MGH Center for Systems Biology

Sahani DV, Bonaffini PA, Catalano OA, Guimaraes AR, Blake MA

State-of-the-Art PET/CT of the Pancreas: Current Role and Emerging Indications.

Radiographics. 2012;32(4):1133-58 - PMID: 22786999 - PMCID: PMC6939848 - DOI: 10.1148/rg.324115143

Wilbur DC, Madi K, Colvin RB, Duncan LM, Faquin WC, Ferry JA, Frosch MP, Houser SL, Kradin RL, Lauwers GY, Louis DN, Mark EJ, Mino-Kenudson M, Misdraji J, Nielsen GP, Pitman MB, Rosenberg AE, Smith RN, Sohani AR, Stone JR, Tambouret RH, Wu CL, Young RH, Zembowicz A, Klietmann W

Whole-slide imaging digital pathology as a platform for teleconsultation: a pilot study using paired subspecialist correlations.

Arch Pathol Lab Med. 2009;133(12):1949-53 - PMID: 19961250 - PMCID: PMC3694269 - DOI: 10.1043/1543-2165-133.12.1949

Louis DN, Gerber GK, Baron JM, Bry L, Dighe AS, Getz G, Higgins JM, Kuo FC, Lane WJ, Michaelson JS, Le LP, Mermel CH, Gilbertson JR, Golden JA

Computational pathology: an emerging definition.

Arch Pathol Lab Med. 2014;138(9):1133-8 - PMID: 25171694 - DOI: 10.5858/arpa.2014-0034-ED

Bogdanov A, Wright SC, Marecos EM, Bogdanova A, Martin C, Petherick P, Weissleder R

A long-circulating co-polymer in "passive targeting" to solid tumors.

J Drug Target. 1997;4(5):321-30 - PMID: 9169989 - DOI: 10.3109/10611869708995848

Salthouse CD, Weissleder R, Mahmood U

Development of a Time Domain Fluorimeter for Fluorescent Lifetime Multiplexing Analysis.

IEEE T Biomed Circuits Syst. 2008;2(3):204-211 - PMID: 19830273 - PMCID: PMC2760943 - DOI: 10.1109/TBCAS.2008.2003195

Merkulova M, McKee M, Dip PV, Gruber G, Marshansky V

N-terminal domain of the V-ATPase a2-subunit displays integral membrane protein properties.

Protein Sci. 2010;19(10):1850-1862 - PMID: 20669186 - PMCID: PMC2998721 - DOI: 10.1002/pro.470

Smith TB, Cortez-Retamozo V, Grigoryeva LS, Hill E, Pittet MJ, Da Silva N

Mononuclear phagocytes rapidly clear apoptotic epithelial cells in the proximal epididymis.

Andrology. 2014;2(5):755-62 - PMID: 25082073 - PMCID: PMC4396827 - DOI: 10.1111/j.2047-2927.2014.00251.x

Sullivan R, Légaré C, Lamontagne-Proulx J, Breton S, Soulet D

Revisiting structure/functions of the human epididymis.

Andrology. 2019;7(5):748-757 - PMID: 31033221 - DOI: 10.1111/andr.12633

Breton S, Nair AV, Battistone MA

Epithelial dynamics in the epididymis: role in the maturation, protection, and storage of spermatozoa.

Andrology. 2019;7(5):631-643 - PMID: 31044554 - PMCID: PMC6688936 - DOI: 10.1111/andr.12632

Soubret A, Ntziachristos V

Fluorescence molecular tomography in the presence of background fluorescence.

Phys Med Biol. 2006;51:3983-4001 - PMID: 16885619 - DOI: 10.1088/0031-9155/51/16/007

Razansky D, Vinegoni C, Ntziachristos V

Imaging of mesoscopic-scale organisms using selective-plane optoacoustic tomography.

Phys Med Biol. 2009;54:2769-2777 - PMID: 19369709 - DOI: 10.1088/0031-9155/54/9/012

Fumene Feruglio P, Vinegoni C, Gros J, Sbarbati A, Weissleder R

Block matching 3D random noise filtering for absorption optical projection tomography.

