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Molecular Classification of Tamoxifen-Resistant Breast
Carcinomas by Gene Expression Profiling -
MPHM
Jansen, JA Foekens, IL van Staveren, MM - Journal of Clinical Oncology,
2005 - jco.org
... Data Analysis and Statistics Microarray data analyses were
performed with the software
packages BRB Array Tools, developed by the Biometric
Research Branch of ...
Cited by 27 - Related Articles - Web Search
cDNA microarray profiling of rat mammary gland carcinomas
induced by 2-amino-1-methyl-6- -
L Shan, M
He, M Yu, C Qiu, NH Lee, ET Liu, EG - Carcinogenesis, 2002 -
carcin.oupjournals.org
... analyzed using hierarchical clustering (M.Eisen et al., Stanford’s
Cluster and TreeView
Program), multi-dimensional scaling plot (MDS) and BRB Array Tools.
...
Cited by 27 - Related Articles - Web Search - BL Direct
Gene Expression Profiles of BRCA1-Linked, BRCA2-Linked, and
Sporadic Ovarian Cancers -
AA
Jazaeri, CJ Yee, C Sotiriou, KR Brantley, J - JNCI Cancer Spectrum, 2002 -
jncicancerspectrum.oupjournals.org
... Statistical comparison between tumor groups was performed with BRB
Array Tools software
(/~brb/tool.htm), consisting of a modified F ...
Cited by 75 - Related Articles - Web Search - BL Direct
Global Gene Expression Profiles During Acute
Pathogen-Induced Pulmonary Inflammation Reveal -
NG
Sandler, MM Mentink-Kane, AW Cheever, TA Wynn - The Journal of Immunology,
2003 - jimmunol.highwire.org
... Image analysis was performed using GeneSpring (Silicon Genetics,
Redwood City, CA),
BRB Array Tools (Biometric Research Branch, National
Cancer Institute), and ...
Cited by 26 - Related Articles - Cached - Web Search - BL Direct
Molecular determinants of tumor differentiation in papillary
serous ovarian carcinoma -
AA
Jazaeri, K Lu, R Schmandt, CP Harris, PH Rao, C - Molecular Carcinogenesis,
2003 - doi.wiley.com
... Statistical comparison between tumor groups was performed with the
BRB Array Tools
software (devel- oped by Dr. Richard Simon and Amy Peng from The Division of ...
Cited by 28 - Related Articles - Web Search - BL Direct
Kidney Transplant Rejection and Tissue Injury by Gene
Profiling of Biopsies and Peripheral Blood -
SM
Flechner, SM Kurian, SR Head, SM Sharp, TC - American Journal of
Transplantation, 2004 - co-nephrology.com
... Thus, we tested all of the six class prediction algorithms currently
available
in BRB Array Tools for both biopsy and PBLs profiles
(Table 2). ...
Cited by 17 - Related Articles - Cached - Web Search - BL Direct
Molecular Characterization of the Acute Inflammatory Response
to Infections with Gram-Negative -
RJ
Feezor, C Oberholzer, HV Baker, D Novick, M - Infection and Immunity, 2003
- iai.asm.org
... BRB Array Tools was used to detect genes that
displayed differential hybridization
signal intensities among the three treatment classes (unstimulated, LPS ...
Cited by 23 - Related Articles - Web Search - BL Direct
Gene expression profiles derived from fine needle aspiration
correlate with response to systemic -
C
Sotiriou, TJ Powles, M Dowsett, AA Jazaeri, AL - Breast Cancer Res, 2002 -
biomedcentral.com
... Data analysis Expression profiles were analyzed with BRB Array
tools, version 1.03
(Molecular Statistics and Bioinformatics Section, National Cancer Institute ...
Cited by 90 - Related Articles - View as HTML - Web Search
Gene Expression Profiles Associated with Response to
Chemotherapy in Epithelial Ovarian Cancers -
AA
Jazaeri, CS Awtrey, GVR Chandramouli, YE Chuang - 2005 -
clincancerres.aacrjournals.org
... Statistical comparison between tumors groups was done using the
"BRB Array Tools"
software (/BRB-ArrayTools.html), consisting of
a ...
Cited by 4 - Related Articles - Web Search - BL Direct
Apoptotic Signaling Pathways Induced by Nitric Oxide in
Human Lymphoblastoid Cells Expressing Wild- -
CQ Li, AI
Robles, CL Hanigan, LJ Hofseth, LJ - 2004 - cancerres.aacrjournals.org
... We used the BRB Array Tools software
developed by the Biometric Research Branch
of the National Cancer Institute for the supervised analysis. ...
Cited by 13 - Related Articles - Web Search - BL Direct
Gene profiling of a myeloma cell line reveals similarities
and unique signatures among IL-6 response -
PA
Croonquist, MA Linden, F Zhao, BG Van Ness - Blood, 2003 - bloodjournal.org
... of the average difference data (relative gene expression) derived
from Affymetrix
5.0 software was performed using 3 software packages: BRB-Array
Tools 2.0 (Dr ...
Cited by 7 - Related Articles - Web Search - BL Direct
Distinct transcriptional profiles characterize oral
epithelium-microbiota interactions -
M
Handfield, JJ Mans, G Zheng, MC Lopez, S Mao, A - Cellular Microbiology,
2005 - Blackwell Synergy
... The hybridization signal intensities of the genes passing the
initial expression
filter were analysed (in part) with BRB Array Tools 3.01
(developed by Dr ...
Cited by 9 - Related Articles - Web Search
Molecular Profiling of Prostate Cancer -
K Huppi,
GVR Chandramouli - Current Science, 2004 - current-reports.com
... BRB Array tools were used for gene expression
analysis. Global expression pattern
similarities were compared by MDS using all 9223 genes on arrays. ...
Cited by 9 - Related Articles - Web Search - BL Direct
Abnormal Alveolar Development Associated with Elevated
Adenine Nucleosides -
SK
Banerjee, HWJ Young, A Barczak, DJ Erle, MR - American Journal of Respiratory
Cell and Molecular Biology, 102 - ajrcmb.org
... Significant genes selected by SAM were exported to BRB array
tools for hierarchical
clustering using centered correlation and average linkage. ...
