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Items: 1 to 50 of 116

1.

Sci-Hi-C: A single-cell Hi-C method for mapping 3D genome organization in large number of single cells.

Ramani V, Deng X, Qiu R, Lee C, Disteche CM, Noble WS, Shendure J, Duan Z.

Methods. 2019 Sep 16. pii: S1046-2023(18)30475-4. doi: 10.1016/j.ymeth.2019.09.012. [Epub ahead of print]

PMID:
31536770
2.

Investigating circulating tumor cells and distant metastases in patient-derived orthotopic xenograft models of triple-negative breast cancer.

Ramani VC, Lemaire CA, Triboulet M, Casey KM, Heirich K, Renier C, Vilches-Moure JG, Gupta R, Razmara AM, Zhang H, Sledge GW, Sollier E, Jeffrey SS.

Breast Cancer Res. 2019 Aug 28;21(1):98. doi: 10.1186/s13058-019-1182-4.

3.

Tuning anion solvation energetics enhances potassium-oxygen battery performance.

Sankarasubramanian S, Kahky J, Ramani V.

Proc Natl Acad Sci U S A. 2019 Jul 23;116(30):14899-14904. doi: 10.1073/pnas.1901329116. Epub 2019 Jul 10.

PMID:
31292256
4.

Dynamics of genome reorganization during human cardiogenesis reveal an RBM20-dependent splicing factory.

Bertero A, Fields PA, Ramani V, Bonora G, Yardimci GG, Reinecke H, Pabon L, Noble WS, Shendure J, Murry CE.

Nat Commun. 2019 Apr 4;10(1):1538. doi: 10.1038/s41467-019-09483-5.

5.

Genomic Evaluation of Multiparametric Magnetic Resonance Imaging-visible and -nonvisible Lesions in Clinically Localised Prostate Cancer.

Parry MA, Srivastava S, Ali A, Cannistraci A, Antonello J, Barros-Silva JD, Ubertini V, Ramani V, Lau M, Shanks J, Nonaka D, Oliveira P, Hambrock T, Leong HS, Dhomen N, Miller C, Brady G, Dive C, Clarke NW, Marais R, Baena E.

Eur Urol Oncol. 2019 Feb;2(1):1-11. doi: 10.1016/j.euo.2018.08.005. Epub 2018 Sep 5.

6.

Real-Time Detection of Circulating Tumor Cells in Living Animals Using Functionalized Large Gold Nanorods.

Dutta R, Liba O, SoRelle ED, Winetraub Y, Ramani VC, Jeffrey SS, Sledge GW, de la Zerda A.

Nano Lett. 2019 Apr 10;19(4):2334-2342. doi: 10.1021/acs.nanolett.8b05005. Epub 2019 Mar 29.

PMID:
30895796
7.

MRE11 as a Predictive Biomarker of Outcome After Radiation Therapy in Bladder Cancer.

Walker AK, Karaszi K, Valentine H, Strauss VY, Choudhury A, McGill S, Wen K, Brown MD, Ramani V, Bhattarai S, Teo MTW, Yang L, Myers KA, Deshmukh N, Denley H, Browning L, Love SB, Iyer G, Clarke NW, Hall E, Huddart R, James ND, Hoskin PJ, West CML, Kiltie AE.

Int J Radiat Oncol Biol Phys. 2019 Jul 15;104(4):809-818. doi: 10.1016/j.ijrobp.2019.03.015. Epub 2019 Mar 15.

8.

Understanding the Oxygen Reduction Reaction Activity and Oxidative Stability of Pt Supported on Nb-Doped TiO2.

He C, Sankarasubramanian S, Matanovic I, Atanassov P, Ramani V.

ChemSusChem. 2019 Aug 8;12(15):3468-3480. doi: 10.1002/cssc.201900499. Epub 2019 Mar 5.

PMID:
30835947
9.

High Sensitivity Profiling of Chromatin Structure by MNase-SSP.

Ramani V, Qiu R, Shendure J.

Cell Rep. 2019 Feb 26;26(9):2465-2476.e4. doi: 10.1016/j.celrep.2019.02.007.

