Patrik Edén, Markus Ringnér, Bo Baldetorp, Gunilla Chebil, A Ke Borg, ...
continuous values of prognostic markers in breast
GEOmetadb: powerful alternative search engine for the Gene Expression Omnibus (2008)
Zhu, Yuelin, Davis, Sean, Stephens, Robert, Meltzer, Paul S., Chen, Yidong
The NCBI Gene Expression Omnibus (GEO) represents the largest public repository of microarray data. However, finding data in GEO can be challenging. We have developed GEOmetadb in an attempt to make...
Chen, Hung-I Harry, Hsu, Fang-Han, Jiang, Yuan, Tsai, Mong-Hsun, Yang, Pan-Chyr, Meltzer, Paul S., ...
Sofia K Gruvberger, Markus Ringnér, Patrik Edén, Åke Borg, Mårten Fernö, Carsten Peterson, ...
Breast Cancer Research Vol 5 No 1 Gruvberger et al.
Yidong Chen, Edward R. Dougherty, L. Bittner, Paul S. Meltzer, Jeffery M. Trent
Ratio statistics of gene expression levels and applications to microarray data analysis
GEOquery: a bridge between the Gene Expression Omnibus (GEO) and BioConductor (2007)
Microarray technology has become a standard molecular biology tool. Experimental data have been generated on a huge number of organisms, tissue types, treatment conditions and disease states. The...
Genome-Wide Analysis of Menin Binding Provides Insights into MEN1 Tumorigenesis (2006)
Peter C. Scacheri, Sean Davis, Duncan T. Odom, Gregory E. Crawford, Stacie Perkins, Mohamad J. Halawi, ...
Multiple endocrine neoplasia type I (MEN1) is a familial cancer syndrome characterized primarily by tumors of multiple endocrine glands. The gene for MEN1 encodes a ubiquitously expressed tumor...
Genome-Wide Analysis of Menin Binding Provides Insights to MEN1 Tumorigenesis (2006)
Peter C Scacheri, Sean Davis, Duncan T Odom, Gregory E Crawford, Stacie Perkins, Mohamad J Halawi, ...
Multiple Endocrine Neoplasia, type I (MEN1) is a familial cancer syndrome characterized primarily by tumors of multiple endocrine glands. The gene for MEN1 encodes a ubiquitously expressed tumor...
Gruvberger-Saal, Sofia K, Edén, Patrik, Ringnér, Markus, Baldetorp, Bo, Chebil, Gunilla, Borg, Ake, ...
Abstract is not available
Håkansson, Petra, Segal, David, Lassen, Carin, Gullberg, Urban, Morse, Herbert C, Fioretos, Thoas, ...
Abstract is not available
Hĺkansson, Petra, Segal, David, Lassen, Carin, Gullberg, Urban, Morse III, Herbert, Fioretos, Thoas, ...
ObjectiveThe t(9;22) translocation is associated with more than 95% of cases of chronic myeloid leukemia. The resulting fusion of the BCR and ABL1 loci produces the constitutively active BCR/ABL1...
Hĺkansson, Petra, Segal, David, Lassen, Carin, Gullberg, Urban, Morse III, Herbert, Fioretos, Thoas, ...
Objective: The t(9;22) translocation is associated with more than 95% of cases of chronic myeloid leukemia. The resulting fusion of the BCR and ABL1 loci produces the constitutively active BCR/ABL1...
Anzick, Sarah L, Azorsa, David O, Simons, S Stoney, Meltzer, Paul S
Abstract Background Estrogen signaling plays a critical role in a number of normal physiological processes and has important implications in the treatment of breast cancer. The p160 nuclear receptor...
Expression profiling to predict outcome in breast cancer: the influence of sample selection (2003)
Gruvberger, Sofia K, Ringnér, Markus, Edén, Patrik, Borg, Åke, Fernö, Mårten, Peterson, Carsten, ...
Gene expression profiling of tumors using DNA microarrays is a promising method for predicting prognosis and treatment response in cancer patients. It was recently reported that expression profiles...
Heather E. Cunliffe, Markus Ringnér, Sven Bilke, Robert L. Walker, Jennifer M. Cheung, Yidong Chen, ...