Cited by 4 - Related Articles - Web Search - BL Direct
Cancer-associated molecular signature in the tissue samples
of patients with cirrhosis -
JW Kim, Q
Ye, M Forgues, Y Chen, A Budhu, J Sime, - Hepatology, 2004 - doi.wiley.com
... on linear kernel functions as previous experience has been that
more complex SVMs
perform less well for this application (R. Simon, BRB Array Tools
manual). ...
Cited by 8 - Related Articles - Web Search
Identification of carboxypeptidase E and γ-glutamyl
hydrolase as biomarkers for pulmonary -
P He, L
Varticovski, ED Bowman, J Fukuoka, JA - Human Pathology, 2004 - Elsevier
... We used the class comparison within BRB array tools
to compare fold expression of
genes in each of 3 histologically predefined groups and possibly identify ...
Cited by 4 - Related Articles - Web Search
Gene Expression Profiling of Microsatellite Unstable and
Microsatellite Stable Endometrial Cancers -
JI
Risinger, GL Maxwell, GVR Chandramouli, O - 850 -
cancerres.aacrjournals.org
... and the probability of getting at least 392 genes significant by
chance if there
are no real differences between the classes as 0.0001 (BRB Array
tools ver. ...
Cited by 3 - Related Articles - Web Search
Condensin Binding at Distinct and Specific Chromosomal Sites
in the Saccharomyces cerevisiae Genome -
BD Wang,
D Eyre, M Basrai, M Lichten, A Strunnikov - Molecular and Cellular Biology,
2005 - mcb.asm.org
... BRB-Array Tools (/BRB-ArrayTools.html)
software was used
to validate the reproducibility of hybridization replicas (within each array
...
Cited by 5 - Related Articles - Web Search - BL Direct
Issues for Consideration in the Analysis of Microarray Data
in Behavioural Studies -
GA Barr,
P Gao - Addiction Biology, 2005 - Taylor & Francis
... There are many supervised methods including support vector
machines, BRB Array tool,
Genes@Work (Califano et al., 2000; Klein et al., 2001; Pavlidis et al ...
Cited by 5 - Related Articles - Web Search
Study design considerations in clinical outcome research of
lung cancer using microarray analysis -
P Yang, Z
Sun, MC Aubry, F Kosari, W Bamlet, C - Lung Cancer, 2004 -
genetics.grad.uiowa.edu
... cDNA clones and 15,737 genes) 19 cases of AC in stage I, II Log 2
transformed; after
filtering 6216 clones were used for analysis BRB array tool
for clustering ...
Cited by 4 - Related Articles - View as HTML - Web Search
Lung Adenocarcinoma Global Profiling Identifies Type II
Transforming Growth Factor-Receptor as a -
AC
Borczuk, HK Kim, HA Yegen, RA Friedman, CA - AMERICAN JOURNAL OF
RESPIRATORY AND CRITICAL CARE MEDICINE, 2005 - cumc.columbia.edu
... We performed supervised analysis using an F test within BRB
array tools (developed
by Richard Simon and Amy Peng Lam; /BRB-ArrayTools
...
Cited by 2 - Related Articles - View as HTML - Web Search - BL Direct
Mect1-Maml2 Fusion Oncogene Linked to the Aberrant
Activation of Cyclic AMP/CREB Regulated Genes -
A Coxon,
E Rozenblum, YS Park, N Joshi, J - 1125 - cancerres.aacrjournals.org
... Statistical analyses were done using the BRB ArrayTools
Version 3.2.0 (BRB-Array
Tools Users Guide, version 3.2; R. Simon and A. Peng Lam, Biometric
Research ...
Cited by 4 - Related Articles - Web Search - BL Direct
Valproic acid blood genomic expression patterns in children
with epilepsy- a pilot study -
Y Tang,
TA Glauser, DL Gilbert, AD Hershey, MD - Acta Neurologica Scandinavica,
2004 - Blackwell Synergy
... To determine if there was an expression profile in blood
corresponding to a particular
phenotype, the class comparison tool in BRB-Array Tools
2.0 (developed ...
Cited by 9 - Related Articles - Web Search - BL Direct
Exercise responsive genes measured in peripheral blood of
women with Chronic Fatigue Syndrome and -
T
Whistler, JF Jones, ER Unger, SD Vernon - BMC Physiology, 2005 -
biomedcentral.com
... [28]. Analytical approach 2. We used the Gene Ontology comparison
module
of BRB Array tools [24] as a second analytical approach.
...
Cited by 2 - Related Articles - Cached - Web Search
Molecular profiling of platinum resistant ovarian cancer -
J Helleman,
MP Jansen, PN Span, IL van Staveren, - Int. J. Cancer, 2006 - doi.wiley.com
... Data analysis and statistics Data analysis was done with BRB-Array
Tools v2.1d1
(http:// linus.nci.nih.gov/BRB-ArrayTools.html), Significance Analysis
of ...
Cited by 3 - Related Articles - Web Search
A novel microarray to evaluate stress-related genes in skin:
effect of ultraviolet light radiation -
A
Pisarchik, J Wortsman, A Slominski - Gene, 2004 - pubmedcentral.nih.gov
... Data were normalized by LOWES method (intensity-dependent) using
the BRB-Array Tools
2.1 program written by Dr. Richard Simon (Biometrics Research Branch ...
Cited by 2 - Related Articles - Cached - Web Search
BRCA1-mediated repression of select X chromosome genes -
AA
Jazaeri, GVR Chandramouli, O Aprelikova, UA - Journal of Translational Medicine,
2004 - translational-medicine.com
... Statistical comparison between tumor groups was performed with the
"BRB Array Tools"
software /~brb/tool.htm, consisting of
a modified ...
Cited by 2 - Related Articles - Cached - Web Search
Gene expression profile of cervical tissue compared to
exfoliated cells: Impact on biomarker -
M
Steinau, DR Lee, MS Rajeevan, SD Vernon, MT - BMC Genomics, 2005 -
biomedcentral.com
... parametric p-values of the 20 most significant genes that
discriminate between the
CIN3 and the CIN 0/CIN 1 groups selected in the BRB Array Tools
two-sample T ...
Cited by 1 - Related Articles - Cached - Web Search
Expression Profiles of Osteosarcoma That Can Predict
Response to Chemotherapy -
TK Man, M
Chintagumpala, J Visvanathan, J Shen, L - 985 - cancerres.aacrjournals.org
... Raw quantification output of all array experiments were
subjected to data analysis
using BRB Array Tools 3.1.0 developed by R. Simon and A.
