Matt van de Rijn

Publications

• Anti-KIT monoclonal antibody inhibits imatinib-resistant gastrointestinal stromal tumor growth. Edris B, Willingham SB, Weiskopf K, Volkmer AK, Volkmer JP, Mühlenberg T, Montgomery KD, Contreras-Trujillo H, Czechowicz A, Fletcher JA, West RB, Weissman IL, van de Rijn M. Proc Natl Acad Sci U S A. 2013; 110 (9): 3501-6
• Breakpoint analysis of transcriptional and genomic profiles uncovers novel gene fusions spanning multiple human cancer types. Giacomini CP, Sun S, Varma S, Shain AH, Giacomini MM, Balagtas J, Sweeney RT, Lai E, Del Vecchio CA, Forster AD, Clarke N, Montgomery KD, Zhu S, Wong AJ, van de Rijn M, West RB, Pollack JR. PLoS Genet. 2013; 9 (4): e1003464
• Desktop transcriptome sequencing from archival tissue to identify clinically relevant translocations. Sweeney RT, Zhang B, Zhu SX, Varma S, Smith KS, Montgomery SB, van de Rijn M, Zehnder J, West RB. Am J Surg Pathol. 2013; 37 (6): 796-803
• Antibody therapy targeting the CD47 protein is effective in a model of aggressive metastatic leiomyosarcoma. Edris B, Weiskopf K, Volkmer AK, Volkmer JP, Willingham SB, Contreras-Trujillo H, Liu J, Majeti R, West RB, Fletcher JA, Beck AH, Weissman IL, van de Rijn M. Proc Natl Acad Sci U S A. 2012; 109 (17): 6656-61
• CDX2 is an amplified lineage-survival oncogene in colorectal cancer. Salari K, Spulak ME, Cuff J, Forster AD, Giacomini CP, Huang S, Ko ME, Lin AY, van de Rijn M, Pollack JR. Proc Natl Acad Sci U S A. 2012; 109 (46): E3196-205
• Comparative gene expression profiling of benign and malignant lesions reveals candidate therapeutic compounds for leiomyosarcoma. Edris B, Fletcher JA, West RB, van de Rijn M, Beck AH. Sarcoma. 2012: 2012 805614
• Cyclin D1 as a diagnostic immunomarker for endometrial stromal sarcoma with YWHAE-FAM22 rearrangement. Lee CH, Ali RH, Rouzbahman M, Marino-Enriquez A, Zhu M, Guo X, Brunner AL, Chiang S, Leung S, Nelnyk N, Huntsman DG, Blake Gilks C, Nielsen TO, Dal Cin P, van de Rijn M, Oliva E, Fletcher JA, Nucci MR. Am J Surg Pathol. 2012; 36 (10): 1562-70
• Flipping the script on macrophages in leiomyosarcoma. Edris B, Weiskopf K, Weissman IL, van de Rijn M. Oncoimmunology. 2012; 1 (7): 1202-1204
• ROR2 is a novel prognostic biomarker and a potential therapeutic target in leiomyosarcoma and gastrointestinal stromal tumour. Edris B, Espinosa I, Mühlenberg T, Mikels A, Lee CH, Steigen SE, Zhu S, Montgomery KD, Lazar AJ, Lev D, Fletcher JA, Beck AH, West RB, Nusse R, van de Rijn M. J Pathol. 2012; 227 (2): 223-33
• Sox10 and S100 in the diagnosis of soft-tissue neoplasms. Karamchandani JR, Nielsen TO, van de Rijn M, West RB. Appl Immunohistochem Mol Morphol. 2012; 20 (5): 445-50
• The CD47-signal regulatory protein alpha (SIRPa) interaction is a therapeutic target for human solid tumors. Willingham SB, Volkmer JP, Gentles AJ, Sahoo D, Dalerba P, Mitra SS, Wang J, Contreras-Trujillo H, Martin R, Cohen JD, Lovelace P, Scheeren FA, Chao MP, Weiskopf K, Tang C, Volkmer AK, Naik TJ, Storm TA, Mosley AR, Edris B, Schmid SM, Sun CK, Chua MS, Murillo O, Rajendran P, Cha AC, Chin RK, Kim D, Adorno M, Raveh T, Tseng D, Jaiswal S, Enger PØ, Steinberg GK, Li G, So SK, Majeti R, Harsh GR, van de Rijn M, Teng NN, Sunwoo JB, Alizadeh AA, Clarke MF, Weissman IL. Proc Natl Acad Sci U S A. 2012; 109 (17): 6662-7
• The clinicopathologic features of YWHAE-FAM22 endometrial stromal sarcomas: a histologically high-grade and clinically aggressive tumor. Lee CH, Mariño-Enriquez A, Ou W, Zhu M, Ali RH, Chiang S, Amant F, Gilks CB, van de Rijn M, Oliva E, Debiec-Rychter M, Dal Cin P, Fletcher JA, Nucci MR. Am J Surg Pathol. 2012; 36 (5): 641-53
• Three differentiation states risk-stratify bladder cancer into distinct subtypes. Volkmer JP, Sahoo D, Chin RK, Ho PL, Tang C, Kurtova AV, Willingham SB, Pazhanisamy SK, Contreras-Trujillo H, Storm TA, Lotan Y, Beck AH, Chung BI, Alizadeh AA, Godoy G, Lerner SP, van de Rijn M, Shortliffe LD, Weissman IL, Chan KS. Proc Natl Acad Sci U S A. 2012; 109 (6): 2078-83
• A tri-marker proliferation index predicts biochemical recurrence after surgery for prostate cancer. Malhotra S, Lapointe J, Salari K, Higgins JP, Ferrari M, Montgomery K, van de Rijn M, Brooks JD, Pollack JR. PLoS One. 2011; 6 (5): e20293
• CSF1 expression in nongynecological leiomyosarcoma is associated with increased tumor angiogenesis. Espinosa I, Edris B, Lee CH, Cheng HW, Gilks CB, Wang Y, Montgomery KD, Varma S, Li R, Marinelli RJ, West RB, Nielsen T, Beck AH, van de Rijn M. Am J Pathol. 2011; 179 (4): 2100-7
