Abbondanza D, Mehta A, Gould J, Lambden C, Porter CBM, Tsankov A, Dionne D, Waldman J, Cuoco MS, Nguyen L, Delorey T, Phillips D, Barth JL, Kem M, Rodrigues C, Ciprani D, Roldan J, Zelga P, Jorgji V, Chen JH, Ely Z, Zhao D, Fuhrman K, Fropf R, Beechem JM, Loeffler JS, Ryan DP, Weekes CD, Ferrone CR, Qadan M, Aryee MJ, Jain RK, Neuberg DS, Wo JY, Hong TS, Xavier R, Aguirre AJ, Rozenblatt-Rosen O, Mino-Kenudson M, Castillo CF, Liss AS, Ting DT, Jacks T, Regev A

Single-nucleus and spatial transcriptome profiling of pancreatic cancer identifies multicellular dynamics associated with neoadjuvant treatment.

Nat Genet. 2022;54(8):1178-1191 - PMID: 35902743 - PMCID: PMC10290535 - DOI: 10.1038/s41588-022-01134-8 - Cover

Foy BH, Sundt TM, Carlson JCT, Aguirre AD, Higgins JM

Human acute inflammatory recovery is defined by co-regulatory dynamics of white blood cell and platelet populations.

Nat Commun. 2022;13(1):4705 - PMID: 35995789 - PMCID: PMC9395541 - DOI: 10.1038/s41467-022-32222-2

Araki M, Park SJ, Dauerman HL, Uemura S, Kim JS, Di Mario C, Johnson TW, Guagliumi G, Kastrati A, Joner M, Holm NR, Alfonso F, Wijns W, Adriaenssens T, Nef H, Rioufol G, Amabile N, Souteyrand G, Meneveau N, Gerbaud E, Opolski MP, Gonzalo N, Tearney GJ, Bouma B, Aguirre AD, Mintz GS, Stone GW, Bourantas CV, Räber L, Gili S, Mizuno K, Kimura S, Shinke T, Hong MK, Jang Y, Cho JM, Yan BP, Porto I, Niccoli G, Montone RA, Thondapu V, Papafaklis MI, Michalis LK, Reynolds H, Saw J, Libby P, Weisz G, Iannaccone M, Gori T, Toutouzas K, Yonetsu T, Minami Y, Takano M, Raffel OC, Kurihara O, Soeda T, Sugiyama T, Kim HO, Lee T, Higuma T, Nakajima A, Yamamoto E, Bryniarski KL, Di Vito L, Vergallo R, Fracassi F, Russo M, Seegers LM, McNulty I, Park S, Feldman M, Escaned J, Prati F, Arbustini E, Pinto FJ, Waksman R, Garcia-Garcia HM, Maehara A, Ali Z, Finn AV, Virmani R, Kini AS, Daemen J, Kume T, Hibi K, Tanaka A, Akasaka T, Kubo T, Yasuda S, Croce K, Granada JF, Lerman A, Prasad A, Regar E, Saito Y, Sankardas MA, Subban V, Weissman NJ, Chen Y, Yu B, Nicholls SJ, Barlis P, West NEJ, Arbab-Zadeh A, Ye JC, Dijkstra J, Lee H, Narula J, Crea F, Nakamura S, Kakuta T, Fujimoto J, Fuster V, Jang IK

Optical coherence tomography in coronary atherosclerosis assessment and intervention.

Nat Rev Cardiol. 2022;19(10):684-703 - PMID: 35449407 - PMCID: PMC9982688 - DOI: 10.1038/s41569-022-00687-9

Diamant N, Reinertsen E, Song S, Aguirre AD, Stultz CM, Batra P

Patient contrastive learning: A performant, expressive, and practical approach to electrocardiogram modeling.

PLoS Comput Biol. 2022;18(2):e1009862 - PMID: 35157695 - PMCID: PMC8880931 - DOI: 10.1371/journal.pcbi.1009862

Raghu VK, Moonsamy P, Sundt TM, Ong CS, Singh S, Cheng A, Hou M, Denning L, Gleason TG, Aguirre AD, Lu MT

Deep learning to predict mortality after cardiothoracic surgery using preoperative chest radiographs.

Ann Thorac Surg. 2022;115(1):257-264 - PMID: 35609650 - PMCID: PMC11373441 - DOI: 10.1016/j.athoracsur.2022.04.056

Aguirre AD, Shelton KT

Remote monitoring in the use of extracorporeal membrane oxygenation and acute mechanical circulatory support.