Pang Lam (http ...
Cited by 5 - Related Articles - Web Search - BL Direct
Gene expression in peripheral blood mononuclear cells from
patients with chronic fatigue syndrome -
N
Kaushik, D Fear, SCM Richards, CR McDermott, EF - 2005 -
jcp.bmjjournals.com
... expressed gene profiles among patients with chronic fatigue
syndrome (CFS; n = 25)
and normal persons (n = 25) identified by analysis in BRB Array
Tools. ...
Cited by 4 - Related Articles - Web Search - BL Direct
Microarray Analysis of Endometrial Carcinomas and Mixed
Mullerian Tumors Reveals Distinct Gene -
GL
Maxwell, GVR Chandramouli, L Dainty, TJ Litzi, - 2001 -
clincancerres.aacrjournals.org
... Binary class comparison was done on individual comparisons of
different histologic
groups using BRB Array tools software (BRB Array
tools ver. ...
Cited by 1 - Related Articles - Web Search - BL Direct
The Nuclear Receptor Coactivator AIB1 Mediates Insulin-like
Growth Factor I-induced Phenotypic -
A Oh, HJ
List, R Reiter, A Mani, Y Zhang, E Gehan, - 2004 -
cancerres.aacrjournals.org
... such that the median log intensity of each of the eight arrays
is equal to the median
log intensity for the reference array (BRB array tools
arbitrarily choose ...
Cited by 7 - Related Articles - Web Search - BL Direct
Inflammatory gene signature in ulcerative colitis with cDNA
macroarray analysis -
S
Okahara, Y Arimura, T Yabana, K Kobayashi, A - Alimentary Pharmacology and
Therapeutics, 2005 - Blackwell Synergy
... Both t-test and SAM in our analyses were performed using BRB-ARRAY
TOOLS
v3.2.1 developed by Dr Richard Simon and Amy Peng Lam. ...
Cited by 1 - Related Articles - Web Search
Unique Gene Expression Profile Based on Pathologic Response
in Epithelial Ovarian Cancer -
D
Spentzos, DA Levine, S Kolia, H Otu, J Boyd, TA - Journal of Clinical
Oncology, 2005 - jco.org
... using the dChip software, 4 and statistical procedures were
performed using the
Genes at Work (IBM, Research Center, NY), BRB Array tools
3.2 (developed at the ...
Cited by 7 - Related Articles - Web Search
Using bioinformatics and genome analysis for new therapeutic
interventions -
DW Mount,
R Pandey - 150 - mct.aacrjournals.org
... BRB-array tools (/BRB-ArrayTools.html),
SAM (http://www-
stat.stanford.edu/~tibs/SAM/), and GeneCluster
(http://www.broad.mit.edu/cancer ...
Cited by 1 - Related Articles - Web Search
Laparoscopic Donor Nephrectomy Gene Expression Profiling
Reveals Upregulation of Stress and Ischemia -
SM
Kurian, SM Flechner, J Kaouk, C Modlin, D - Transplantation, 2005 -
transplantjournal.com
... Next we did a class comparison between the control and LDN kidneys
using BRB Array
Tools on all 22,283 probe sets (14,500 genes) on the HG-U133A
GeneChip. ...
Cited by 2 - Related Articles - Web Search
High Frequency of Loss of Heterozygosity in Imprinted,
Compared with Nonimprinted, Genomic Regions -
MS Sarquis,
F Weber, L Shen, CE Broelsch, SM - 2006 - jcem.endojournals.org
... Furthermore, we used the multidimensional scaling function of the BRB
Array Tools
software package (developed by R. Simon and A. Peng) to visualize the ...
Cited by 2 - Related Articles - Web Search - BL Direct
Hepatic triglyceride contents are genetically determined in
mice: results of a strain survey -
X Lin, P
Yue, Z Chen, G Schonfeld - American Journal of Physiology- Gastrointestinal
and Liver , 2005 - ajpgi.physiology.org
... Further analysis was performed by using BRB-Array Tools
(version 3.1, http://linus.
nci.nih.gov/BRB-ArrayTools.html) according to the instructions
provided. ...
Cited by 1 - Related Articles - Web Search
Enrichment of low molecular weight fraction of serum for MS
analysis of peptides associated with -
E
Orvisky, SK Drake, BM Martin, M Abdel-Hamid, HW - Proteomics, 2006 -
doi.wiley.com
... peak intensities. This was used to compare the HCC cases and
controls by
random variance t-test (BRB Array Tools 3.1). The t-test
...
Cited by 1 - Related Articles - Web Search
Analysis of Orthologous Gene Expression between Human
Pulmonary Adenocarcinoma and a Carcinogen- -
RS
Stearman, L Dwyer-Nield, L Zerbe, SA Blaine, Z - 2005 - ajp.amjpathol.org
... Further, BRB-Array Tools includes five
different algorithms for class
prediction that can also be used in a supervised manner. 32 ...
Cited by 1 - Related Articles - Web Search - BL Direct
A bioinformatic workbench for the analysis of microarray
data based on open source software and
M
Mutarelli, G Colonna, A Facchiano - crisceb.unina2.it
... the Java ® -based TM4 software system available from The Institute
for Genomic Research
(http://www.tigr.org/software) - the BRB Array Tools
package from the ...
Related Articles - View as HTML - Web Search
Potential tumor suppressor genes identified by gene
expression profiling of microdissected serous
SP Yang,
LL Ozbun, J Kwong, T Bonome, SC Mok, MJ - 2006 - aacrmeetingabstracts.org
... Expression profiles were analyzed using BRB Array Tools.
Validation of arrays
data was done by real-time PCR using the BioRad iCycler system. ...
Cached - Web Search
Molecular signatures of the combination of oxaliplatin and
anti-microtubule agents, paclitaxel and
GCA
Cappellini, V Flati, E Laglia, S Martinotti, - 2006 -
aacrmeetingabstracts.org
... We used 1-way ANOVA, Quantitative Trait Analysis (BRB Array
Tools), and SAM to identify
gene classes associated with treatment schedules, single drug IC50, and ...
Cached - Web Search
Expression of Rho C, prolactin receptor (PRL-R), PDGF-α, and
PPAR-γ is significantly higher in
R Yaeger, VS Rangarajan, T Su, A Avila-Bront, JP -
2006 - aacrmeetingabstracts.org
... A+
B. Using a t-test within BRB-Array Tools, we identified
genes that were
differentially expressed in the SED specimens compared with BE and SEA
specimens. ...