The effects of hormone and growth factor signaling on gene expression contribute significantly to breast tumorigenesis and disease progression; however, the targets of signaling networks associated...
Roberto Bomprezzi, Markus Ringnér, Seungchan Kim, Michael L. Bittner, Javed Khan, Yidong Chen, ...
Gene expression profile in multiple sclerosis
High frequency of BRAF mutations in nevi (2003)
Pollock, Pamela M., Harper, Ursula L., Hansen, Katherine S., Yudt, Laura M., Stark, Mitchell, Robbins, Christiane M., ...
To evaluate the timing of mutations in BRAF (v-raf murine sarcoma viral oncogene homolog B1) during melanocytic neoplasia, we carried out mutation analysis on microdissected melanoma and nevi...
Bomprezzi, Roberto, Ringnér, Markus, Kim, Seungchan, Bittner, Michael L., Khan, Javed, Chen, Yidong, ...
Multiple sclerosis (MS) and other T cell-mediated autoimmune diseases develop in individuals carrying a complex susceptibility trait, probably following exposure to various environmental triggers....
Bomprezzi, Roberto, Ringnér, Markus, Kim, Seungchan, Bittner, Michael L., Khan, Javed, Chen, Yidong, ...
Multiple sclerosis (MS) and other T cell-mediated autoimmune diseases develop in individuals carrying a complex susceptibility trait, probably following exposure to various environmental triggers....
Bomprezzi, Roberto, Ringnér, Markus, Kim, Seungchan, Bittner, Michael L., Khan, Javed, Chen, Yidong, ...
Multiple sclerosis (MS) and other T cell-mediated autoimmune diseases develop in individuals carrying a complex susceptibility trait, probably following exposure to various environmental triggers....
Expression profiling to predict outcome in breast cancer: the influence of sample selection (2002)
Gruvberger, Sofia K, Ringnér, Markus, Edén, Patrik, Borg, Åke, Fernö, Mårten, Peterson, Carsten, ...
Abstract Gene expression profiling of tumors using DNA microarrays is a promising method for predicting prognosis and treatment response in cancer patients. It was recently reported that expression...
Ratio statistics of gene expression levels and applications to microarray data analysis (2002)
Chen, Yidong, Kamat, Vishnu, Dougherty, Edward R., Bittner, Michael L., Meltzer, Paul S., Trent, Jeffery M.
Motivation: Expression-based analysis for large families of genes has recently become possible owing to the development of cDNA microarrays, which allow simultaneous measurement of transcript levels...
Wimmer, K., Zhu, X.X., Lamb, Barbara J., Kuick, Rork, Ambros, P., Kovar, H., ...
Background Amplification of the oncogene MYCN in neuroblastoma has been found to correlate with aggressive tumour growth and is used as a predictor of clinical outcome. The MYCN amplicon is known to...
Sofia Gruvberger, Markus Ringnér, Yidong Chen, Sujatha Panavally, Lao H. Saal, Åke Borg, ...
To investigate the phenotype associated with estrogen receptor � (ER) expression in breast carcinoma, gene expression profiles of 58 nodenegative breast carcinomas discordant for ER status were...
Microdissection and microcloning of chromosomal alterations in human breast cancer (1995)
Collins, Francis S., Diamond, Austin, Guan, X. Y., Trent, Jeffrey M., Weber, Barbara L., Zhang, Ji, ...
The recognition of recurring sites of chromosome changes in malignancies has greatly facilitated the identification of genes implicated in the pathogenesis of human cancers. Based especially upon...
Isolation of YAC insert sequences by representational difference analysis (1995)
Schutte, Mieke, Da Costa, Luis T., Moskaluk, Christopher A., Rozenblum, Ester, Guan, Xiaoping, De Jong, Pieter J., ...
We present a method for the isolation of YAC insert sequences by representational difference analysis (RDA). To achieve maximal representation of the sequences, the amplicons were generated from a...
Generation of band-specific painting probes from a single microdissected chromosome (1993)
Trent, Jeffrey M., Meltzer, Paul S.
We have developed a modified strategy for the generation of regional probes for human chromosomes by microdissection and degenerate oligonucleotide primed PCR. This modification dramatically...