10.

TLR4-interacting SPA4 peptide improves host defense and alleviates tissue injury in a mouse model of Pseudomonas aeruginosa lung infection.

Awasthi S, Singh B, Ramani V, Xie J, Kosanke S.

PLoS One. 2019 Jan 28;14(1):e0210979. doi: 10.1371/journal.pone.0210979. eCollection 2019.

11.

NF1 heterozygosity fosters de novo tumorigenesis but impairs malignant transformation.

Brosseau JP, Liao CP, Wang Y, Ramani V, Vandergriff T, Lee M, Patel A, Ariizumi K, Le LQ.

Nat Commun. 2018 Nov 27;9(1):5014. doi: 10.1038/s41467-018-07452-y.

12.

N-(6-Meth-oxy-pyridin-2-yl)-1-(pyridin-2-ylmeth-yl)-1H-pyrazole-3-carboxamide: crystal structure and Hirshfeld surface analysis.

Ramani VC, Shah RD, Jotani MM, Tiekink ERT.

Acta Crystallogr E Crystallogr Commun. 2018 Aug 16;74(Pt 9):1254-1258. doi: 10.1107/S2056989018011477. eCollection 2018 Sep 1.

13.

Joint profiling of chromatin accessibility and gene expression in thousands of single cells.

Cao J, Cusanovich DA, Ramani V, Aghamirzaie D, Pliner HA, Hill AJ, Daza RM, McFaline-Figueroa JL, Packer JS, Christiansen L, Steemers FJ, Adey AC, Trapnell C, Shendure J.

Science. 2018 Sep 28;361(6409):1380-1385. doi: 10.1126/science.aau0730. Epub 2018 Aug 30.

14.

Blocking Monocytic Myeloid-Derived Suppressor Cell Function via Anti-DC-HIL/GPNMB Antibody Restores the In Vitro Integrity of T Cells from Cancer Patients.

Kobayashi M, Chung JS, Beg M, Arriaga Y, Verma U, Courtney K, Mansour J, Haley B, Khan S, Horiuchi Y, Ramani V, Harker D, Gopal P, Araghizadeh F, Cruz PD Jr, Ariizumi K.

Clin Cancer Res. 2019 Jan 15;25(2):828-838. doi: 10.1158/1078-0432.CCR-18-0330. Epub 2018 Jul 26.

PMID:
30049749
15.

Melanoma-Derived Soluble DC-HIL/GPNMB Promotes Metastasis by Excluding T-Lymphocytes from the Pre-Metastatic Niches.

Ramani V, Teshima T, Tamura K, Chung JS, Kobayashi M, Cruz PD Jr, Ariizumi K.

J Invest Dermatol. 2018 Nov;138(11):2443-2451. doi: 10.1016/j.jid.2018.05.012. Epub 2018 May 30.

PMID:
29857071
16.

Primary Mutational Landscape Linked with Pre-Docetaxel Lactate Dehydrogenase Levels Predicts Docetaxel Response in Metastatic Castrate-Resistant Prostate Cancer.

Hiew K, Hart CA, Ali A, Elliott T, Ramani V, Sangar V, Lau M, Maddineni S, Brown M, Clarke N.

Eur Urol Focus. 2018 Apr 23. pii: S2405-4569(18)30096-8. doi: 10.1016/j.euf.2018.04.006. [Epub ahead of print]

PMID:
29699892
17.

Orientation-dependent Dxz4 contacts shape the 3D structure of the inactive X chromosome.

Bonora G, Deng X, Fang H, Ramani V, Qiu R, Berletch JB, Filippova GN, Duan Z, Shendure J, Noble WS, Disteche CM.

Nat Commun. 2018 Apr 13;9(1):1445. doi: 10.1038/s41467-018-03694-y.

18.

Cobalt-Based Coordination Polymer for Oxygen Reduction Reaction.

Mani P, Sheelam A, Das S, Wang G, Ramani VK, Ramanujam K, Pati SK, Mandal S.