Cached - Web Search
BMC Genomics
M
Steinau, DR Lee, MS Rajeevan, SD Vernon, MT - BMC Genomics, 2005 -
bmc.ub.uni-potsdam.de
... p-values of the 20 most signifi- cant genes that discriminate
between the CIN3 and
the CIN 0/CIN 1 groups selected in the BRB Array Tools
two- sample T-test ...
Related Articles - View as HTML - Web Search
Gene expression patterns for doxorubicin (Adriamycin) and
cyclophosphamide (Cytoxan)(AC) response -
S Cleator,
A Tsimelzon, A Ashworth, M Dowsett, T - Breast Cancer Research and
Treatment, 2006 - Springer
... 6]. Raw un-normalized data were processed and analyzed by dChip
(http://www.dchip.
org) [7] and classifiers were constructed with BRB Array Tools
(http://linus ...
Cited by 1 - Related Articles - Web Search - BL Direct
Gene expression in blood changes rapidly in neutrophils and
monocytes after ischemic stroke in -
Y Tang, H
Xu, XL Du, L Lit, W Walker, A Lu, R Ran, - Journal of Cerebral Blood Flow
& Metabolism, 2006 - med.stanford.edu
... were significantly regulated between different time points after
stroke (5 versus
3 h, 24 versus 5 h), a class comparison tool (BRB-Array Tools
2.0, developed ...
Related Articles - View as HTML - Web Search
Common Cancer Biomarkers -
CF Basil,
Y Zhao, K Zavaglia, P Jin, MC Panelli, S - 2006 -
cancerres.aacrjournals.org
... linear discriminant analysis, k-nearest neighbors for k = 1 and 3,
nearest centroid,
and support vector machine (SVM)] supported by the BRB array tool.
...
Related Articles - Web Search - BL Direct
BMC Physiology -
T Whistler,
JF Jones, ER Unger, SD Vernon - BMC Physiology, 2005 - biomedcentral.com
... Analytical approach2: We usedthe Gene Ontology comparisonmodule of
BRB Array tools
[26] as a secondanalytical approach.Inthis method,the genes are assignedGO ...
Related Articles - View as HTML - Web Search
Molecular Heterogeneity of Inflammatory Breast Cancer: A
Hyperproliferative Phenotype
DM
Nguyen, K Sam, A Tsimelzon, X Li, H Wong, S - Clinical Cancer Research,
2006 - clincancerres.aacrjournals.org
... We used three software packages: dChip (http://www.dchip.org), BRB
Array Tools
(/BRB-ArrayTools.html), and Array
Analyzer (http://www ...
Web Search
Microarray analysis of gene expression associated with
extrapulmonary dissemination of tuberculosis
O
Permissions - Respirology, 2006 - Blackwell Synergy
... genes was performed with CLUSTER ( http:/ / rana.lbl.gov/
EisenSoftware.htm ) and
the results were visualized with the BRB Array Tools (
http:/ / linus.nci.nih ...
Related Articles - Web Search
Children and adults with acute lymphoblastic leukaemia have
similar gene expression profiles. -
E
Kuchinskaya, M Heyman, D Grandér, M Linderholm, - European Journal Of
Haematology, 2005 - Blackwell Synergy
... Spring 5.0 software (Silicon Genetics, USA), and BRB-Array
Tools version
3.0.1 microarray analysis package. ... The BRB Array Tools
...
Related Articles - Web Search
The p53 Tumor Suppressor Network Is a Key Responder to
Microenvironmental Components of Chronic -
F Staib,
AI Robles, L Varticovski, XW Wang, BR - 1714 - cancerres.aacrjournals.org
... We used the following software for data analysis: BRB Array
Tools developed by Dr.
Richard Simon and Amy Peng Lam (/BRB-ArrayTools.html
...
Related Articles - Web Search - BL Direct
Distinctive characteristics of transcriptional profiles from
two epithelial cell lines upon -
JJ Mans,
HV Baker, D Oda, RJ Lamont, M Handfield - Oral Microbiology and Immunology,
2006 - ingentaconnect.com
... signal intensities were log-trans- formed for all probe-sets that
passed the initial
expression filters and were correla- ted using BRB Array Tools
(Simon and ...
Related Articles - Web Search
Main navigation
JM
Hernández, C Castilla, NC Gutiérrez, IM - Leukemia, 2005 - nature.com
... Data analysis were performed by Hierarchical clustering (Cluster
and TreeView software),
Multidimensional scaling method (BRB Array Tools version
3.0) and SAM ...
Related Articles - Cached - Web Search
GENOME-WIDE MONOCYTIC mRNA EXPRESSION IN POLYTRAUMA PATIENTS
FOR IDENTIFICATION OF CLINICAL OUTCOME. -
P
Biberthaler, V Bogner, HV Baker, MC Lopez, P - Shock, 2005 -
shockjournal.com
... High-level statistical analyses were performed using algorithms
within the software
packages dChip and BRB Array Tools (for details, see
http://linus.nci.nih ...
Related Articles - Web Search - BL Direct
Microarrays: a monitoring tool for transplant patients?
LA
Weintraub, MM Sarwal - Blackwell Synergy
... http:/ / www.affymetrix.com/ products/ software/ specific/ gcos.affx ] and high
level signal analysis (SAM [67] versus PAM [68] versus BRB array
tools). ...
Related Articles - Web Search
BMC Bioinformatics -
P
Trivedi, JW Edwards, J Wang, GL Gadbury, V - BMC Bioinformatics, 2005 -
soph.uab.edu
... In Table 2, we have compared the features and func- tions of
HDBStat! to SAM,
BRB Array Tools and TM4. ... HDBStat! SAM BRB-Array
Tools 3.2.2 TM4 ...
Related Articles - View as HTML - Web Search
11q22. 3 deletion in B-chronic lymphocytic leukemia is
specifically associated with bulky -
JD
Dickinson, J Gilmore, J Iqbal, W Sanger, JC - Leukemia & Lymphoma, 2006
- Taylor & Francis
... Quantitative trait analysis (BRB Array Tools,
developed by Simon and Lom, NCI, NIH,
Bethesda, MD version 3.2) was then performed to identify genes whose ...