Guan, Xin-Yuan, Meltzer, Paul S., Cao, Jun, Trent, Jeffrey M.
Malignant melanoma is frequently characterized by the deletion of the long arm of chromosome 6 (usually encompassing 6q16-q21). In an effort to saturate this region with DNA markers, microdissection...
Adams, Barbara S., Leung, Kwanyee, Meltzer, Paul S., Lewis, Kathy A., Wagner-McPherson, Caryn, Evans, Glen A., ...
Although NF (nuclear factor)-[kappa]B binds in vitro to several of the [kappa]B regulatory elements found in cellular and viral genes, another DNA binding protein, R[kappa]B, also binds to a related...
Gemmill, Robert M., Mendez, Michael J., Dougherty, Cynthia M., Paulien, Sylvie, Liao, Martha, Mitchell, Deanna, ...
Cytogenetic analysis of liposarcomas has demonstrated that translocation (12;16) (q13.3;p11.2) is characteristic of the myxoid subtype of this adipose tissue tumor. Our previous results suggested...
Liptay, Susanne, Schmid, Roland M., Perkins, Neil D., Meltzer, Paul S., Altherr, Michael R., McPherson, John D., ...
The chromosomal locations of the human genes NFKB1 and NFKB2, which encode two alternative DNA binding subunits of the NF-[kappa]B complex, p105 and p49/p100, respectively, have been determined. p105...
Meese, Eckart U., Witkowski, Colette M., Zoghbi, Huda Y., Stanbridge, Eric J., Meltzer, Paul S., Trent, Jeffrey M.
A somatic cell hybrid mapping panel that defines seven regions of the long arm and one region of the short arm of human chromosome 6 has been developed. Utilizing this panel, 17 NotI boundary clones...
Meese, Eckart U., Meltzer, Paul S., Ferguson, Paul W., Trent, Jeffrey M.
The Alu-polymerase chain reaction (Alu-PCR) was applied to selectively amplify DNA sequences from human chromosome 6 using a single primer (A1) directed to the human Alu consensus sequence. A...
Zwelling, Leonard A., Slovak, Marilyn L., Doroshow, James H., Hinds, Michael, Chan, Diana, Parker, Elizabeth, ...
HT1080/DR4 (DR4) is a doxorubicin-resistant human fibrosarcma line that exhibits 150-fold cross-resistance to etoposide but does not overexpress P-glycoprotein (one mechanism of multiple drug...
Tikkanen, Minna K., Carter, Damien J., Harris, Alana M., Le, Hung M., Azorsa, David O., Meltzer, Paul S., ...
Coactivators are believed to mediate estrogen-induced gene responses via interaction with estrogen receptors (ER). Currently, a major challenge is to determine the importance of each coactivator in a...
Ray, Michael E., Wistow, Graeme, Su, Yan A., Meltzer, Paul S., Trent, Jeffrey M.
AIM1 is a novel gene whose expression is associated with the experimental reversal of tumorigenicity of human malignant melanoma. The predicted protein product of the major 4.1-kb transcript shows...
Khan, Javed, Bittner, Michael L., Saal, Lao H., Teichmann, Ulrike, Azorsa, David O., Gooden, Gerald C., ...
Alveolar rhabdomyosarcoma is an aggressive pediatric cancer of striated muscle characterized in 60% of cases by a t(2;13)(q35;q14). This results in the fusion of PAX3, a developmental transcription...
Hendrix, Mary J. C., Seftor, Elisabeth A., Meltzer, Paul S., Gardner, Lynn M. G., Hess, Angela R., Kirschmann, Dawn A., ...
We recently have introduced the term vasculogenic mimicry to describe the unique ability of aggressive melanoma tumor cells to form tubular structures and patterned networks in three-dimensional...
Goo, Young-Hwa, Sohn, Young Chang, Kim, Dae-Hwan, Kim, Seung-Whan, Kang, Min-Jung, Jung, Dong-Ju, ...
Many transcription coactivators interact with nuclear receptors in a ligand- and C-terminal transactivation function (AF2)-dependent manner. These include activating signal cointegrator 2 (ASC-2), a...
Expression profiling to predict outcome in breast cancer: the influence of sample selection
Gruvberger, Sofia K, Ringnér, Markus, Edén, Patrik, Borg, Åke, Fernö, Mårten, Peterson, Carsten, ...