• Endogenous versus tumor-specific host response to breast carcinoma: a study of stromal response in synchronous breast primaries and biopsy site changes. Wu JM, Beck AH, Pate LL, Witten D, Zhu SX, Montgomery KD, Allison KH, van de Rijn M, West RB. Clin Cancer Res. 2011; 17 (3): 437-46
• Expression of subtype-specific group 1 leiomyosarcoma markers in a wide variety of sarcomas by gene expression analysis and immunohistochemistry. Mills AM, Beck AH, Montgomery KD, Zhu SX, Espinosa I, Lee CH, Subramanian S, Fletcher CD, van de Rijn M, West RB. Am J Surg Pathol. 2011; 35 (4): 583-9
• SMURF1 amplification promotes invasiveness in pancreatic cancer. Kwei KA, Shain AH, Bair R, Montgomery K, Karikari CA, van de Rijn M, Hidalgo M, Maitra A, Bashyam MD, Pollack JR. PLoS One. 2011; 6 (8): e23924
• Systematic analysis of breast cancer morphology uncovers stromal features associated with survival. Beck AH, Sangoi AR, Leung S, Marinelli RJ, Nielsen TO, van de Vijver MJ, West RB, van de Rijn M, Koller D. Sci Transl Med. 2011; 3 (108): 108ra113
• 3'-end sequencing for expression quantification (3SEQ) from archival tumor samples. Beck AH, Weng Z, Witten DM, Zhu S, Foley JW, Lacroute P, Smith CL, Tibshirani R, van de Rijn M, Sidow A, West RB. PLoS One. 2010; 5 (1): e8768
• Analysis of stromal signatures in the tumor microenvironment of ductal carcinoma in situ. Sharma M, Beck AH, Webster JA, Espinosa I, Montgomery K, Varma S, van de Rijn M, Jensen KC, West RB. Breast Cancer Res Treat. 2010; 123 (2): 397-404
• DOG1 for the diagnosis of gastrointestinal stromal tumor (GIST): Comparison between 2 different antibodies. Lopes LF, West RB, Bacchi LM, van de Rijn M, Bacchi CE. Appl Immunohistochem Mol Morphol. 2010; 18 (4): 333-7
• Discovery of molecular subtypes in leiomyosarcoma through integrative molecular profiling. Beck AH, Lee CH, Witten DM, Gleason BC, Edris B, Espinosa I, Zhu S, Li R, Montgomery KD, Marinelli RJ, Tibshirani R, Hastie T, Jablons DM, Rubin BP, Fletcher CD, West RB, van de Rijn M. Oncogene. 2010; 29 (6): 845-54
• Gene expression profiling for the investigation of soft tissue sarcoma pathogenesis and the identification of diagnostic, prognostic, and predictive biomarkers. Beck AH, West RB, van de Rijn M. Virchows Arch. 2010; 456 (2): 141-51
• Human melanoma-initiating cells express neural crest nerve growth factor receptor CD271. Boiko AD, Razorenova OV, van de Rijn M, Swetter SM, Johnson DL, Ly DP, Butler PD, Yang GP, Joshua B, Kaplan MJ, Longaker MT, Weissman IL. Nature. 2010; 466 (7302): 133-7
• Variations in stromal signatures in breast and colorectal cancer metastases. Webster JA, Beck AH, Sharma M, Espinosa I, Weigelt B, Schreuder M, Montgomery KD, Jensen KC, van de Rijn M, West R. J Pathol. 2010; 222 (2): 158-65
• Coordinate expression of colony-stimulating factor-1 and colony-stimulating factor-1-related proteins is associated with poor prognosis in gynecological and nongynecological leiomyosarcoma. Espinosa I, Beck AH, Lee CH, Zhu S, Montgomery KD, Marinelli RJ, Ganjoo KN, Nielsen TO, Gilks CB, West RB, van de Rijn M. Am J Pathol. 2009; 174 (6): 2347-56
• Identification, molecular characterization, clinical prognosis, and therapeutic targeting of human bladder tumor-initiating cells. Chan KS, Espinosa I, Chao M, Wong D, Ailles L, Diehn M, Gill H, Presti J, Chang HY, van de Rijn M, Shortliffe L, Weissman IL. Proc Natl Acad Sci U S A. 2009; 106 (33): 14016-21
• LC3-mediated fibronectin mRNA translation induces fibrosarcoma growth by increasing connective tissue growth factor. Ying L, Lau A, Alvira CM, West R, Cann GM, Zhou B, Kinnear C, Jan E, Sarnow P, Van de Rijn M, Rabinovitch M. J Cell Sci. 2009; 122 (Pt 9): 1441-51
• The macrophage colony-stimulating factor 1 response signature in breast carcinoma. Beck AH, Espinosa I, Edris B, Li R, Montgomery K, Zhu S, Varma S, Marinelli RJ, van de Rijn M, West RB. Clin Cancer Res. 2009; 15 (3): 778-87
• A novel monoclonal antibody against DOG1 is a sensitive and specific marker for gastrointestinal stromal tumors. Espinosa I, Lee CH, Kim MK, Rouse BT, Subramanian S, Montgomery K, Varma S, Corless CL, Heinrich MC, Smith KS, Wang Z, Rubin B, Nielsen TO, Seitz RS, Ross DT, West RB, Cleary ML, van de Rijn M. Am J Surg Pathol. 2008; 32 (2): 210-8
• A systems biology approach to anatomic diversity of skin. Rinn JL, Wang JK, Liu H, Montgomery K, van de Rijn M, Chang HY. J Invest Dermatol. 2008; 128 (4): 776-82