Related Articles - Web Search - BL Direct
Elevated Levels of the 64-kDa Cleavage Stimulatory Factor
(CstF-64) in Lipopolysaccharide-stimulated -
SA Shell,
C Hesse, SM Morris Jr, C Milcarek - Journal of Biological Chemistry, 2005 -
jbc.org
... significance test with p value<0.05 with 1000 permutations and
specifying a random
variance for each calculation (class comparison feature of BRB Array
Tools). ...
Related Articles - Web Search - BL Direct
[CITATION] Mobilisation with G-CSF in
healthy donors promotes a high but temporal deregulation of genes -
JM
Hernandez, C Castilla, NC Gutierrez, IM Isidro, - Leukemia, 2005 - Stockton
... method (BRB Array Tools version 3.0) was
performed using Euclidean distance(15).
Selection of genes differentially expressed, SAM analysis: ...
Related Articles - Web Search
Cyclin E Both Regulates and Is Regulated by Calpain 2, a
Protease Associated with Metastatic Breast -
SJ
Libertini, BS Robinson, NK Dhillon, D Glick, M - 1666 -
cancerres.aacrjournals.org
... from hybridized, stained GeneChips were analyzed with R
statistical software
(v.2.01, and "affy" BioConductor package) and BRB Array
Tools to identify genes ...
Related Articles - Web Search - BL Direct
Comparative Study of Multivariate Classification Methods
Using Microarray Gene Expression Data for -
M Raza, I
Gondal, D Green, RL Coppel - Information Technology and Applications, 2005.
ICITA 2005. , 2005 - ieeexplore.ieee.org
... Simulations of these studies have been carried out using the BRB
Array Tools software
[6]. The following subsections provide detailed description of the ...
Related Articles - Web Search
Metastasis Predictive Signature Profiles Pre-exist in Normal
Tissues
-
H Yang, N
Crawford, L Lukes, R Finney, M Lancaster - Clinical and Experimental
Metastasis, 2005 - Springer
... Further analysis of raw microarray data, including normalization
and statistical
analysis was performed using BRB-Array Tools v3.2.0 [17,
18]. ...
Related Articles - Web Search - BL Direct
Monozygotic twins clinically discordant for scleroderma show
concordance for fibroblast gene -
X Zhou,
FK Tan, M Xiong, FC Arnett, CA Feghali- - Arthritis and rheumatism, 2005 -
doi.wiley.com
... BRB Array Tools, the genes were centered and
clustered with the minus one correlation
metric and complete linkage (indicated by the cluster numbers 1–33 at ...
Related Articles - Web Search - BL Direct
Infectious pathogen detection arrays: viral detection in
cell lines and postmortem brain tissue -
C
Conejero-Goldberg, E Wang, C Yi, TE Goldberg, L - BioTechniques, 2005 -
biotechniques.com
... Intensity data were normalized by Lowess smoother algorithm (39)
using BRB Array
Tools 3.1 developed by NIH (/BRB-Array
Tools.html ). ...
Related Articles - Cached - Web Search - BL Direct
Feature Selection and Classification of Gene Expression
Profile in Hereditary Breast Cancer -
M Raza, I
Gondal, D Green, RL Coppel - Hybrid Intelligent Systems, 2004. Proceedings.
HIS 2004. , 2004 - doi.ieeecomputersociety.org
... al (2001) is used in this study [7]. Normalization to log 2 and
feature selection
is done by BRB array tool [8] while classification of
SVM is done by Matlab. ...
Web Search
Statistical challenges with gene expression studies -
J
Shoemaker - Pharmacogenomics, 2006 - Future Medicine
... DNA microarrays and to aid statistical and computational
scientists wishing to develop
expertise in this area"; this group also developed BRB Array
Tools. 14 . ...
Web Search
ANALYZING DNA MICROARRAYS WITH UNDERGRADUATE STATISTICIANS
MC
MODULES - pages.pomona.edu
... The computer lab activities will be done using BRB Array
Tools (written by Richard
Simon and Amy Peng Lam, /BRB-ArrayTools.html),
a ...
Related Articles - View as HTML - Web Search
Microarray Analysis of the Failure of Filtering Blebs in a
Rat Model of Glaucoma Filtering Surgery -
DW Esson,
MP Popp, L Liu, GS Schultz, MB Sherwood - Investigative Ophthalmology &
Visual Science, 375 - iovs.org
... Gene expression levels were also subjected to a multivariate
permutation test using
BRB Array Tools (provided in the public domain by the
National Center for ...
Related Articles - Web Search - BL Direct
Red Blood Cells Show Enhanced Oxidative Damage and
Alteration of Lifespan in a New Model of SOD2- -
FM MARTIN
- membres.lycos.fr
... a SOD2 -/- vs. SOD2 +/+ class comparison was performed in BRB-Array
Tools to identify
specific genes differentially expressed between classes. ...
Related Articles - View as HTML - Web Search
Elevated levels of the 64-kDa cleavage stimulatory factor
(CstF-64) in LPS-stimulated macrophages -
SA Shell,
C Hesse, SM Morris Jr, C Milcarek - Journal of Biological Chemistry - jbc.org
... test with p-value<0.05 with 1000 permutations and specifying a
random variance for
each calculation (Class Comparison feature of BRB Array Tools),
and 3) a ...
Related Articles - Web Search
Prediction of Lymph Node Metastasis in Patients with
Endometrioid Endometrial Cancer Using -
MA Bidus,
JI Risinger, GVR Chandramouli, LA Dainty - 835 -
clincancerres.aacrjournals.org
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differences between the
classes was 0.02 (computed using software BRB Array tools
version 3.0c ...
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EW Hill,
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Mansfield, T Hernandez-Boussard, M Sarwal - ASHI Quarterly, 2003 -
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N
Hagiwara, B Ma, A Ly - DEVELOPMENTAL DYNAMICS, 2005 - doi.wiley.com
... GenBank accession numbers listed in the table correspond to those
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...