Gene expression profiling of tumors using DNA microarrays is a promising method for predicting prognosis and treatment response in cancer patients. It was recently reported that expression profiles...
Phenotypic alterations in breast cancer cells overexpressing the nuclear receptor co-activator AIB1
Anzick, Sarah L, Azorsa, David O, Simons, S Stoney, Meltzer, Paul S
Comparative genomic hybridization using oligonucleotide microarrays and total genomic DNA
Barrett, Michael T., Scheffer, Alicia, Ben-Dor, Amir, Sampas, Nick, Lipson, Doron, Kincaid, Robert, ...
Array-based comparative genomic hybridization (CGH) measures copy-number variations at multiple loci simultaneously, providing an important tool for studying cancer and developmental disorders and...
Furumoto, Hiroko, Ying, Hao, Chandramouli, G. V. R., Zhao, Li, Walker, Robert L., Meltzer, Paul S., ...
Thyroid-stimulating hormone (TSH)-secreting tumors (TSH-omas) are pituitary tumors that constitutively secrete TSH. The molecular genetics underlying this abnormality are not known. We discovered...
Khan, Javed, Wei, Jun S., Ringnér, Markus, Saal, Lao H., Ladanyi, Marc, Westermann, Frank, ...
The purpose of this study was to develop a method of classifying cancers to specific diagnostic categories based on their gene expression signatures using artificial neural networks (ANNs). We...
Yen, Paul M., Feng, Xu, Flamant, Frederic, Chen, Yidong, Walker, Robert L., Weiss, Roy E., ...
Little is known about the overall patterns of thyroid hormone (Th)-mediated gene regulation by the main Th receptor (Tr) isoforms, Tr-α and Tr-β, in vivo. We used 48 complementary DNA microarrays...
Genome-Wide Analysis of Menin Binding Provides Insights into MEN1 Tumorigenesis
Scacheri, Peter C, Davis, Sean, Odom, Duncan T, Crawford, Gregory E, Perkins, Stacie, Halawi, Mohamad J, ...
Multiple endocrine neoplasia type I (MEN1) is a familial cancer syndrome characterized primarily by tumors of multiple endocrine glands. The gene for MEN1 encodes a ubiquitously expressed tumor...
Tikkanen, Minna K., Carter, Damien J., Harris, Alana M., Le, Hung M., Azorsa, David O., Meltzer, Paul S., ...
Coactivators are believed to mediate estrogen-induced gene responses via interaction with estrogen receptors (ER). Currently, a major challenge is to determine the importance of each coactivator in a...
Ray, Michael E., Wistow, Graeme, Su, Yan A., Meltzer, Paul S., Trent, Jeffrey M.
AIM1 is a novel gene whose expression is associated with the experimental reversal of tumorigenicity of human malignant melanoma. The predicted protein product of the major 4.1-kb transcript shows...
Khan, Javed, Bittner, Michael L., Saal, Lao H., Teichmann, Ulrike, Azorsa, David O., Gooden, Gerald C., ...
Alveolar rhabdomyosarcoma is an aggressive pediatric cancer of striated muscle characterized in 60% of cases by a t(2;13)(q35;q14). This results in the fusion of PAX3, a developmental transcription...
Hendrix, Mary J. C., Seftor, Elisabeth A., Meltzer, Paul S., Gardner, Lynn M. G., Hess, Angela R., Kirschmann, Dawn A., ...
We recently have introduced the term vasculogenic mimicry to describe the unique ability of aggressive melanoma tumor cells to form tubular structures and patterned networks in three-dimensional...
Goo, Young-Hwa, Sohn, Young Chang, Kim, Dae-Hwan, Kim, Seung-Whan, Kang, Min-Jung, Jung, Dong-Ju, ...
Many transcription coactivators interact with nuclear receptors in a ligand- and C-terminal transactivation function (AF2)-dependent manner. These include activating signal cointegrator 2 (ASC-2), a...
Expression profiling to predict outcome in breast cancer: the influence of sample selection
Gruvberger, Sofia K, Ringnér, Markus, Edén, Patrik, Borg, Åke, Fernö, Mårten, Peterson, Carsten, ...
