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Items: 27

1.

Using Microarrays to Interrogate Microenvironmental Impact on Cellular Phenotypes in Cancer.

Smith R, Devlin K, Kilburn D, Gross S, Sudar D, Bucher E, Nederlof M, Dane M, Gray JW, Heiser L, Korkola JE.

J Vis Exp. 2019 May 21;(147). doi: 10.3791/58957.

PMID:
31180341
2.

Microenvironment-Mediated Mechanisms of Resistance to HER2 Inhibitors Differ between HER2+ Breast Cancer Subtypes.

Watson SS, Dane M, Chin K, Tatarova Z, Liu M, Liby T, Thompson W, Smith R, Nederlof M, Bucher E, Kilburn D, Whitman M, Sudar D, Mills GB, Heiser LM, Jonas O, Gray JW, Korkola JE.

Cell Syst. 2018 Mar 28;6(3):329-342.e6. doi: 10.1016/j.cels.2018.02.001. Epub 2018 Mar 14.

3.

The Library of Integrated Network-Based Cellular Signatures NIH Program: System-Level Cataloging of Human Cells Response to Perturbations.

Keenan AB, Jenkins SL, Jagodnik KM, Koplev S, He E, Torre D, Wang Z, Dohlman AB, Silverstein MC, Lachmann A, Kuleshov MV, Ma'ayan A, Stathias V, Terryn R, Cooper D, Forlin M, Koleti A, Vidovic D, Chung C, Schürer SC, Vasiliauskas J, Pilarczyk M, Shamsaei B, Fazel M, Ren Y, Niu W, Clark NA, White S, Mahi N, Zhang L, Kouril M, Reichard JF, Sivaganesan S, Medvedovic M, Meller J, Koch RJ, Birtwistle MR, Iyengar R, Sobie EA, Azeloglu EU, Kaye J, Osterloh J, Haston K, Kalra J, Finkbiener S, Li J, Milani P, Adam M, Escalante-Chong R, Sachs K, Lenail A, Ramamoorthy D, Fraenkel E, Daigle G, Hussain U, Coye A, Rothstein J, Sareen D, Ornelas L, Banuelos M, Mandefro B, Ho R, Svendsen CN, Lim RG, Stocksdale J, Casale MS, Thompson TG, Wu J, Thompson LM, Dardov V, Venkatraman V, Matlock A, Van Eyk JE, Jaffe JD, Papanastasiou M, Subramanian A, Golub TR, Erickson SD, Fallahi-Sichani M, Hafner M, Gray NS, Lin JR, Mills CE, Muhlich JL, Niepel M, Shamu CE, Williams EH, Wrobel D, Sorger PK, Heiser LM, Gray JW, Korkola JE, Mills GB, LaBarge M, Feiler HS, Dane MA, Bucher E, Nederlof M, Sudar D, Gross S, Kilburn DF, Smith R, Devlin K, Margolis R, Derr L, Lee A, Pillai A.

Cell Syst. 2018 Jan 24;6(1):13-24. doi: 10.1016/j.cels.2017.11.001. Epub 2017 Nov 29. Review.

4.

Data File Standard for Flow Cytometry, version FCS 3.1.

Spidlen J, Moore W, Parks D, Goldberg M, Bray C, Bierre P, Gorombey P, Hyun B, Hubbard M, Lange S, Lefebvre R, Leif R, Novo D, Ostruszka L, Treister A, Wood J, Murphy RF, Roederer M, Sudar D, Zigon R, Brinkman RR.

Cytometry A. 2010 Jan;77(1):97-100. doi: 10.1002/cyto.a.20825.

5.

Comparative genomic hybridization.

DeVries S, Gray JW, Pinkel D, Waldman FM, Sudar D.

Curr Protoc Hum Genet. 2001 May;Chapter 4:Unit4.6. doi: 10.1002/0471142905.hg0406s06.

PMID:
18428281
6.

Phenotype clustering of breast epithelial cells in confocal images based on nuclear protein distribution analysis.

Long F, Peng H, Sudar D, Lelièvre SA, Knowles DW.

BMC Cell Biol. 2007 Jul 10;8 Suppl 1:S3.

7.

Three-dimensional morphology and gene expression in the Drosophila blastoderm at cellular resolution II: dynamics.

Keränen SV, Fowlkes CC, Luengo Hendriks CL, Sudar D, Knowles DW, Malik J, Biggin MD.

Genome Biol. 2006;7(12):R124.

8.

Three-dimensional morphology and gene expression in the Drosophila blastoderm at cellular resolution I: data acquisition pipeline.

Luengo Hendriks CL, Keränen SV, Fowlkes CC, Simirenko L, Weber GH, DePace AH, Henriquez C, Kaszuba DW, Hamann B, Eisen MB, Malik J, Sudar D, Biggin MD, Knowles DW.

Genome Biol. 2006;7(12):R123.