Curr Opin Crit Care. 2022;28(3):308-314 - PMID: 35653252 - DOI: 10.1097/MCC.0000000000000949

Wissmeyer G, Kassab MB, Kawamura Y, Aguirre AD, Jaffer FA

Intravital Microscopy in Atherosclerosis Research.

Methods Mol Biol. 2022;2419:645-658 - PMID: 35237994 - PMCID: PMC9052099 - DOI: 10.1007/978-1-0716-1924-7_40

Grune J, Lewis AJM, Yamazoe M, Hulsmans M, Rohde D, Xiao L, Zhang S, Ott C, Calcagno DM, Zhou Y, Timm K, Shanmuganathan M, Pulous FE, Schloss MJ, Foy BH, Capen D, Vinegoni C, Wojtkiewicz GR, Iwamoto I, Grune T, Brown D, Higgins J, Ferreira VM, Herring N, Channon KM, Neubauer S, Oxford Acute Myocardial Infarction (OxAMI) Study, Sosnovik DE, Milan DJ, Swirski FK, King KR, Aguirre AD, Ellinor PT, Nahrendorf M

Neutrophils incite and macrophages avert electrical storm after myocardial infarction

Nat Cardiovasc Res. 2022;1(7):649-664 - PMID: 36034743 - PMCID: PMC9410341 - DOI: 10.1038/s44161-022-00094-w

Aguirre AD, Arbab-Zadeh A, Soeda T, Fuster V, Jang IK

Optical Coherence Tomography of Plaque Vulnerability and Rupture: JACC Focus Seminar Part 1/3.

J Am Coll Cardiol. 2021;78(12):1257-1265 - PMID: 34531027 - PMCID: PMC9851427 - DOI: 10.1016/j.jacc.2021.06.050

Calcagno DM, Zhang C, Toomu A, Huang K, Ninh VK, Miyamoto S, Aguirre AD, Fu Z, Heller Brown J, King KR

SiglecF(HI) Marks Late-Stage Neutrophils of the Infarcted Heart: A Single-Cell Transcriptomic Analysis of Neutrophil Diversification.

J Am Heart Assoc. 2021;10(4):e019019 - PMID: 33525909 - PMCID: PMC7955351 - DOI: 10.1161/JAHA.120.019019

Ong CS, Reinertsen E, Sun H, Moonsamy P, Mohan N, Funamoto M, Kaneko T, Shekar PS, Schena S, Lawton JS, D'Alessandro DA, Westover MB, Aguirre AD, Sundt TM

Prediction of operative mortality for patients undergoing cardiac surgical procedures without established risk scores.

J Thorac Cardiovasc Surg. 2021;165(4):1449-1459.e15 - PMID: 34607725 - PMCID: PMC8918430 - DOI: 10.1016/j.jtcvs.2021.09.010

Ong CS, Reinertsen E, Moonsamy P, Young K, Song S, Axtell AL, Wolfe SB, Mohan N, Jassar AS, Aguirre AD, Sundt TM

Late onset atrial fibrillation in patients undergoing surgical aortic valve replacement.

J Card Surg. 2021;37(2):285-289 - PMID: 34699088 - DOI: 10.1111/jocs.16093

Foy BH, Sundt T, Carlson JCT, Aguirre AD, Higgins JM

White Blood Cell and Platelet Dynamics Define Human Inflammatory Recovery.

medRxiv. 2021;:ePub - PMID: 34189534 - PMCID: PMC8240689 - DOI: 10.1101/2021.06.19.21259181

Calcagno DM, Ng RP, Toomu A, Zhang C, Huang K, Aguirre AD, Weissleder R, Daniels LB, Fu Z, King KR

Type I interferon responses to ischemic injury begin in the bone marrow of mice and humans and depend on Tet2, Nrf2, and Irf3

Sci Immunol. 2020;5(51):ePub - PMID: 32978242 - PMCID: PMC7808338 - DOI: 10.1126/sciimmunol.aaz1974

Nahrendorf M, Hoyer FF, Meerwaldt AE, van Leent MMT, Senders ML, Calcagno C, Robson PM, Soultanidis G, Pérez-Medina C, Teunissen AJP, Toner YC, Ishikawa K, Fish K, Sakurai K, van Leeuwen EM, Klein ED, Sofias AM, Reiner T, Rohde D, Aguirre AD, Wojtkiewicz G, Schmidt S, Iwamoto Y, Izquierdo-Garcia D, Caravan P, Swirski FK, Weissleder R, Mulder WJM

Imaging Cardiovascular and Lung Macrophages With the Positron Emission Tomography Sensor ⁶⁴Cu-Macrin in Mice, Rabbits, and Pigs.