Gene expression profiling of tumors using DNA microarrays is a promising method for predicting prognosis and treatment response in cancer patients. It was recently reported that expression profiles...
Phenotypic alterations in breast cancer cells overexpressing the nuclear receptor co-activator AIB1
Anzick, Sarah L, Azorsa, David O, Simons, S Stoney, Meltzer, Paul S
Comparative genomic hybridization using oligonucleotide microarrays and total genomic DNA
Barrett, Michael T., Scheffer, Alicia, Ben-Dor, Amir, Sampas, Nick, Lipson, Doron, Kincaid, Robert, ...
Array-based comparative genomic hybridization (CGH) measures copy-number variations at multiple loci simultaneously, providing an important tool for studying cancer and developmental disorders and...
Furumoto, Hiroko, Ying, Hao, Chandramouli, G. V. R., Zhao, Li, Walker, Robert L., Meltzer, Paul S., ...
Thyroid-stimulating hormone (TSH)-secreting tumors (TSH-omas) are pituitary tumors that constitutively secrete TSH. The molecular genetics underlying this abnormality are not known. We discovered...
Yen, Paul M., Feng, Xu, Flamant, Frederic, Chen, Yidong, Walker, Robert L., Weiss, Roy E., ...
Little is known about the overall patterns of thyroid hormone (Th)-mediated gene regulation by the main Th receptor (Tr) isoforms, Tr-α and Tr-β, in vivo. We used 48 complementary DNA microarrays...
Genome-Wide Analysis of Menin Binding Provides Insights into MEN1 Tumorigenesis
Scacheri, Peter C, Davis, Sean, Odom, Duncan T, Crawford, Gregory E, Perkins, Stacie, Halawi, Mohamad J, ...
Multiple endocrine neoplasia type I (MEN1) is a familial cancer syndrome characterized primarily by tumors of multiple endocrine glands. The gene for MEN1 encodes a ubiquitously expressed tumor...
Ghadimi, B. Michael, Schröck, Evelin, Walker, Robert L., Wangsa, Danny, Jauho, Annukka, Meltzer, Paul S., ...
To screen pancreatic carcinomas for chromosomal aberrations we have applied molecular cytogenetic techniques, including fluorescent in situ hybridization, comparative genomic hybridization, and...
Vascular Channel Formation by Human Melanoma Cells in Vivo and in Vitro: Vasculogenic Mimicry
Maniotis, Andrew J., Folberg, Robert, Hess, Angela, Seftor, Elisabeth A., Gardner, Lynn M.G., Pe’er, Jacob, ...
Tissue sections from aggressive human intraocular (uveal) and metastatic cutaneous melanomas generally lack evidence of significant necrosis and contain patterned networks of interconnected loops of...
Allander, Susanne V., Illei, Peter B., Chen, Yidong, Antonescu, Cristina R., Bittner, Mike, Ladanyi, Marc, ...
Synovial sarcoma is an aggressive spindle cell sarcoma with two major histological subtypes, biphasic and monophasic, defined respectively by the presence or absence of areas of glandular epithelial...
Lipid defect underlies selective skin barrier impairment of an epidermal-specific deletion of Gata-3
De Guzman Strong, Cristina, Wertz, Philip W., Wang, Chenwei, Yang, Fan, Meltzer, Paul S., Andl, Thomas, ...
Skin lies at the interface between the complex physiology of the body and the external environment. This essential epidermal barrier, composed of cornified proteins encased in lipids, prevents both...
GEOmetadb: powerful alternative search engine for the Gene Expression Omnibus
Zhu, Yuelin, Davis, Sean, Stephens, Robert, Meltzer, Paul S., Chen, Yidong
The NCBI Gene Expression Omnibus (GEO) represents the largest public repository of microarray data. However, finding data in GEO can be challenging. We have developed GEOmetadb in an attempt to make...
Chen, Hung-I Harry, Hsu, Fang-Han, Jiang, Yuan, Tsai, Mong-Hsun, Yang, Pan-Chyr, Meltzer, Paul S., ...
Motivation: Genomic instability is one of the fundamental factors in tumorigenesis and tumor progression. Many studies have shown that copy-number abnormalities at the DNA level are important in the...