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George, E Reay, S Sankaran, S Dandekar - Journal of Virology, 2004 - jvi.asm.org
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W Fan, PR
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X Yu, WC
Griffith, K Hanspers, JF Dillman - Toxicological Sciences, 2006 -
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Aprelikova, M Wood, S Tackett, GVR Chandramouli, - Cancer Research, 2006 -
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SE
Baranzini, CCA Bernard, JR Oksenberg - The Journal of Immunology, 2005 -
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V
Zujovic, D Luo, HV Baker, MC Lopez, KR Miller, - Journal of Neuroscience
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RD
Williams, SN Hing, BT Greer, CC Whiteford, JS - Genes Chromosomes and
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... Identification of Differentially Expressed Genes The array
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Vaquerizas, L Conde, P Yankilevich, A Cabezon, - Nucleic Acids Research,
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L Shan, M
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/~brb/ ... The spots of the array
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Tools (version 3.0)
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...
Web Search
Molecular signatures of proliferation and quiescence in
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TA
Venezia, AA Merchant, CA Ramos, NL Whitehouse, - PLoS Biol, 2004 -
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Cached - Web Search
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Leukemia, 2005 - nature.com
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Multidimensional scaling method (BRB Array Tools version
3.0) was performed
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Po‐Poster‐28: Examination of gene expression in p53 (/−) mice exposed
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D Morris,
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software, Array Pro by
Media Cybernetics, and powerful statistical software, BRB microarray tools.
...
Web Search
Different Roles of EIIABMan and EIIGlc in Regulation of
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J
Abranches, MM Candella, ZT Wen, HV Baker, RA - Journal of Bacteriology,
2006 - jb.asm.org
... Statistical analysis was carried out using BRB array
tools (http://linus.nci.
nih.gov/BRB-ArrayTools.html) with a cutoff P value of 0.001. ...
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Quantitative gene expression in Budd-Chiari
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the 35 genes
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Web Search
Molecular profiling of malignant peritoneal mesothelioma
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mesothelioma histologic
subtype classifiers using the Pathway Comparison tool of BRB-Array.
...
Web Search
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... rana.lbl.gov/EisenSoftware.htm BRB Tools, clustering,
statistical ... http://linus.nci.
nih.gov/BRB-ArrayTools.html BASE ... genes identified from an array
study comes ...
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Gene expression profiling of advanced ovarian cancer: characterization
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L De
Cecco, L Marchionni, M Gariboldi, JF Reid, MS - Oncogene, 2004 - nature.com
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(McShane et al ...
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GP Sawiris,
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Pre-Processing Methods
M Gedil, H
Ressom - georgetown.edu
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such as ... site at NCI
(/BRB- ... Array Dilution
92453hgu95a11 92497hgu95a11 5.0 ...
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M LACROIX,
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version 3.0 (Molecular
Statistics and Bio- informatics Section, National Cancer Institute, Bethesda,
...
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Signatures of differentially regulated interferon gene
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FK Tan, X
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those that might be differentially regulated between SSc and control ...
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Getting the most from public microarray data
LA was
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Research Array-Pro Media Cybernetics BRB ArrayTools National
Cancer ...
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TOXICOLOGY INFORMATION/LINKS TOXNET http://toxnet. nlm. nih.
gov/index. html
HK
Hamadeh, RP Amin - doi.wiley.com
... This software allows the analysis of various array types. ...
The TM4 suite of tools
consists of four major ... BRB ArrayTools
/BRB-ArrayTools ...
Web Search
Evaluation of normalization methods for microarray data -
T Park,
SG Yi, SH Kang, S Lee, YS Lee, R Simon - BMC Bioinformatics, 2003 -
biomedcentral.com
... gov/BRB-ArrayTools and via the internet in SNOMAD
http://pevsnerlab.kennedykrieger.
org/snomad.htm tools which provide any DNA array researcher
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L Shan, M
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Reynies, D Geromin, JM Cayuela, F Petel, P - BMC Genomics, 2006 -
pubmedcentral.nih.gov
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Affymetrix HG-U133 plus 2.0 raw data; median normalization (BRB-Array
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SIS
BELIEVING, O SIGNATURES - The Scientist, 2002 - the-scientist.com
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free ... reference RNA for
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L Tian,
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... Simon, R. & Lam, AP (2005) BRB Array-Tools
User's Guide, Version 3.3 (National Cancer
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... We thank Dr. Michael Green for plasmids. Microarray analyses were
performed by using
BRB ARRAY TOOLS V.3.X developed by Dr. Richard Simon and
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NB MiroslavaCuperlovic-Culf,
RJ Ouellette - irmb.ca
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Y Cui, I
Parra, M Zhang, SG Hilsenbeck, A - Cancer Research, 2006 -
cancerres.aacrjournals.org
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Class comparisons
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S Diskin,
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... 2) . Using a BRB-ArrayTools class comparison t-test, we
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- jco.org
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YG Liu, J
Gano, R Huang, Y Lin, SM Wang, RP Huang - Journal of Surgical Oncology, 2002
- doi.wiley.com
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Fourmestraux, H Neubauer, C Poussin, P Farmer - Journal of Biological
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clincancerres.aacrjournals.org
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expression profiles can serve
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A Genetic Switch, Phage Lambda Revisited. M. Ptashne. Cold
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GW
BLAKELY - Genetical Research, 2005 - CambridgeUnivPress
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While Chapter 7 describes
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Web Search
Design and Analysis of DNA Microarray Investigations. RM
Simon, EL Korn, LM McShane, MD Radmacher,
DJAN DE
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While Chapter 7 describes
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software ...
Web Search
Analysis of Genes and Genomes. RJ Reece. John Wiley &
Sons Ltd. 2004. 469 pages. ISBN 0 470 84380 2.
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FINNEGAN - Genetical Research, 2005 - CambridgeUnivPress
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While Chapter 7 describes
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software ...
Web Search
Analysis of Genes and Genomes. RJ Reece. John Wiley &
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... Chapter 6 is dedicated to array normalization providing a ...
While Chapter 7 describes
the tools to detect ... for analysis, along with the BRB-ArrayTools
software ...
Web Search
Gene Expression Patterns and Profile Changes Pre-and
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SX Yang,
RM Simon, AR Tan, D Nguyen, SM Swain - 270 - clincancerres.aacrjournals.org
... a free-scoring or 40x magnification tool to generate an ...
corresponding one of
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Valérie de Fourmestraux, Heike Neubauer, Carine Poussin,
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L
Falquet, R Burcelin, M Delorenzi, B Thorens - Journal of Biological Chemistry
- jbc.org
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National Cancer Institute) was used for supervised analysis. ...