Circ Cardiovasc Imaging. 2020;13(10):e010586 - PMID: 33076700 - PMCID: PMC7583675 - DOI: 10.1161/CIRCIMAGING.120.010586

Foy BH, Carlson JCT, Reinertsen E, Padros I Valls R, Pallares Lopez R, Palanques-Tost E, Mow C, Westover MB, Aguirre AD, Higgins JM

Association of Red Blood Cell Distribution Width With Mortality Risk in Hospitalized Adults With SARS-CoV-2 Infection.

JAMA Netw Open. 2020;3(9):e2022058 - PMID: 32965501 - PMCID: PMC7512057 - DOI: 10.1001/jamanetworkopen.2020.22058

Foy BH, Carlson JCT, Reinertsen E, Padros Valls R, Pallares Lopez R, Palanques-Tost E, Mow C, Westover MB, Aguirre AD, Higgins JM

Elevated RDW is Associated with Increased Mortality Risk in COVID-19

medRxiv. 2020;:ePub - DOI: 10.1101/2020.05.05.20091702

Wang C, Keliher E, Zeller MWG, Wojtkiewicz GR, Aguirre AD, Buckbinder L, Kim HY, Chen J, Maresca K, Ahmed MS, Motlagh NJ, Nahrendorf M, Chen JW

An activatable PET imaging radioprobe is a dynamic reporter of myeloperoxidase activity in vivo.

Proc Natl Acad Sci U S A. 2019;116(24):11966-11971 - PMID: 31123149 - PMCID: PMC6575581 - DOI: 10.1073/pnas.1818434116

Ahmed MS, Rodell CB, Hulsmans M, Kohler RH, Aguirre A, Nahrendorf M, Weissleder R

A Supramolecular Nanocarrier for Delivery of Amiodarone Anti-Arrhythmic Therapy to the Heart.

Bioconjug Chem. 2019;30(3):733-740 - PMID: 30615425 - PMCID: PMC6483069 - DOI: 10.1021/acs.bioconjchem.8b00882

Hulsmans M, Aguirre AD, Bonner M, Bapat A, Cremer S, Iwamoto Y, King KR, Swirski FK, Milan DJ, Weissleder R, Nahrendorf M

Miniaturized, Programmable Pacemaker for Long-Term Studies in the Mouse

Circ Res. 2018;123(11):1208-1219 - PMID: 30571465 - PMCID: PMC6309285 - DOI: 10.1161/CIRCRESAHA.118.313429

Hulsmans M, Clauss S, Xiao L, Aguirre AD, King KR, Hanley A, Hucker WJ, Wülfers EM, Seemann G, Courties G, Iwamoto Y, Sun Y, Savol AJ, Sager HB, Lavine KJ, Fishbein GA, Capen DE, Da Silva N, Miquerol L, Wakimoto H, Seidman CE, Seidman JG, Sadreyev RI, Naxerova K, Mitchell RN, Brown D, Libby P, Weissleder R, Swirski FK, Kohl P, Vinegoni C, Milan DJ, Ellinor PT, Nahrendorf M

Macrophages Facilitate Electrical Conduction in the Heart

Cell. 2017;169:510-522 - PMID: 28431249 - PMCID: PMC5474950 - DOI: 10.1016/j.cell.2017.03.050

King KR, Aguirre AD, Ye YX, Sun Y, Roh JD, Ng Jr RP, Kohler RH, Arlauckas SP, Iwamoto Y, Savol A, Sadreyev RI, Kelly M, Fitzgibbons TP, Fitzgerald KA, Mitchison T, Libby P, Nahrendorf M, Weissleder R

IRF3 and type I interferons fuel a fatal response to myocardial infarction

Nature Med. 2017;23(12):1481-1487 - PMID: 29106401 - PMCID: PMC6477926 - DOI: 10.1038/nm.4428

Xing L, Higuma T, Wang Z, Aguirre AD, Mizuno K, Takano M, Dauerman HL, Park SJ, Jang Y, Kim CJ, Kim SJ, Choi SY, Itoh T, Uemura S, Lowe H, Walters DL, Barlis P, Lee S, Lerman A, Toma C, Tan JWC, Yamamoto E, Bryniarski K, Dai J, Zanchin T, Zhang S, Yu B, Lee H, Fujimoto J, Fuster V, Jang IK

Clinical Significance of Lipid-Rich Plaque Detected by Optical Coherence Tomography: A 4-Year Follow-Up Study.