Phys Med Biol. 2010;55(18):5401-5415 - PMID: 20736500 - PMCID: PMC2934766 - DOI: 10.1088/0031-9155/55/18/009

Zettergren E, Swamy T, Runnels J, Lin CP, Niedre M

Tomographic sensing and localization of fluorescently labeled circulating cells in mice in vivo.

Phys Med Biol. 2012;57(14):4627-41 - PMID: 22750660 - PMCID: PMC3555500 - DOI: 10.1088/0031-9155/57/14/4627

Hartmann C, Patil R, Lin CP, Niedre MJ

Fluorescence detection, enumeration and characterization of single circulating cells in vivo technology, applications and future prospects.

Phys Med Biol. 2017;:ePub - PMID: 29115281 - DOI: 10.1088/1361-6560/aa98f9

Hartmann C, Patil R, Lin CP, Niedre M

Fluorescence detection, enumeration and characterization of single circulating cells in vivo: technology, applications and future prospects.

Phys Med Biol. 2017;63(1):01TR01 - PMID: 29240559 - PMCID: PMC5753400 - DOI: 10.1088/1361-6560/aa98f9

Razansky D, Deliolanis N, Vinegoni C, Ntziachristos V

Deep Tissue Optical and Optoacoustic Molecular Imaging Technologies for Small Animal Research and Drug Discovery.

Curr Pharm Biotechnol. 2012;13(4):504-22 - PMID: 22216767 - DOI: 10.2174/138920112799436258

Papisov M, Weissleder R

Drug delivery to lymphatic tissue.

Crit Rev Ther Drug Carrier Syst. 1996;13(1-2):57-84 - PMID: 8853959

Wiesmann F, Herold V, Streiff JU, Nahrendorf M, Neubauer S, Rommel E, Haase A

Novel insights into LV remodeling after murine myocardial infarction by in vivo magnetic resonance tissue velocity mapping.

Int J Cardiovasc Imaging. 2004;20(4):289-91 - PMID: 15529911 - DOI: 10.1023/b:caim.0000041945.64887.f4

Joseph P, Ishai A, MacNabb M, Abdelbaky A, Lavender ZR, Ruskin J, Nahrendorf M, Tawakol A

Atrial fibrillation is associated with hematopoietic tissue activation and arterial inflammation.

Int J Cardiovasc Imaging. 2015;32(1):113-119 - PMID: 26411879 - PMCID: PMC4730873 - DOI: 10.1007/s10554-015-0766-z

Thurber GM, Figueiredo JL, Weissleder R

Detection limits of intraoperative near infrared imaging for tumor resection.

J Surg Oncol. 2010;102(7):758-64 - PMID: 20872807 - PMCID: PMC3758114 - DOI: 10.1002/jso.21735

Gomez NR, Kouniavsky G, Tsai HL, Somervell H, Pai SI, Tufano RP, Umbricht C, Kowalski J, Dackiw AP, Zeiger MA

Tumor size and presence of calcifications on ultrasonography are pre-operative predictors of lymph node metastases in patients with papillary thyroid cancer.

J Surg Oncol. 2011;104(6):613-6 - PMID: 21744345 - DOI: 10.1002/jso.21891

Gutiérrez OM, Sun CC, Chen W, Babitt JL, Lin HY

Statement of Concern about a Commercial Assay Used to Measure Soluble Hemojuvelin in Humans.

Am J Nephrol. 2012;36(4):332-333 - PMID: 23006450 - DOI: 10.1159/000342519

Breton S, Tyszkowski R, Sabolic I, Brown D

Postnatal development of H+ ATPase (proton-pump)-rich cells in rat epididymis.

Histochem Cell Biol. 1999;111(2):97-105 - PMID: 10090570 - DOI: 10.1007/s004180050339

Ananthakrishnan AN, Cheng A, Cagan A, Cai T, Gainer VS, Shaw SY, Churchill S, Karlson EW, Murphy SN, Kohane I, Liao KP

Mode of Childbirth and Long-Term Outcomes in Women with Inflammatory Bowel Diseases.

Dig Dis Sci. 2014;60(2):471-7 - PMID: 25213079 - PMCID: PMC4304947 - DOI: 10.1007/s10620-014-3353-6

Corey KE, Kartoun U, Zheng H, Shaw SY

Development and Validation of an Algorithm to Identify Nonalcoholic Fatty Liver Disease in the Electronic Medical Record.