ACS Omega. 2018 Apr 4;3(4):3830-3834. doi: 10.1021/acsomega.8b00088. eCollection 2018 Apr 30.

19.

Fast and Label-Free Isolation of Circulating Tumor Cells from Blood: From a Research Microfluidic Platform to an Automated Fluidic Instrument, VTX-1 Liquid Biopsy System.

Lemaire CA, Liu SZ, Wilkerson CL, Ramani VC, Barzanian NA, Huang KW, Che J, Chiu MW, Vuppalapaty M, Dimmick AM, Carlo DD, Kochersperger ML, Crouse SC, Jeffrey SS, Englert RF, Hengstler S, Renier C, Sollier-Christen E.

SLAS Technol. 2018 Feb;23(1):16-29. doi: 10.1177/2472630317738698.

PMID:
29355087
20.

Mesenchymal stem cells expressing osteoprotegerin variants inhibit osteolysis in a murine model of multiple myeloma.

Higgs JT, Lee JH, Wang H, Ramani VC, Chanda D, Hardy CY, Sanderson RD, Ponnazhagan S.

Blood Adv. 2017 Nov 21;1(25):2375-2385. doi: 10.1182/bloodadvances.2017007310. eCollection 2017 Nov 28.

21.

Chemotherapy induces secretion of exosomes loaded with heparanase that degrades extracellular matrix and impacts tumor and host cell behavior.

Bandari SK, Purushothaman A, Ramani VC, Brinkley GJ, Chandrashekar DS, Varambally S, Mobley JA, Zhang Y, Brown EE, Vlodavsky I, Sanderson RD.

Matrix Biol. 2018 Jan;65:104-118. doi: 10.1016/j.matbio.2017.09.001. Epub 2017 Sep 6.

22.

Comprehensive single-cell transcriptional profiling of a multicellular organism.

Cao J, Packer JS, Ramani V, Cusanovich DA, Huynh C, Daza R, Qiu X, Lee C, Furlan SN, Steemers FJ, Adey A, Waterston RH, Trapnell C, Shendure J.

Science. 2017 Aug 18;357(6352):661-667. doi: 10.1126/science.aam8940.

23.

Detection of Reactive Oxygen Species in Anion Exchange Membrane Fuel Cells using In Situ Fluorescence Spectroscopy.

Zhang Y, Parrondo J, Sankarasubramanian S, Ramani V.

ChemSusChem. 2017 Aug 10;10(15):3056-3062. doi: 10.1002/cssc.201700760. Epub 2017 Jun 28.

PMID:
28657214
24.

Massively multiplex single-cell Hi-C.

Ramani V, Deng X, Qiu R, Gunderson KL, Steemers FJ, Disteche CM, Noble WS, Duan Z, Shendure J.

Nat Methods. 2017 Mar;14(3):263-266. doi: 10.1038/nmeth.4155. Epub 2017 Jan 30.

25.

Enumeration and targeted analysis of KRAS, BRAF and PIK3CA mutations in CTCs captured by a label-free platform: Comparison to ctDNA and tissue in metastatic colorectal cancer.

Kidess-Sigal E, Liu HE, Triboulet MM, Che J, Ramani VC, Visser BC, Poultsides GA, Longacre TA, Marziali A, Vysotskaia V, Wiggin M, Heirich K, Hanft V, Keilholz U, Tinhofer I, Norton JA, Lee M, Sollier-Christen E, Jeffrey SS.

Oncotarget. 2016 Dec 20;7(51):85349-85364. doi: 10.18632/oncotarget.13350.

26.

Chemotherapy induces expression and release of heparanase leading to changes associated with an aggressive tumor phenotype.

Ramani VC, Vlodavsky I, Ng M, Zhang Y, Barbieri P, Noseda A, Sanderson RD.

Matrix Biol. 2016 Sep;55:22-34. doi: 10.1016/j.matbio.2016.03.006. Epub 2016 Mar 22.

27.

Mapping 3D genome architecture through in situ DNase Hi-C.

Ramani V, Cusanovich DA, Hause RJ, Ma W, Qiu R, Deng X, Blau CA, Disteche CM, Noble WS, Shendure J, Duan Z.