9.

A large field CCD system for quantitative imaging of microarrays.

Hamilton G, Brown N, Oseroff V, Huey B, Segraves R, Sudar D, Kumler J, Albertson D, Pinkel D.

Nucleic Acids Res. 2006 May 2;34(8):e58.

10.

Automated local bright feature image analysis of nuclear protein distribution identifies changes in tissue phenotype.

Knowles DW, Sudar D, Bator-Kelly C, Bissell MJ, Lelièvre SA.

Proc Natl Acad Sci U S A. 2006 Mar 21;103(12):4445-50. Epub 2006 Mar 10.

11.

Segmentation of confocal microscope images of cell nuclei in thick tissue sections.

Ortiz de Solórzano C, García Rodriguez E, Jones A, Pinkel D, Gray JW, Sudar D, Lockett SJ.

J Microsc. 1999 Mar;193(Pt 3):212-26.

12.

High resolution analysis of DNA copy number variation using comparative genomic hybridization to microarrays.

Pinkel D, Segraves R, Sudar D, Clark S, Poole I, Kowbel D, Collins C, Kuo WL, Chen C, Zhai Y, Dairkee SH, Ljung BM, Gray JW, Albertson DG.

Nat Genet. 1998 Oct;20(2):207-11.

PMID:
9771718
13.

Efficient, interactive, and three-dimensional segmentation of cell nuclei in thick tissue sections.

Lockett SJ, Sudar D, Thompson CT, Pinkel D, Gray JW.

Cytometry. 1998 Apr 1;31(4):275-86.

PMID:
9551603
14.

Molecular cytometry of cancer.

Waldman FM, Sauter G, Sudar D, Thompson CT.

Hum Pathol. 1996 May;27(5):441-9.

PMID:
8621184
15.

Semiautomated DNA probe mapping using digital imaging microscopy: II. System performance.

Sakamoto M, Pinkel D, Mascio L, Sudar D, Peters D, Kuo WL, Yamakawa K, Nakamura Y, Drabkin H, Jericevic Z, et al.

Cytometry. 1995 Jan 1;19(1):60-9.

16.

Semiautomated DNA probe mapping using digital imaging microscopy: I. System development.

Mascio LN, Verbeek PW, Sudar D, Kuo WL, Gray JW.

Cytometry. 1995 Jan 1;19(1):51-9.

17.

Computer image analysis of comparative genomic hybridization.

Piper J, Rutovitz D, Sudar D, Kallioniemi A, Kallioniemi OP, Waldman FM, Gray JW, Pinkel D.

Cytometry. 1995 Jan 1;19(1):10-26.

18.

Automatic fluorescence metaphase finder speeds translocation scoring in FISH painted chromosomes.

Piper J, Poggensee M, Hill W, Jensen R, Ji L, Poole I, Stark M, Sudar D.

Cytometry. 1994 May 1;16(1):7-16.

19.

Physical mapping of chromosome 17 cosmids by fluorescence in situ hybridization and digital image analysis.

Kallioniemi OP, Kallioniemi A, Mascio L, Sudar D, Pinkel D, Deaven L, Gray J.

Genomics. 1994 Mar 1;20(1):125-8.

PMID:
8020940
20.

Comparative genomic hybridization: a rapid new method for detecting and mapping DNA amplification in tumors.

Kallioniemi OP, Kallioniemi A, Sudar D, Rutovitz D, Gray JW, Waldman F, Pinkel D.

Semin Cancer Biol. 1993 Feb;4(1):41-6. Review.

PMID:
8448377
21.

Comparative genomic hybridization for molecular cytogenetic analysis of solid tumors.

Kallioniemi A, Kallioniemi OP, Sudar D, Rutovitz D, Gray JW, Waldman F, Pinkel D.

Science. 1992 Oct 30;258(5083):818-21.

PMID:
1359641
22.

Comparison of strategies to detect and quantitate uniquely marked cells in intra- and inter-species hemopoietic chimeras.

Pallavicini MG, Langlois RG, Reitsma M, Gonzalgo M, Sudar D, Montoya T, Weier HU, Haendel S.

Cytometry. 1992;13(4):356-67.

23.

Proposed standard for image cytometry data files.

Dean P, Mascio L, Ow D, Sudar D, Mullikin J.

Cytometry. 1990;11(5):561-9.

24.

Pyridine nucleotide analog interference with metabolic processes in mitogen-stimulated human T lymphocytes.

Berger SJ, Manory I, Sudar DC, Krothapalli D, Berger NA.

Exp Cell Res. 1987 Dec;173(2):379-87.

PMID:
2961586
25.
26.

Induction of the pyridine nucleotide synthesis pathway in mitogen-stimulated human T-lymphocytes.

Berger SJ, Manory I, Sudar DC, Berger NA.

Exp Cell Res. 1987 Mar;169(1):149-57.

PMID:
3102266
27.

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