Dig Dis Sci. 2015;61(3):913-9 - PMID: 26537487 - PMCID: PMC4761309 - DOI: 10.1007/s10620-015-3952-x

Castro MM, Kim B, Hill E, Fialho MC, Puga LC, Freitas MB, Breton S, Machado-Neves M

The expression patterns of aquaporin 9, vacuolar H(+)-ATPase, and cytokeratin 5 in the epididymis of the common vampire bat.

Histochem Cell Biol. 2016;147(1):39-48 - PMID: 27549752 - DOI: 10.1007/s00418-016-1477-9

Monteiro JLGC, Takusagawa T, Vasconcelos BCE, Pai SI, McCain JP, Guastaldi FPS

A rabbit model to investigate temporomandibular joint osteochondral regeneration.

Oral Surg Oral Med Oral Pathol Oral Radiol. 2021;134(1):20-27 - PMID: 35165066 - DOI: 10.1016/j.oooo.2021.12.004

Marshansky V

The V-ATPase a2-subunit as a putative endosomal pH-sensor.

Biochem Soc T. 2007;35:1092-9 - PMID: 17956287 - DOI: 10.1042/BST0351092

Kelly KA, Reynolds F, Weissleder R, Josephson L

Fluorescein isothiocyanate-hapten immunoassay for determination of peptide-cell interactions.

Anal Biochem. 2004;330(2):181-5 - PMID: 15203322 - DOI: 10.1016/j.ab.2004.02.035

Law B, Hsiao JK, Bugge TH, Weissleder R, Tung CH.

Optical zymography for specific detection of urokinase plasminogen activator activity in biological samples

Anal Biochem. 2005;338(1):151-158 - PMID: 15707946 - DOI: 10.1016/j.ab.2004.11.039

Laha M, Panizzi P, Nahrendorf M, Bock PE

Engineering streptokinase for generation of active site-labeled plasminogen analogs.

Anal Biochem. 2011;415(2):105-15 - PMID: 21570944 - PMCID: PMC3114107 - DOI: 10.1016/j.ab.2011.04.025

Moss ML, Miller MA, Vujanovic N, Yoneyama T, Rasmussen FH

Fluorescent substrates for ADAM15 useful for assaying and high throughput screening.

Anal Biochem. 2016;514:42-47 - PMID: 27637923 - DOI: 10.1016/j.ab.2016.09.010

Shtatland T, Guettler D, Kossodo M, Pivovarov M, Weissleder R

PepBank - a database of peptides based on sequence text mining and public peptide data sources.

BMC Bioinformatics. 2007;8(1):280 - PMID: 17678535 - PMCID: PMC1976427 - DOI: 10.1186/1471-2105-8-280

Duchrow T, Shtatland T, Guettler D, Pivovarov M, Kramer S, Weissleder R

Enhancing navigation in biomedical databases by community voting and database-driven text classification.

BMC Bioinformatics. 2009;10(1):317 - PMID: 19799796 - PMCID: PMC2768718 - DOI: 10.1186/1471-2105-10-317

Rabkin-Aikawa E, Mayer J, Schoen F

Heart valve regeneration.

Adv Biochem Eng Biot. 2005;94:141-79 - PMID: 15915872 - DOI: 10.1007/b100003

Schima W, Saini S, Petersein J, Weissleder R, Harisinghani M, Mayo-Smith W, Hahn PF

MR imaging of the liver with Gd-BOPTA: quantitative analysis of T1-weighted images at two different doses

J Magn Reson Imaging. 1999;10:80-3 - PMID: 10398981 - DOI: 10.1002/(sici)1522-2586(199907)10:1<80::aid-jmri11>3.0.co;2-s

Hofmann, B, Bogdanov A Jr, Marecos E, Ebert W, Semmler W, Weissleder R

Mechanism of gadophrin-2 accumulation in tumor necrosis

J Magn Reson Imaging. 1999;9:336-41 - PMID: 10077034 - DOI: 10.1002/(sici)1522-2586(199902)9:2<336::aid-jmri28>3.0.co;2-3