• Characterization of a novel anti-fatty acid synthase (FASN) antiserum in breast tissue. Jensen KC, Schaeffer DF, Cheang M, Montgomery K, West RB, Gilks CB, Ross D, Turashvili G, Schnitt S, van de Rijn M. Mod Pathol. 2008; 21 (12): 1413-20
• 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. 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. Am J Surg Pathol. 2008; 32 (10): 1513-22
• Gene expression profiling identifies p63 as a diagnostic marker for giant cell tumor of the bone. Lee CH, Espinosa I, Jensen KC, Subramanian S, Zhu SX, Varma S, Montgomery KD, Nielsen TO, van de Rijn M, West RB. Mod Pathol. 2008; 21 (5): 531-9
• Genomic profiling identifies GATA6 as a candidate oncogene amplified in pancreatobiliary cancer. Kwei KA, Bashyam MD, Kao J, Ratheesh R, Reddy EC, Kim YH, Montgomery K, Giacomini CP, Choi YL, Chatterjee S, Karikari CA, Salari K, Wang P, Hernandez-Boussard T, Swarnalata G, van de Rijn M, Maitra A, Pollack JR. PLoS Genet. 2008; 4 (5): e1000081
• Immunohistochemical and biogenetic features of diffuse-type tenosynovial giant cell tumors: the potential roles of cyclin A, P53, and deletion of 15q in sarcomatous transformation. Huang HY, West RB, Tzeng CC, van de Rijn M, Wang JW, Chou SC, Huang WW, Eng HL, Lin CN, Yu SC, Wu JM, Lu CC, Li CF. Clin Cancer Res. 2008; 14 (19): 6023-32
• MicroRNA expression signature of human sarcomas. Subramanian S, Lui WO, Lee CH, Espinosa I, Nielsen TO, Heinrich MC, Corless CL, Fire AZ, van de Rijn M. Oncogene. 2008; 27 (14): 2015-26
• Prognostic significance of macrophage infiltration in leiomyosarcomas. 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. Clin Cancer Res. 2008; 14 (5): 1423-30
• The Stanford Tissue Microarray Database. 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. Nucleic Acids Res. 2008; 36 (Database issue): D871-7
• The fibromatosis signature defines a robust stromal response in breast carcinoma. Beck AH, Espinosa I, Gilks CB, van de Rijn M, West RB. Lab Invest. 2008; 88 (6): 591-601
• hCAP-D3 expression marks a prostate cancer subtype with favorable clinical behavior and androgen signaling signature. Lapointe J, Malhotra S, Higgins JP, Bair E, Thompson M, Salari K, Giacomini CP, Ferrari M, Montgomery K, Tibshirani R, van de Rijn M, Brooks JD, Pollack JR. Am J Surg Pathol. 2008; 32 (2): 205-9
• A variant TMPRSS2 isoform and ERG fusion product in prostate cancer with implications for molecular diagnosis. Lapointe J, Kim YH, Miller MA, Li C, Kaygusuz G, van de Rijn M, Huntsman DG, Brooks JD, Pollack JR. Mod Pathol. 2007; 20 (4): 467-73
• Experimental approaches to the study of cancer-stroma interactions: recent findings suggest a pivotal role for stroma in carcinogenesis. West RB, van de Rijn M. Lab Invest. 2007; 87 (10): 967-70
• Gene expression patterns in pancreatic tumors, cells and tissues. Lowe AW, Olsen M, Hao Y, Lee SP, Taek Lee K, Chen X, van de Rijn M, Brown PO. PLoS One. 2007; 2 (3): e323
• Oncogenic regulators and substrates of the anaphase promoting complex/cyclosome are frequently overexpressed in malignant tumors. Lehman NL, Tibshirani R, Hsu JY, Natkunam Y, Harris BT, West RB, Masek MA, Montgomery K, van de Rijn M, Jackson PK. Am J Pathol. 2007; 170 (5): 1793-805
• Placental S100 (S100P) and GATA3: markers for transitional epithelium and urothelial carcinoma discovered by complementary DNA microarray. Higgins JP, Kaygusuz G, Wang L, Montgomery K, Mason V, Zhu SX, Marinelli RJ, Presti JC, van de Rijn M, Brooks JD. Am J Surg Pathol. 2007; 31 (5): 673-80
• TLE1 as a diagnostic immunohistochemical marker for synovial sarcoma emerging from gene expression profiling studies. Terry J, Saito T, Subramanian S, Ruttan C, Antonescu CR, Goldblum JR, Downs-Kelly E, Corless CL, Rubin BP, van de Rijn M, Ladanyi M, Nielsen TO. Am J Surg Pathol. 2007; 31 (2): 240-6
• The utility of PAX5 immunohistochemistry in the diagnosis of undifferentiated malignant neoplasms. Jensen KC, Higgins JP, Montgomery K, Kaygusuz G, van de Rijn M, Natkunam Y. Mod Pathol. 2007; 20 (8): 871-7
• Translocation and expression of CSF1 in pigmented villonodular synovitis, tenosynovial giant cell tumor, rheumatoid arthritis and other reactive synovitides. Cupp JS, Miller MA, Montgomery KD, Nielsen TO, O'Connell JX, Huntsman D, van de Rijn M, Gilks CB, West RB. Am J Surg Pathol. 2007; 31 (6): 970-6
• A landscape effect in tenosynovial giant-cell tumor from activation of CSF1 expression by a translocation in a minority of tumor cells. 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. Proc Natl Acad Sci U S A. 2006; 103 (3): 690-5