Nat Protoc. 2016 Nov;11(11):2104-21. doi: 10.1038/nprot.2016.126. Epub 2016 Sep 29.

28.

Proton Conducting Self-Assembled Metal-Organic Framework/Polyelectrolyte Hollow Hybrid Nanostructures.

Sen U, Erkartal M, Kung CW, Ramani V, Hupp JT, Farha OK.

ACS Appl Mater Interfaces. 2016 Sep 7;8(35):23015-21. doi: 10.1021/acsami.6b05901. Epub 2016 Aug 29.

PMID:
27540749
29.

Acute Respiratory Infections among Under-Five Age Group Children at Urban Slums of Gulbarga City: A Longitudinal Study.

Ramani VK, Pattankar J, Puttahonnappa SK.

J Clin Diagn Res. 2016 May;10(5):LC08-13. doi: 10.7860/JCDR/2016/15509.7779. Epub 2016 May 1.

30.

Reactive oxygen species accelerate degradation of anion exchange membranes based on polyphenylene oxide in alkaline environments.

Parrondo J, Wang Z, Jung MS, Ramani V.

Phys Chem Chem Phys. 2016 Jul 20;18(29):19705-12. doi: 10.1039/c6cp01978a.

PMID:
27381009
31.

Smash and DASH with Cas9.

Ramani V, Shendure J.

Genome Biol. 2016 Mar 5;17:42. doi: 10.1186/s13059-016-0905-4.

32.

Circulating tumor cell technologies.

Ferreira MM, Ramani VC, Jeffrey SS.

Mol Oncol. 2016 Mar;10(3):374-94. doi: 10.1016/j.molonc.2016.01.007. Epub 2016 Jan 28. Review.

33.

Understanding Spatial Genome Organization: Methods and Insights.

Ramani V, Shendure J, Duan Z.

Genomics Proteomics Bioinformatics. 2016 Feb;14(1):7-20. doi: 10.1016/j.gpb.2016.01.002. Epub 2016 Feb 11. Review.

34.

Estimated glomerular filtration rate is unreliable in detecting renal function loss during follow-up after cystectomy and urinary diversion.

Robinson R, Tait CD, Somov P, Lau MW, Sangar VK, Ramani VA, Clarke NW.

Int Urol Nephrol. 2016 Apr;48(4):511-5. doi: 10.1007/s11255-016-1216-0. Epub 2016 Jan 21.

PMID:
26790883
35.

Dynamic sentinel lymph node biopsy for penile cancer: a comparison between 1- and 2-day protocols.

Dimopoulos P, Christopoulos P, Shilito S, Gall Z, Murby B, Ashworth D, Taylor B, Carrington B, Shanks J, Clarke N, Ramani V, Parr N, Lau M, Sangar V.

BJU Int. 2016 Jun;117(6):890-6. doi: 10.1111/bju.13389. Epub 2016 Jan 12.

36.

Targeting heparanase overcomes chemoresistance and diminishes relapse in myeloma.

Ramani VC, Zhan F, He J, Barbieri P, Noseda A, Tricot G, Sanderson RD.

Oncotarget. 2016 Jan 12;7(2):1598-607. doi: 10.18632/oncotarget.6408.

37.

Hierarchically Structured Nanomaterials for Electrochemical Energy Conversion.

Trogadas P, Ramani V, Strasser P, Fuller TF, Coppens MO.

Angew Chem Int Ed Engl. 2016 Jan 4;55(1):122-48. doi: 10.1002/anie.201506394. Epub 2015 Nov 9. Review.

PMID:
26549054
38.

Toll-like receptor 4-interacting SPA4 peptide suppresses the NLRP3 inflammasome in response to LPS and ATP stimuli.

Ramani V, Awasthi S.

J Leukoc Biol. 2015 Dec;98(6):1037-48. doi: 10.1189/jlb.3A1114-570R. Epub 2015 Aug 7.

39.

Bipartite structure of the inactive mouse X chromosome.