J Am Coll Cardiol. 2017;69(20):2502-2513 - PMID: 28521888 - DOI: 10.1016/j.jacc.2017.03.556

Keliher EJ, Ye YX, Wojtkiewicz GR, Aguirre AD, Tricot B, Senders ML, Groenen H, Fay F, Perez-Medina C, Calcagno C, Carlucci G, Reiner T, Sun Y, Courties G, Iwamoto Y, Kim HY, Wang C, Chen JW, Swirski FK, Wey HY, Hooker J, Fayad ZA, Mulder WJ, Weissleder R, Nahrendorf M

Polyglucose nanoparticles with renal elimination and macrophage avidity facilitate PET imaging in ischaemic heart disease.

Nat Commun. 2017;8:14064 - PMID: 28091604 - PMCID: PMC5241815 - DOI: 10.1038/ncomms14064

Minami Y, Wang Z, Aguirre AD, Ong DS, Kim CJ, Uemura S, Soeda T, Lee H, Fujimoto J, Jang IK

Clinical Predictors for Lack of Favorable Vascular Response to Statin Therapy in Patients With Coronary Artery Disease: A Serial Optical Coherence Tomography Study.

J Am Heart Assoc. 2017;6(11):e006241 - PMID: 29092845 - PMCID: PMC5721742 - DOI: 10.1161/JAHA.117.006241

Yamamoto E, Xing L, Higuma T, Minami Y, Bryniarski K, Zanchin T, Wang Z, Aguirre AD, Lee H, Jang IK

Dynamic neointimal pattern after drug-eluting stent implantation defined by optical coherence tomography.

Coron Artery Dis. 2017;28(7):557-563 - PMID: 28704243 - DOI: 10.1097/MCA.0000000000000534

Vergallo R, Uemura S, Soeda T, Minami Y, Cho JM, Ong DS, Aguirre AD, Gao L, Biasucci LM, Crea F, Yu B, Lee H, Kim CJ, Jang IK

Prevalence and Predictors of Multiple Coronary Plaque Ruptures: In Vivo 3-Vessel Optical Coherence Tomography Imaging Study.

Arterioscler Thromb Vasc Biol. 2016;36(11):2229-2238 - PMID: 27634834 - DOI: 10.1161/ATVBAHA.116.307891

Minami Y, Wang Z, Aguirre AD, Lee S, Uemura S, Soeda T, Vergallo R, Raffel OC, Barlis P, Itoh T, Lee H, Fujimoto J, Jang IK

Quantitative analysis of the side-branch orifice after bifurcation stenting using en-face processing of OCT images: a comparison between Xience V and Resolute Integrity stents.

Coron Artery Dis. 2016;27(1):19-28 - PMID: 26554662 - PMCID: PMC4679565 - DOI: 10.1097/MCA.0000000000000319

Wang Z, Cho YS, Soeda T, Minami Y, Xing L, Jia H, Aguirre A, Vergallo R, Lee H, Fujimoto JG, Yu B, Jang IK

Three-dimensional morphological response of lipid-rich coronary plaques to statin therapy: a serial optical coherence tomography study.

Coron Artery Dis. 2016;27(5):350-6 - PMID: 27105047 - PMCID: PMC4912393 - DOI: 10.1097/MCA.0000000000000370

Vinegoni C, Aguirre AD, Lee S, Weissleder R

Imaging the beating heart in the mouse using intravital microscopy techniques.

Nat Protoc. 2015;10(11):1802-1819 - PMID: 26492138 - PMCID: PMC5380003 - DOI: 10.1038/nprot.2015.119

Vinegoni C, Lee S, Aguirre AD, Weissleder R

New techniques for motion-artifact-free in vivo cardiac microscopy.

Front Physiol. 2015;6:147 - PMID: 26029116 - PMCID: PMC4428079 - DOI: 10.3389/fphys.2015.00147

Aguirre AD, Vinegoni C, Sebas M, Weissleder R

Intravital imaging of cardiac function at the single-cell level.

Proc Natl Acad Sci U S A. 2014;111(31):11257-62 - PMID: 25053815 - PMCID: PMC4128110 - DOI: 10.1073/pnas.1401316111

Liong M, Im H, Majmudar MD, Aguirre AD, Sebas M, Lee H*, Weissleder R*

Magnetic Ligation Method for Quantitative Detection of MicroRNAs.

Adv Healthc Mater. 2014;3(7):1015-9 - PMID: 24532323 - PMCID: PMC4107040 - DOI: 10.1002/adhm.201300672