• Bone morphogenetic protein antagonist gremlin 1 is widely expressed by cancer-associated stromal cells and can promote tumor cell proliferation. Sneddon JB, Zhen HH, Montgomery K, van de Rijn M, Tward AD, West R, Gladstone H, Chang HY, Morganroth GS, Oro AE, Brown PO. Proc Natl Acad Sci U S A. 2006; 103 (40): 14842-7
• Genetics of soft tissue tumors. van de Rijn M, Fletcher JA. Annu Rev Pathol. 2006: 1 435-66
• Ossifying fibromyxoid tumor of soft parts presenting as a scalp cyst. Seykora JT, Kutcher C, van de Rijn M, Dzubow L, Junkins-Hopkins J, Ioffreda M. J Cutan Pathol. 2006; 33 (8): 569-72
• The role of microarray technologies in the study of soft tissue tumours. West RB, van de Rijn M. Histopathology. 2006; 48 (1): 22-31
• Upregulation of histidine decarboxylase expression in superficial cortical nephrons during pregnancy in mice and women. Morgan TK, Montgomery K, Mason V, West RB, Wang L, van de Rijn M, Higgins JP. Kidney Int. 2006; 70 (2): 306-14
• A DNA microarray survey of gene expression in normal human tissues. Shyamsundar R, Kim YH, Higgins JP, Montgomery K, Jorden M, Sethuraman A, van de Rijn M, Botstein D, Brown PO, Pollack JR. Genome Biol. 2005; 6 (3): R22
• A novel method for making "tissue" microarrays from small numbers of suspension cells. Montgomery K, Zhao S, van de Rijn M, Natkunam Y. Appl Immunohistochem Mol Morphol. 2005; 13 (1): 80-4
• Determination of stromal signatures in breast carcinoma. West RB, Nuyten DS, Subramanian S, Nielsen TO, Corless CL, Rubin BP, Montgomery K, Zhu S, Patel R, Hernandez-Boussard T, Goldblum JR, Brown PO, van de Vijver M, van de Rijn M. PLoS Biol. 2005; 3 (6): e187
• Distinction between serous tumors of low malignant potential and serous carcinomas based on global mRNA expression profiling. Gilks CB, Vanderhyden BC, Zhu S, van de Rijn M, Longacre TA. Gynecol Oncol. 2005; 96 (3): 684-94
• Familial gastrointestinal stromal tumor syndrome: phenotypic and molecular features in a kindred. Li FP, Fletcher JA, Heinrich MC, Garber JE, Sallan SE, Curiel-Lewandrowski C, Duensing A, van de Rijn M, Schnipper LE, Demetri GD. J Clin Oncol. 2005; 23 (12): 2735-43
• Robustness, scalability, and integration of a wound-response gene expression signature in predicting breast cancer survival. Chang HY, Nuyten DS, Sneddon JB, Hastie T, Tibshirani R, Sørlie T, Dai H, He YD, van't Veer LJ, Bartelink H, van de Rijn M, Brown PO, van de Vijver MJ. Proc Natl Acad Sci U S A. 2005; 102 (10): 3738-43
• Screening of tissue microarrays for ubiquitin proteasome system components in tumors. Lehman NL, van de Rijn M, Jackson PK. Methods Enzymol. 2005: 399 334-55
• TMA-Combiner, a simple software tool to permit analysis of replicate cores on tissue microarrays. Liu CL, Montgomery KD, Natkunam Y, West RB, Nielsen TO, Cheang MC, Turbin DA, Marinelli RJ, van de Rijn M, Higgins JP. Mod Pathol. 2005; 18 (12): 1641-8
• The gene expression profile of extraskeletal myxoid chondrosarcoma. 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. J Pathol. 2005; 206 (4): 433-44
• The retinoic acid synthesis gene ALDH1a2 is a candidate tumor suppressor in prostate cancer. Kim H, Lapointe J, Kaygusuz G, Ong DE, Li C, van de Rijn M, Brooks JD, Pollack JR. Cancer Res. 2005; 65 (18): 8118-24
• Apo D in soft tissue tumors: a novel marker for dermatofibrosarcoma protuberans. West RB, Harvell J, Linn SC, Liu CL, Prapong W, Hernandez-Boussard T, Montgomery K, Nielsen TO, Rubin BP, Patel R, Goldblum JR, Brown PO, van de Rijn M, Lui CL. Am J Surg Pathol. 2004; 28 (8): 1063-9
• Applications of microarrays to histopathology. van de Rijn M, Gilks CB. Histopathology. 2004; 44 (2): 97-108
• Gastrointestinal stromal tumors (GISTs) with KIT and PDGFRA mutations have distinct gene expression profiles. Subramanian S, West RB, Corless CL, Ou W, Rubin BP, Chu KM, Leung SY, Yuen ST, Zhu S, Hernandez-Boussard T, Montgomery K, Nielsen TO, Patel RM, Goldblum JR, Heinrich MC, Fletcher JA, van de Rijn M. Oncogene. 2004; 23 (47): 7780-90
• Gene expression in the normal adult human kidney assessed by complementary DNA microarray. Higgins JP, Wang L, Kambham N, Montgomery K, Mason V, Vogelmann SU, Lemley KV, Brown PO, Brooks JD, van de Rijn M. Mol Biol Cell. 2004; 15 (2): 649-56
• Gene expression profiling identifies clinically relevant subtypes of prostate cancer. Lapointe J, Li C, Higgins JP, van de Rijn M, Bair E, Montgomery K, Ferrari M, Egevad L, Rayford W, Bergerheim U, Ekman P, DeMarzo AM, Tibshirani R, Botstein D, Brown PO, Brooks JD, Pollack JR. Proc Natl Acad Sci U S A. 2004; 101 (3): 811-6