Deng X, Ma W, Ramani V, Hill A, Yang F, Ay F, Berletch JB, Blau CA, Shendure J, Duan Z, Noble WS, Disteche CM.

Genome Biol. 2015 Aug 7;16:152. doi: 10.1186/s13059-015-0728-8.

40.

High-throughput determination of RNA structure by proximity ligation.

Ramani V, Qiu R, Shendure J.

Nat Biotechnol. 2015 Sep;33(9):980-4. doi: 10.1038/nbt.3289. Epub 2015 Aug 3.

41.

Accuracy of preoperative CT T staging of renal cell carcinoma: which features predict advanced stage?

Bradley AJ, MacDonald L, Whiteside S, Johnson RJ, Ramani VA.

Clin Radiol. 2015 Aug;70(8):822-9. doi: 10.1016/j.crad.2015.03.013. Epub 2015 May 5.

PMID:
25953656
42.

Heparanase is a host enzyme required for herpes simplex virus-1 release from cells.

Hadigal SR, Agelidis AM, Karasneh GA, Antoine TE, Yakoub AM, Ramani VC, Djalilian AR, Sanderson RD, Shukla D.

Nat Commun. 2015 Apr 27;6:6985. doi: 10.1038/ncomms7985.

43.

Shed syndecan-1 translocates to the nucleus of cells delivering growth factors and inhibiting histone acetylation: a novel mechanism of tumor-host cross-talk.

Stewart MD, Ramani VC, Sanderson RD.

J Biol Chem. 2015 Jan 9;290(2):941-9. doi: 10.1074/jbc.M114.608455. Epub 2014 Nov 17.

44.

Is it safe to insert a testicular prosthesis at the time of radical orchidectomy for testis cancer: an audit of 904 men undergoing radical orchidectomy.

Robinson R, Tait CD, Clarke NW, Ramani VA.

BJU Int. 2016 Feb;117(2):249-52. doi: 10.1111/bju.12920. Epub 2015 May 25.

45.

Bifunctional Crosslinking Agents Enhance Anion Exchange Membrane Efficacy for Vanadium Redox Flow Batteries.

Wang W, Xu M, Wang S, Xie X, Lv Y, Ramani VK.

ACS Appl Mater Interfaces. 2014 Jun 2. [Epub ahead of print]

PMID:
24884171
46.

Platinum supported on titanium-ruthenium oxide is a remarkably stable electrocatayst for hydrogen fuel cell vehicles.

Parrondo J, Han T, Niangar E, Wang C, Dale N, Adjemian K, Ramani V.

Proc Natl Acad Sci U S A. 2014 Jan 7;111(1):45-50. doi: 10.1073/pnas.1319663111. Epub 2013 Dec 23.

47.

Chemotherapy stimulates syndecan-1 shedding: a potentially negative effect of treatment that may promote tumor relapse.

Ramani VC, Sanderson RD.

Matrix Biol. 2014 Apr;35:215-22. doi: 10.1016/j.matbio.2013.10.005. Epub 2013 Oct 18.

48.

In situ fluorescence spectroscopy correlates ionomer degradation to reactive oxygen species generation in an operating fuel cell.

Prabhakaran V, Arges CG, Ramani V.

Phys Chem Chem Phys. 2013 Nov 21;15(43):18965-72. doi: 10.1039/c3cp53919a.

PMID:
24092495
49.

Should centralized histopathological review in penile cancer be the global standard?

Tang V, Clarke L, Gall Z, Shanks JH, Nonaka D, Parr NJ, Elliott PA, Clarke NW, Ramani V, Lau MW, Sangar VK.

BJU Int. 2014 Sep;114(3):340-3. doi: 10.1111/bju.12449. Epub 2014 Jan 15.

50.

Estimation of electrode ionomer oxygen permeability and ionomer-phase oxygen transport resistance in polymer electrolyte fuel cells.

Sambandam S, Parrondo J, Ramani V.

Phys Chem Chem Phys. 2013 Sep 28;15(36):14994-5002. doi: 10.1039/c3cp51450a.

PMID:
23912796

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