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Peritoneal and Subperitoneal Stroma May Facilitate Regional
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E Wang, Y
Ngalame, MC Panelli, H Nguyen-Jackson, M - 926 -
clincancerres.aacrjournals.org
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... http://linus.nci.nih.
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...
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biomedcentral.com
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SS has provided the arrays
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T
Whistler, R Taylor, RC Craddock, G Broderick, N - Pharmacogenomics, 2006 -
Future Medicine
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v3 ... the fatigue scores were
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Celecoxib Treatment Alters the Gene Expression Profile of
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OK
Glebov, LM Rodriguez, P Lynch, S Patterson, H - Cancer Epidemiology
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... Several multivariate classification methods available in BRB
ArrayTools 3.2 (compound
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WF Bahou,
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rank (data analyzed using
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Choice of Normal Ovarian Control Influences Determination of
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clincancerres.aacrjournals.org
... /BRB-ArrayTools.html. ...
Microarray technology provides a powerful
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V
Sriuranpong, A Mutirangura, JW Gillespie, V - 2004 -
clincancerres.aacrjournals.org
... After washing, the arrays were scanned with GenePix ...
data were performed using the
BRB ArrayTools software ... also used a supervised Class
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Analysis of gene expression in cancer cell lines identifies
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E
Missiaglia, E Blaveri, B Terris, YH Wang, E - International Journal of
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... a lack of sensitive diagnostic tools) and the ...
Following hybridization, arrays were
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Hepatocellular carcinoma in HCV-infected patients awaiting
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Lu, K Jaeweon, L Perlaky, CP Harris, S - BMC Cancer, 2004 -
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SS has provided the arrays
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ArrayTools software ...
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R
Rouzier, CM Perou, WF Symmans, N Ibrahim, M - 2005 - clincancerres.aacrjournals.org
... normalizes all arrays to one standard array that
represents ... http://linus.nci.nih.
gov/BRB-ArrayTools.html ... no uniformly accepted class
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Interrogating Mouse Mammary Cancer Models: Insights from
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AA
Fargiano, KV Desai, JE Green - Journal of Mammary Gland Biology and
Neoplasia, 2003 - Springer
... Gene ex- pression profiles are important tools for
improving tu ... at http://linus.nci.
nih.gov/BRB-ArrayTools ...
http://genome-www5.stanford.edu/Micro Array/SMD/restech ...
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A focused microarray approach to functional glycomics:
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EM
Comelli, SR Head, T Gilmartin, T Whisenant, SM - Glycobiology, 2006 -
glycob.oxfordjournals.org
... annotated microarray will provide a useful tool for the ...
/
BRB-ArrayTools.html ... v1 against the existing commercial array
Affymetrix U133A ...
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DV
Gnatenko, JJ Dunn, SR McCorkle, D Weissmann, PL - Blood, 2003 -
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Expression Profiling of Serous Low Malignant Potential,
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T Bonome,
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... using a multivariate permutation test in BRB
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CPUS
METHODS - JNCI Cancer Spectrum, 2003 - jncicancerspectrum.oxfordjournals.org
... quick to adopt this powerful new research tool, accurate
analysis and ... set of genes
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/~brb for a ...
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Workshop on Cancer Biometrics: Identifying Biomarkers and
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shockjournal.org
... BRB-ArrayTools.html ) are publicly accessible and cover
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Molecular signatures in biopsy specimens of lung cancer -
AC
Borczuk, L Shah, GDN Pearson, KL Walter, L Wang - Am J Respir Crit Care
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... for analysis on Affymetrix oligonucleotide arrays, using
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Transcriptional profiling reveals evidence for signaling and
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C Aston,
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... S-plus statistical programs and other tools (see below ...
The codes were broken after
the arrays were scanned ... Rate (FDR) 29 was calculated using BRB
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H Cho -
Bioinformatics, 2004 - people.virginia.edu
... A considerable number of array replicates per condition is ...
Branch, which has many
useful tools for microarray ... /BRB-ArrayTools.html).
...
Cited by 5 - Related Articles - View as HTML - Web Search - BL Direct
Gene Expression Profiles in Paraffin-Embedded Core Biopsy
Tissue Predict Response to Chemotherapy in -
L Gianni,
M Zambetti, K Clark, J Baker, M Cronin, - Journal of Clinical Oncology,
2005 - jco.org
... discrimination than traditional clinical tools, and
moreover ... all arrays to one standard
array that represents a ... performed by using the BRB-Arraytools
software ...
Cited by 23 - Related Articles - Web Search
Genes for systemic vascular complications are differentially
expressed in the livers of Type 2 -
T
Takamura, M Sakurai, T Ota, H Ando, M Honda, S - Diabetologia, 2004 -
Springer
... lected from the Clontech atlas membrane array and obtained ...
/
BRB-ArrayTools.html ... It contains a class comparison tool
based on univariate ...
Cited by 1 - Related Articles - Web Search - BL Direct
A guide to issues in microarray analysis: application to
endometrial biology -
CA White,
LA Salamonsen - Reproduction, 2005 - reproduction-online.org
... log-transformed values, an informative visualisation tool
is the ... http://linus.nci.
nih.gov/BRB-ArrayTools), QVALUE ... by immunostaining or tissue
array is critical ...
Cited by 2 - Related Articles - Web Search
Differential gene expression profiles in stage I primary
biliary cirrhosis -
M Honda,
H Kawai, Y Shirota, T Yamashita, S Kaneko - Am. J. Gastroenterology -
Blackwell Synergy
... to be spotted were selected according to the list of the Clontech
atlas membrane
array and were ... BRB-ArrayTools contains a class
comparison tool based on ...
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A Novel Ensemble Decision Tree Approach for Mining Genes
Coding Ion Channels for Cardiopathy Subtype -
J Zhang,
X Li, W Jiang, Y Wang, C Li, Q Wang, S - LECTURE NOTES IN COMPUTER SCIENCE,
2005 - Springer
... of absolute measurements from an oligo arrays with 132 ...
other six classification methods
provided by BRB-ArrayTools Version ... It is a powerful tool
not only for ...
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BIOINFORMATICS
HJ Cho,
JK Lee - Bioinformatics, 2004 - bioinformatics.oupjournals.org
... Research Branch, which has many useful tools
for microar ... /
BRB-ArrayTools.html). ... to estimate heterogeneous variances
of arrays and genes ...