• Gene expression signature of fibroblast serum response predicts human cancer progression: similarities between tumors and wounds. Chang HY, Sneddon JB, Alizadeh AA, Sood R, West RB, Montgomery K, Chi JT, van de Rijn M, Botstein D, Brown PO. PLoS Biol. 2004; 2 (2): E7
• Hierarchical clustering analysis of tissue microarray immunostaining data identifies prognostically significant groups of breast carcinoma. Makretsov NA, Huntsman DG, Nielsen TO, Yorida E, Peacock M, Cheang MC, Dunn SE, Hayes M, van de Rijn M, Bajdik C, Gilks CB. Clin Cancer Res. 2004; 10 (18 Pt 1): 6143-51
• High-resolution array-based comparative genomic hybridization for distinguishing paraffin-embedded Spitz nevi and melanomas. Harvell JD, Kohler S, Zhu S, Hernandez-Boussard T, Pollack JR, van de Rijn M. Diagn Mol Pathol. 2004; 13 (1): 22-5
• Immunohistochemical and clinical characterization of the basal-like subtype of invasive breast carcinoma. Nielsen TO, Hsu FD, Jensen K, Cheang M, Karaca G, Hu Z, Hernandez-Boussard T, Livasy C, Cowan D, Dressler L, Akslen LA, Ragaz J, Gown AM, Gilks CB, van de Rijn M, Perou CM. Clin Cancer Res. 2004; 10 (16): 5367-74
• Novel endothelial cell markers in hepatocellular carcinoma. Chen X, Higgins J, Cheung ST, Li R, Mason V, Montgomery K, Fan ST, van de Rijn M, So S. Mod Pathol. 2004; 17 (10): 1198-210
• The novel marker, DOG1, is expressed ubiquitously in gastrointestinal stromal tumors irrespective of KIT or PDGFRA mutation status. West RB, Corless CL, Chen X, Rubin BP, Subramanian S, Montgomery K, Zhu S, Ball CA, Nielsen TO, Patel R, Goldblum JR, Brown PO, Heinrich MC, van de Rijn M. Am J Pathol. 2004; 165 (1): 107-13
• Endothelial cell diversity revealed by global expression profiling. Chi JT, Chang HY, Haraldsen G, Jahnsen FL, Troyanskaya OG, Chang DS, Wang Z, Rockson SG, van de Rijn M, Botstein D, Brown PO. Proc Natl Acad Sci U S A. 2003; 100 (19): 10623-8
• Expression of FKBP12 in benign and malignant vascular endothelium: an immunohistochemical study on conventional sections and tissue microarrays. Higgins JP, Montgomery K, Wang L, Domanay E, Warnke RA, Brooks JD, van de Rijn M. Am J Surg Pathol. 2003; 27 (1): 58-64
• Gene expression patterns and gene copy number changes in dermatofibrosarcoma protuberans. Linn SC, West RB, Pollack JR, Zhu S, Hernandez-Boussard T, Nielsen TO, Rubin BP, Patel R, Goldblum JR, Siegmund D, Botstein D, Brown PO, Gilks CB, van de Rijn M. Am J Pathol. 2003; 163 (6): 2383-95
• Gene expression patterns in ovarian carcinomas. Schaner ME, Ross DT, Ciaravino G, Sorlie T, Troyanskaya O, Diehn M, Wang YC, Duran GE, Sikic TL, Caldeira S, Skomedal H, Tu IP, Hernandez-Boussard T, Johnson SW, O'Dwyer PJ, Fero MJ, Kristensen GB, Borresen-Dale AL, Hastie T, Tibshirani R, van de Rijn M, Teng NN, Longacre TA, Botstein D, Brown PO, Sikic BI. Mol Biol Cell. 2003; 14 (11): 4376-86
• Gene expression patterns in renal cell carcinoma assessed by complementary DNA microarray. Higgins JP, Shinghal R, Gill H, Reese JH, Terris M, Cohen RJ, Fero M, Pollack JR, van de Rijn M, Brooks JD. Am J Pathol. 2003; 162 (3): 925-32
• Hep par 1 antibody stain for the differential diagnosis of hepatocellular carcinoma: 676 tumors tested using tissue microarrays and conventional tissue sections. Fan Z, van de Rijn M, Montgomery K, Rouse RV. Mod Pathol. 2003; 16 (2): 137-44
• Tissue microarray validation of epidermal growth factor receptor and SALL2 in synovial sarcoma with comparison to tumors of similar histology. Nielsen TO, Hsu FD, O'Connell JX, Gilks CB, Sorensen PH, Linn S, West RB, Liu CL, Botstein D, Brown PO, van de Rijn M. Am J Pathol. 2003; 163 (4): 1449-56
• Challenges in developing a molecular characterization of cancer. Pollack JR, Van de Rijn M, Botstein D. Semin Oncol. 2002; 29 (3): 280-5
• Diversity, topographic differentiation, and positional memory in human fibroblasts. Chang HY, Chi JT, Dudoit S, Bondre C, van de Rijn M, Botstein D, Brown PO. Proc Natl Acad Sci U S A. 2002; 99 (20): 12877-82
• Expression of cytokeratins 17 and 5 identifies a group of breast carcinomas with poor clinical outcome. van de Rijn M, Perou CM, Tibshirani R, Haas P, Kallioniemi O, Kononen J, Torhorst J, Sauter G, Zuber M, Köchli OR, Mross F, Dieterich H, Seitz R, Ross D, Botstein D, Brown P. Am J Pathol. 2002; 161 (6): 1991-6
• Gene expression patterns in human liver cancers. Chen X, Cheung ST, So S, Fan ST, Barry C, Higgins J, Lai KM, Ji J, Dudoit S, Ng IO, Van De Rijn M, Botstein D, Brown PO. Mol Biol Cell. 2002; 13 (6): 1929-39
