Back to People List../Pat_Brown_Lab_Home_Page/People.html


Ph.D. Computer Science, Polytechnic Institute of New York, 1981-1989

Postdoctoral Fellow in Biochemistry, Stanford University School of Medicine, 2003-2004


7,403,987 Transactional SAN management, 2008

5,333,272 Warning timer for users of interactive systems, 1994


http://tma.stanford.edu     The Stanford Tissue Microarray Database

http://tma.stanford.edu/tma_portal     Recent publications with all annotated pathology images freely available


http://tma.stanford.edu/protocols/OzoneNewsVol1.pdf    A good cheap kludge: build an Ozone-free room

http://tma.stanford.edu/protocols/OzoneNewsVol2.pdf    How to dry your microarray slides and keep your Cy5 signal

http://tma.stanford.edu/cgi-bin/info06.pl    Construction of TIssue Microarray blocks

http://tma.stanford.edu/cgi-bin/info03.pl    Basic immunohistochemical (IHC) protocol for tissue microarrays

http://tma.stanford.edu/cgi-bin/info12.pl    Basic in situ chromagenic (ISH) nucleic acid protocol for tissue microarrays

http://tma.stanford.edu/cgi-bin/info04.pl    Automated imaging for TMAD using Bacus Labs BLISS microscopes

http://tma.stanford.edu/cgi-bin/info05.pl    Automated fluorescence imaging with Applied Imaging Ariol

http://tma.stanford.edu/cgi-bin/info02.pl    Physical tissue microarray block layout naming conventions


1: Heerema-McKenney A, Wijnaendts LC, Pulliam JF, Lopez-Terrada D, McKenney JK,

Zhu S, Montgomery K, Mitchell J, Marinelli RJ, Hart AA, van de Rijn M, Linn SC.

 Diffuse myogenin expression by immunohistochemistry is an independent marker of

poor survival in pediatric rhabdomyosarcoma: a tissue microarray study of 71

primary tumors including correlation with molecular phenotype.

Am J Surg Pathol. 2008 Oct;32(10):1513-22.

PMID: 18708938 [PubMed - indexed for MEDLINE]

2: Schwartz EJ, Molina-Kirsch H, Zhao S, Marinelli RJ, Warnke RA, Natkunam Y.

 Immunohistochemical characterization of nasal-type extranodal NK/T-cell lymphoma 

using a tissue microarray: an analysis of 84 cases.

Am J Clin Pathol. 2008 Sep;130(3):343-51.

PMID: 18701406 [PubMed - indexed for MEDLINE]

3: Lee CH, Espinosa I, Vrijaldenhoven S, Subramanian S, Montgomery KD, Zhu S,

Marinelli RJ, Peterse JL, Poulin N, Nielsen TO, West RB, Gilks CB, van de Rijn M.

 Prognostic significance of macrophage infiltration in leiomyosarcomas.

Clin Cancer Res. 2008 Mar 1;14(5):1423-30.

PMID: 18316565 [PubMed - indexed for MEDLINE]

4: Marinelli RJ, Montgomery K, Liu CL, Shah NH, Prapong W, Nitzberg M, Zachariah 

ZK, Sherlock GJ, Natkunam Y, West RB, van de Rijn M, Brown PO, Ball CA.

 The Stanford Tissue Microarray Database.

Nucleic Acids Res. 2008 Jan;36(Database issue):D871-7. Epub 2007 Nov 7.

PMID: 17989087 [PubMed - indexed for MEDLINE]

5: Higgins JP, Kaygusuz G, Wang L, Montgomery K, Mason V, Zhu SX, Marinelli RJ,

Presti JC Jr, van de Rijn M, Brooks JD.

 Placental S100 (S100P) and GATA3: markers for transitional epithelium and

urothelial carcinoma discovered by complementary DNA microarray.

Am J Surg Pathol. 2007 May;31(5):673-80.

PMID: 17460449 [PubMed - indexed for MEDLINE]

6: Gratzinger D, Zhao S, Marinelli RJ, Kapp AV, Tibshirani RJ, Hammer AS,

Hamilton-Dutoit S, Natkunam Y.

 Microvessel density and expression of vascular endothelial growth factor and its 

receptors in diffuse large B-cell lymphoma subtypes.

Am J Pathol. 2007 Apr;170(4):1362-9.

PMID: 17392174 [PubMed - indexed for MEDLINE]

7: Natkunam Y, Vainer G, Chen J, Zhao S, Marinelli RJ, Hammer AS, Hamilton-Dutoit

S, Pikarsky E, Amir G, Levy R, Yisraeli JK, Lossos IS.

 Expression of the RNA-binding protein VICKZ in normal hematopoietic tissues and


Haematologica. 2007 Feb;92(2):176-83.

PMID: 17296566 [PubMed - indexed for MEDLINE]

8: West RB, Rubin BP, Miller MA, Subramanian S, Kaygusuz G, Montgomery K, Zhu S, 

Marinelli RJ, De Luca A, Downs-Kelly E, Goldblum JR, Corless CL, Brown PO, Gilks 

CB, Nielsen TO, Huntsman D, van de Rijn M.

 A landscape effect in tenosynovial giant-cell tumor from activation of CSF1

expression by a translocation in a minority of tumor cells.

Proc Natl Acad Sci U S A. 2006 Jan 17;103(3):690-5. Epub 2006 Jan 6.

PMID: 16407111 [PubMed - indexed for MEDLINE]

9: Liu CL, Montgomery KD, Natkunam Y, West RB, Nielsen TO, Cheang MC, Turbin DA, 

Marinelli RJ, van de Rijn M, Higgins JP.

 TMA-Combiner, a simple software tool to permit analysis of replicate cores on

tissue microarrays.

Mod Pathol. 2005 Dec;18(12):1641-8.

PMID: 16258508 [PubMed - indexed for MEDLINE]

10: Subramanian S, West RB, Marinelli RJ, Nielsen TO, Rubin BP, Goldblum JR,

Patel RM, Zhu S, Montgomery K, Ng TL, Corless CL, Heinrich MC, van de Rijn M.

 The gene expression profile of extraskeletal myxoid chondrosarcoma.

J Pathol. 2005 Aug;206(4):433-44.

PMID: 15920699 [PubMed - indexed for MEDLINE]

11: Marinelli, RJ

 Issues of Locality in a Distributed Virtual Memory

Thesis (Ph.D.) Polytechnic University, Brooklyn, NY 1989.




We are investigating the molecular diversity of cells types in normal and tumor tissues, using tissue microarrays for histological examination of protein and mRNA expression. Prior studies using cDNA microarrays have shown that there is great diversity in gene expression patterns within a cell type as well as across tissue types.

To this end, my main goals are to develop (1) markers to distinguish relevant sub compartments of tissues, (2) high throughput assays to quantitate protein and mRNA expression by specific cell identities and (3) needed database tools for extracting knowledge from our assays.

This work is in collaboration with Dr. Matt van de Rijn in the Department of Pathology

email bobm@stanford.edu

phone  (650) 723-0005

address Dept of Biochemistry

  1. Beckman Center

  2. Stanford School of Medicine

  3. Stanford, CA 94305