Enochs WS, Harsh G, Hochberg F, Weissleder R

Improved delineation of human brain tumors on MR images using a long-circulating, superparamagnetic iron oxide agent

J Magn Reson Imaging. 1999;9:228-32 - PMID: 10077018 - DOI: 10.1002/(sici)1522-2586(199902)9:2<228::aid-jmri12>3.0.co;2-k

Korosoglou G, Tang L, Kedziorek D, Cosby K, Gilson WD, Vonken EJ, Schar M, Sosnovik D, Kraitchman DL, Weiss RG, Weissleder R, Stuber M

Positive contrast MR-lymphography using inversion recovery with ON-resonant water suppression (IRON).

J Magn Reson Imaging. 2008;27(5):1175-1180 - PMID: 18425827 - PMCID: PMC2740932 - DOI: 10.1002/jmri.21337

Nahrendorf M, Wiesmann F, Hiller K, Hu K, Waller C, Ruff J, Lanz T, Neubauer S, Haase A, Ertl G, Bauer W

Serial cine-magnetic resonance imaging of left ventricular remodeling after myocardial infarction in rats.

J Magn Reson Imaging. 2001;14(5):547-55 - PMID: 11747006 - DOI: 10.1002/jmri.1218

Hamilton AM, Rogers KA, Belisle AJ, Ronald JA, Rutt BK, Weissleder R, Boughner DR

Early identification of aortic valve sclerosis using iron oxide enhanced MRI.

J Magn Reson Imaging. 2010;31(1):110-6 - PMID: 20027578 - PMCID: PMC5638659 - DOI: 10.1002/jmri.22008

Reimer P, Bader A, Weissleder R

Preclinical assessment of hepatocyte-targeted MR contrast agents in stable human liver cell cultures.

J Magn Reson Imaging. 1998;8(3):687-9 - PMID: 9626887 - DOI: 10.1002/jmri.1880080326

Moore A, Weissleder R, Bogdanov A

Uptake of dextran-coated monocrystalline iron oxides in tumor cells and macrophages.

J Magn Reson Imaging. 1998;7(6):1140-5 - PMID: 9400860 - DOI: 10.1002/jmri.1880070629

Weissleder R, Cheng HC, Bogdanova A, Bogdanov A

Magnetically labeled cells can be detected by MR imaging.

J Magn Reson Imaging. 1997;7(1):258-63 - PMID: 9039625 - DOI: 10.1002/jmri.1880070140

Stiskal M, Schwickert HC, Demsar F, Roberts TP, Szolar D, Weissleder R, Brasch RC

Contrast enhancement in experimental radiation-induced liver injury: comparison of hepatocellular and reticuloendothelial particulate contrast agents.

J Magn Reson Imaging. 1997;6(2):286-90 - PMID: 9132091 - DOI: 10.1002/jmri.1880060205

Reimer P, Saini S, Kwong KK, Cohen MS, Weissleder R, Brady TJ

Dynamic gadolinium-enhanced echo-planar MR imaging of the liver: effect of pulse sequence and dose on enhancement.

J Magn Reson Imaging. 1994;4(3):331-5 - PMID: 8061430 - DOI: 10.1002/jmri.1880040318

Enochs WS, Weissleder R

MR imaging of the peripheral nervous system.

J Magn Reson Imaging. 1994;4(3):251-7 - PMID: 7520307 - DOI: 10.1002/jmri.1880040306

Weissleder R, Wang YM, Papisov M, Bogdanov A, Schaffer B, Brady TJ, Wittenberg J

Polymeric contrast agents for MR imaging of adrenal glands.

J Magn Reson Imaging. 1993;3(1):93-7 - PMID: 8428107 - DOI: 10.1002/jmri.1880030116

Reimer P, Kwong KK, Weisskoff R, Cohen MS, Brady TJ, Weissleder R

Dynamic signal intensity changes in liver with superparamagnetic MR contrast agents.

J Magn Reson Imaging. 1992;2(2):177-81 - PMID: 1562768 - DOI: 10.1002/jmri.1880020210

Weissleder R, Papisov M

Pharmaceutical iron oxides for MR imaging

J Magn Reson Imaging. 1992;4:1-6