• Gene expression studies on soft tissue tumors. van de Rijn M, Rubin BP. Am J Pathol. 2002; 161 (5): 1531-4
• Molecular characterisation of soft tissue tumours: a gene expression study. Nielsen TO, West RB, Linn SC, Alter O, Knowling MA, O'Connell JX, Zhu S, Fero M, Sherlock G, Pollack JR, Brown PO, Botstein D, van de Rijn M. Lancet. 2002; 359 (9314): 1301-7
• Software tools for high-throughput analysis and archiving of immunohistochemistry staining data obtained with tissue microarrays. Liu CL, Prapong W, Natkunam Y, Alizadeh A, Montgomery K, Gilks CB, van de Rijn M. Am J Pathol. 2002; 161 (5): 1557-65
• Tissue microarrays are an effective quality assurance tool for diagnostic immunohistochemistry. Hsu FD, Nielsen TO, Alkushi A, Dupuis B, Huntsman D, Liu CL, van de Rijn M, Gilks CB. Mod Pathol. 2002; 15 (12): 1374-80
• Analysis of MUM1/IRF4 protein expression using tissue microarrays and immunohistochemistry. Natkunam Y, Warnke RA, Montgomery K, Falini B, van De Rijn M. Mod Pathol. 2001; 14 (7): 686-94
• Diversity of gene expression in adenocarcinoma of the lung. Garber ME, Troyanskaya OG, Schluens K, Petersen S, Thaesler Z, Pacyna-Gengelbach M, van de Rijn M, Rosen GD, Perou CM, Whyte RI, Altman RB, Brown PO, Botstein D, Petersen I. Proc Natl Acad Sci U S A. 2001; 98 (24): 13784-9
• Gene expression patterns of breast carcinomas distinguish tumor subclasses with clinical implications. Sørlie T, Perou CM, Tibshirani R, Aas T, Geisler S, Johnsen H, Hastie T, Eisen MB, van de Rijn M, Jeffrey SS, Thorsen T, Quist H, Matese JC, Brown PO, Botstein D, Lønning PE, Børresen-Dale AL. Proc Natl Acad Sci U S A. 2001; 98 (19): 10869-74
• Orbital hemangiopericytoma and solitary fibrous tumor: a morphologic continuum. Goldsmith JD, van de Rijn M, Syed N. Int J Surg Pathol. 2001; 9 (4): 295-302
• Towards a novel classification of human malignancies based on gene expression patterns. Alizadeh AA, Ross DT, Perou CM, van de Rijn M. J Pathol. 2001; 195 (1): 41-52
• CD40L, but not CD40, is required for allergen-induced bronchial hyperresponsiveness in mice. Mehlhop PD, van de Rijn M, Brewer JP, Kisselgof AB, Geha RS, Oettgen HC, Martin TR. Am J Respir Cell Mol Biol. 2000; 23 (5): 646-51
• Immunoblot analysis of CD34 expression in histologically diverse neoplasms. Natkunam Y, Rouse RV, Zhu S, Fisher C, van De Rijn M. Am J Pathol. 2000; 156 (1): 21-7
• Molecular portraits of human breast tumours. Perou CM, Sørlie T, Eisen MB, van de Rijn M, Jeffrey SS, Rees CA, Pollack JR, Ross DT, Johnsen H, Akslen LA, Fluge O, Pergamenschikov A, Williams C, Zhu SX, Lønning PE, Børresen-Dale AL, Brown PO, Botstein D. Nature. 2000; 406 (6797): 747-52
• Peripheral T-cell lymphoma complicated by a proliferation of large B cells. Higgins JP, van de Rijn M, Jones CD, Zehnder JL, Warnke RA. Am J Clin Pathol. 2000; 114 (2): 236-47
• Systematic variation in gene expression patterns in human cancer cell lines. Ross DT, Scherf U, Eisen MB, Perou CM, Rees C, Spellman P, Iyer V, Jeffrey SS, Van de Rijn M, Waltham M, Pergamenschikov A, Lee JC, Lashkari D, Shalon D, Myers TG, Weinstein JN, Botstein D, Brown PO. Nat Genet. 2000; 24 (3): 227-35
• A population based, case control study of non-Hodgkin's lymphoma in patients with rheumatoid arthritis. Kamel OW, Holly EA, van de Rijn M, Lele C, Sah A. J Rheumatol. 1999; 26 (8): 1676-80
• Absence of SYT-SSX fusion products in soft tissue tumors other than synovial sarcoma. van de Rijn M, Barr FG, Collins MH, Xiong QB, Fisher C. Am J Clin Pathol. 1999; 112 (1): 43-9
• Colonic adenocarcinoma presenting as supraclavicular lymphadenopathy in a 26-yr-old man: a case report. Krasinskas AM, Rosato EF, Partington MT, Whalen CJ, Reynolds C, van de Rijn M, Montone KT. Am J Gastroenterol. 1999; 94 (1): 282-3
• Detection of a variant SYT-SSX1 fusion in a case of predominantly epithelioid synovial sarcoma. Sanders ME, van de Rijn M, Barr FG. Mol Diagn. 1999; 4 (1): 65-70
• Distinctive gene expression patterns in human mammary epithelial cells and breast cancers. Perou CM, Jeffrey SS, van de Rijn M, Rees CA, Eisen MB, Ross DT, Pergamenschikov A, Williams CF, Zhu SX, Lee JC, Lashkari D, Shalon D, Brown PO, Botstein D. Proc Natl Acad Sci U S A. 1999; 96 (16): 9212-7
• Poorly differentiated synovial sarcoma: an analysis of clinical, pathologic, and molecular genetic features. van de Rijn M, Barr FG, Xiong QB, Hedges M, Shipley J, Fisher C. Am J Surg Pathol. 1999; 23 (1): 106-12
• A murine model of allergic rhinitis: studies on the role of IgE in pathogenesis and analysis of the eosinophil influx elicited by allergen and eotaxin. van de Rijn M, Mehlhop PD, Judkins A, Rothenberg ME, Luster AD, Oettgen HC. J Allergy Clin Immunol. 1998; 102 (1): 65-74
• Immunohistochemical analysis of gel-transferred cells in cytologic preparations following smear division. Hunt JL, van de Rijn M, Gupta PK. Diagn Cytopathol. 1998; 18 (5): 377-80
• Interleukin-9 promotes allergen-induced eosinophilic inflammation and airway hyperresponsiveness in transgenic mice. McLane MP, Haczku A, van de Rijn M, Weiss C, Ferrante V, MacDonald D, Renauld JC, Nicolaides NC, Holroyd KJ, Levitt RC. Am J Respir Cell Mol Biol. 1998; 19 (5): 713-20
• Sensitivity and specificity of antibodies on necrotic tumor tissue. Judkins AR, Montone KT, LiVolsi VA, van de Rijn M. Am J Clin Pathol. 1998; 110 (5): 641-6
• Allergen-induced bronchial hyperreactivity and eosinophilic inflammation occur in the absence of IgE in a mouse model of asthma. Mehlhop PD, van de Rijn M, Goldberg AB, Brewer JP, Kurup VP, Martin TR, Oettgen HC. Proc Natl Acad Sci U S A. 1997; 94 (4): 1344-9
• CD5 immunostaining of lymphoid neoplasms in paraffin sections. Salhany KE, van de Rijn M, Montone KT, Tomaszewski JE. Am J Clin Pathol. 1997; 107 (4): 496; author reply 497
• Extranodal head and neck lymphomas in Guatemala: high frequency of Epstein-Barr virus-associated sinonasal lymphomas. van de Rijn M, Bhargava V, Molina-Kirsch H, Carlos-Bregni R, Warnke RA, Cleary ML, Kamel OW. Hum Pathol. 1997; 28 (7): 834-9
• Primary low-grade endometrial B-cell lymphoma. van de Rijn M, Kamel OW, Chang PP, Lee A, Warnke RA, Salhany KE. Am J Surg Pathol. 1997; 21 (2): 187-94
• Radiation-associated synovial sarcoma. van de Rijn M, Barr FG, Xiong QB, Salhany KE, Fraker DL, Fisher C. Hum Pathol. 1997; 28 (11): 1325-8
• Clonality of Epstein-Barr virus in lymphoproliferative disorders in patients treated with immunosuppressive therapy for rheumatoid arthritis. van de Rijn M, Kamel OW. J Clin Oncol. 1996; 14 (11): 3050-1
• Eotaxin triggers eosinophil-selective chemotaxis and calcium flux via a distinct receptor and induces pulmonary eosinophilia in the presence of interleukin 5 in mice. Rothenberg ME, Ownbey R, Mehlhop PD, Loiselle PM, van de Rijn M, Bonventre JV, Oettgen HC, Leder P, Luster AD. Mol Med. 1996; 2 (3): 334-48
• Epstein-Barr virus clonality in lymphomas occurring in patients with rheumatoid arthritis. van de Rijn M, Cleary ML, Variakojis D, Warnke RA, Chang PP, Kamel OW. Arthritis Rheum. 1996; 39 (4): 638-42
• Hodgkin's disease and lymphoproliferations resembling Hodgkin's disease in patients receiving long-term low-dose methotrexate therapy. Kamel OW, Weiss LM, van de Rijn M, Colby TV, Kingma DW, Jaffe ES. Am J Surg Pathol. 1996; 20 (10): 1279-87
• Pregnancy-associated lymphomas. A clinicopathologic study. Gelb AB, van de Rijn M, Warnke RA, Kamel OW. Cancer. 1996; 78 (2): 304-10
• RANTES chemokine expression in diseased and normal human tissues. von Luettichau I, Nelson PJ, Pattison JM, van de Rijn M, Huie P, Warnke R, Wiedermann CJ, Stahl RA, Sibley RK, Krensky AM. Cytokine. 1996; 8 (1): 89-98
• Clonal VDJ recombination of the immunoglobulin heavy chain gene by PCR in classical Hodgkin's disease. Kamel OW, Chang PP, Hsu FJ, Dolezal MV, Warnke RA, van de Rijn M. Am J Clin Pathol. 1995; 104 (4): 419-23
• Cyclosporine and methotrexate for severe rheumatoid arthritis. van de Rijn M, Kamel OW. N Engl J Med. 1995; 333 (23): 1568; author reply 1568-9
• Detection of Epstein-Barr virus in cardiac biopsies of heart transplant patients with lymphoproliferative disorders. Hanasono MM, Kamel OW, Chang PP, Rizeq MN, Billingham ME, van de Rijn M. Transplantation. 1995; 60 (5): 471-3
• Frequent presence of the Epstein-Barr virus in inflammatory pseudotumor. Arber DA, Kamel OW, van de Rijn M, Davis RE, Medeiros LJ, Jaffe ES, Weiss LM. Hum Pathol. 1995; 26 (10): 1093-8
• Immunosuppression-associated lymphoproliferative disorders in rheumatic patients. Kamel OW, van de Rijn M, Hanasono MM, Warnke RA. Leuk Lymphoma. 1995; 16 (5-6): 363-8
• Virus-associated hemophagocytic syndrome characterized by clonal Epstein-Barr virus genome. Dolezal MV, Kamel OW, van de Rijn M, Cleary ML, Sibley RK, Warnke RA. Am J Clin Pathol. 1995; 103 (2): 189-94
• bcl-2 expression in melanocytic nevi. Insights into the biology of dermal maturation. Morales-Ducret CR, van de Rijn M, Smoller BR. Arch Dermatol. 1995; 131 (8): 915-8
• bcl-2 expression in primary malignancies of the skin. Morales-Ducret CR, van de Rijn M, LeBrun DP, Smoller BR. Arch Dermatol. 1995; 131 (8): 909-12
• A comparative immunohistochemical study of uterine smooth muscle neoplasms with emphasis on the epithelioid variant. Rizeq MN, van de Rijn M, Hendrickson MR, Rouse RV. Hum Pathol. 1994; 25 (7): 671-7
• Bcl-2 immunoreactivity in breast carcinoma correlates with hormone receptor positivity. Bhargava V, Kell DL, van de Rijn M, Warnke RA. Am J Pathol. 1994; 145 (3): 535-40
• CD34 expression by gastrointestinal tract stromal tumors. van de Rijn M, Hendrickson MR, Rouse RV. Hum Pathol. 1994; 25 (8): 766-71
• Epstein-Barr virus-associated natural killer-large granular lymphocyte leukemia. Gelb AB, van de Rijn M, Regula DP, Cornbleet JP, Kamel OW, Horoupian DS, Cleary ML, Warnke RA. Hum Pathol. 1994; 25 (9): 953-60
• Expression of CD34 by solitary fibrous tumors of the pleura, mediastinum, and lung. van de Rijn M, Lombard CM, Rouse RV. Am J Surg Pathol. 1994; 18 (8): 814-20
• Lymphoid neoplasms in patients with rheumatoid arthritis and dermatomyositis: frequency of Epstein-Barr virus and other features associated with immunosuppression. Kamel OW, van de Rijn M, LeBrun DP, Weiss LM, Warnke RA, Dorfman RF. Hum Pathol. 1994; 25 (7): 638-43
• bcl-2 expression reliably distinguishes trichoepitheliomas from basal cell carcinomas. Smoller BR, Van de Rijn M, Lebrun D, Warnke RA. Br J Dermatol. 1994; 131 (1): 28-31
• Brief report: reversible lymphomas associated with Epstein-Barr virus occurring during methotrexate therapy for rheumatoid arthritis and dermatomyositis. Kamel OW, van de Rijn M, Weiss LM, Del Zoppo GJ, Hench PK, Robbins BA, Montgomery PG, Warnke RA, Dorfman RF. N Engl J Med. 1993; 328 (18): 1317-21
• Autopsy findings after coronary rotational atherectomy. van de Rijn M, Regula DP, Billingham M. Am J Cardiovasc Pathol. 1990; 3 (4): 301-4
• Biosynthesis pathway of gp90MEL-14, the mouse lymph node-specific homing receptor. van de Rijn M, Weissman IL, Siegelman M. J Immunol. 1990; 145 (5): 1477-82
• Mouse hematopoietic stem-cell antigen Sca-1 is a member of the Ly-6 antigen family. van de Rijn M, Heimfeld S, Spangrude GJ, Weissman IL. Proc Natl Acad Sci U S A. 1989; 86 (12): 4634-8
• Mouse lymph node homing receptor cDNA clone encodes a glycoprotein revealing tandem interaction domains. Siegelman MH, van de Rijn M, Weissman IL. Science. 1989; 243 (4895): 1165-72
• Alloantigen recognition is preceded by nonspecific adhesion of cytotoxic T cells and target cells. Spits H, van Schooten W, Keizer H, van Seventer G, van de Rijn M, Terhorst C, de Vries JE. Science. 1986; 232 (4748): 403-5
• Isolation and purification of the human thymocyte antigens T6 and M241. Lerch PG, van de Rijn M, Smart JE, Knowles RW, Terhorst C. Mol Immunol. 1986; 23 (2): 131-9
• Association between the human thymic differentiation antigens T6 and T8. Snow PM, Van de Rijn M, Terhorst C. Eur J Immunol. 1985; 15 (5): 529-32
• Beta 2-microglobulin from serum associates with MHC class I antigens on the surface of cultured cells. Bernabeu C, van de Rijn M, Lerch PG, Terhorst CP. Nature. 1984 Apr 12-18; 308 (5960): 642-5
• Human cutaneous dendritic cells express two glycoproteins T6 and M241 which are biochemically identical to those found on cortical thymocytes. van de Rijn M, Lerch PG, Bronstein BR, Knowles RW, Bhan AK, Terhorst C. Hum Immunol. 1984; 9 (4): 201-10
• Recognition of HLA-A2 by cytotoxic T lymphocytes after DNA transfer into human and murine cells. van de Rijn M, Bernabeu C, Royer-Pokora B, Weiss J, Seidman JG, de Vries J, Spits H, Terhorst C. Science. 1984; 226 (4678): 1083-5
• Biochemical comparison of the T6 antigen and HLA-A,B antigens. Lerch PG, van de Rijn M, Schrier P, Terhorst C. Hum Immunol. 1983; 6 (1): 13-30
• Expression of the major histocompatibility antigens HLA-A2 and HLA-B7 by DNA-mediated gene transfer. Bernabeu C, Finlay D, van de Rijn M, Maziarz RT, Biro PA, Spits H, de Vries J, Terhorst CP. J Immunol. 1983; 131 (4): 2032-7
• Localization of a gene controlling the expression of the human transferrin receptor to the region q12 leads to qter of chromosome 3. van de Rijn M, Geurts van Kessel AH, Kroezen V, van Agthoven AJ, Verstijnen K, Terhorst C, Hilgers J. Cytogenet Cell Genet. 1983; 36 (3): 525-31
• Structural and functional aspects of the T-cell differentiation antigens T3, T6, and T8. Terhorst C, Borst J, Lerch P, van de Rijn M, Snow P, Spits H, de Vries J. Haematol Blood Transfus. 1983: 28 440-6
• The thymic differentiation markers T6 and M241 are two unusual MHC class I antigens. van de Rijn M, Lerch PG, Knowles RW, Terhorst C. J Immunol. 1983; 131 (2): 851-5