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Isolation and angiogenesis by endothelial progenitors in the
fetal liver
F
Statement - Stem Cells - stemcells.alphamedpress.org
... Samples were hybridized to MOE430A GeneChip arrays. ...
expressed genes was performed
with BRB ArrayTools with the P ... the literature and web-based
tools as already ...
Related Articles - Web Search
Selection and validation of differentially expressed genes
in head and neck cancer -
MA Kuriakose,
WT Chen, ZM He, AG Sikora, P Zhang, - Cellular and Molecular Life Sciences
(CMLS), 2004 - Springer
... The GeneChip arrays were washed and then stained (strepta-
vidin-phycoerythrin)
in an ... to reduce false dis- covery rate); (c) Paired t test: BRB
ArrayTools (v3 ...
Cited by 8 - Related Articles - Web Search - BL Direct
Analysis of proteome and transcriptome of tumor necrosis
factor Æ stimulated vascular smooth muscle -
WG Jang,
HS Kim, KG Park, YB Park, KH Yoon, SW Han - Proteomics, 2004 -
doi.wiley.com
... Gene expression analysis using DNA microarray tools
confirmed the ... Arrays were washed
in three consecutive steps with ... by Eisen [16] and BRB
ArrayTools developed ...
Cited by 3 - Related Articles - Web Search - BL Direct
Caffeine suppresses metastasis in a transgenic mouse model:
a prototype molecule for prophylaxis of -
H Yang, J
Rouse, L Lukes, M Lancaster, T Veenstra, - Clinical and Experimental
Metastasis, 2005 - Springer
... v 3.2.0 (/ BRB-ArrayTools.html ...
array for each array with
the median array as refer ... Using the Gene Ontology Tool
of the NetAffy Analysis ...
Cited by 3 - Related Articles - Web Search
Gene expression profiling of human lung tissue from smokers
with severe emphysema -
A Spira,
J Beane, V Pinto-Plata, A Kadar, G Liu, V - Am J Respir Cell Mol Biol, 2004
- ajrcmb.org
... low diffusion capacity for carbon monoxide, tools that have
... addition to BRB ArrayTools,
we used three other class ... Probe-sets from the U133A array
contained in ...
Cited by 7 - Related Articles - Web Search
A novel prognostic subtype of human hepatocellular carcinoma
derived from hepatic progenitor cells -
JS Lee, J
Heo, L Libbrecht, IS Chu, P Kaposi-Novak - Nature Medicine, 2006 -
nature.com
... We obtained the Human Array-Ready Oligo Set (Version 2.0)
containing 70-mer ... two groups
of tissues, we used a class-comparison tool in BRB ArrayTools
(v3.2 ...
Cited by 3 - Related Articles - Cached - Web Search - BL Direct
Host Cell Gene Expression during Human Immunodeficiency
Virus Type 1 Latency and Reactivation and -
V
Krishnan, SL Zeichner - Journal of Virology - jvi.asm.org
... /BRB-ArrayTools) (62). ...
and cohybridized on the same array,
interarray sources ... expression was performed with analysis tools
provided by ...
Cited by 14 - Related Articles - Web Search - BL Direct
Isolation and Angiogenesis by Endothelial Progenitors in the
Fetal Liver -
S
Cherqui, SM Kurian, O Schussler, JA Hewel, JR - 2006 -
stemcells.alphamedpress.org
... differentially expressed genes was performed with BRB
ArrayTools with ... have the potential
of being tools for tissue ... population must start with an array
of well ...
Related Articles - Web Search - BL Direct
Expression Profiling Identifies Altered Expression of Genes
That Contribute to the Inhibition of
JS Sunde,
H Donninger, K Wu, ME Johnson, RG - Cancer Research, 2006 -
cancerres.aacrjournals.org
... using a multivariate permutation test in BRB-ArrayTools ...
background and SD over all
the array spots were ... expression profiling is a powerful tool
for identifying ...
Web Search
Research Article Selection and validation of differentially
expressed genes in head and neck cancer
MA
Kuriakose, WT Chen, ZM He, AG Sikora, P Zhang, - ingentaconnect.com
... The GeneChip arrays were washed and then stained (strepta-
vidin-phycoerythrin)
in an ... to reduce false dis- covery rate); (c) Paired t test: BRB
ArrayTools (v3 ...
Web Search
Gastric Transcription Profile of Helicobacter pylori
Infection in the Rhesus MacaqueEditor: VJ -
JL Huff,
LM Hansen, JV Solnick - Infection and Immunity, 2004 - iai.asm.org
... were compared with the class comparison tool, which uses a ...
present the results from
BRB ArrayTools primarily ... studies with Affymetrix human arrays
with nonhuman ...
Cited by 1 - Related Articles - Web Search - BL Direct
GENOMAFUNCIONAL
J de Maria Felix, RD Drummond, FTS Nogueira, VE de
- cafe.cbmeg.unicamp.br
... nylon array, filter ar- rays, high density membranes e macro-
array, que se ...
NationalCancerInstitute,USA–gratuito(/BRB-
ArrayTools.html ...
Related Articles - View as HTML - Web Search
Increased expression of ICAM-3 is associated with radiation
resistance in cervical cancer -
YM Chung,
BG Kim, CS Park, SJ Huh, J Kim, JK Park, - Int. J. Cancer, 2005 -
doi.wiley.com
... Arrays were washed (3 consecutive steps, all at RT ...
permutation test and R package
(BRB ArrayTools, SAS ... of the availability of experimental tools,
includ- ing ...
Cited by 2 - Related Articles - Web Search - BL Direct
Gene Expression Profiling of Primary Cutaneous Melanoma and
Clinical Outcome
V
Winnepenninckx, V Lazar, S Michiels, P Dessen, M - JNCI Cancer Spectrum,
2006 - jncicancerspectrum.oxfordjournals.org
... The default gene selection procedure from BRB ArrayTools
was ... to genome-wide
oligonucleotide arrays carrying 41 ... origins, provide new
diagnostic tools for the ...
Cited by 2 - Related Articles - Web Search - BL Direct
Alpha-Fetoprotein Controls Female Fertility and Prenatal
Development of the Gonadotropin-Releasing -
C De
Mees, JF Laes, J Bakker, J Smitz, B Hennuy, P - Molecular and Cellular
Biology, 2005 - mcb.asm.org
... A list of genes was generated using the Class Comparison Tool
associated with BRB
3.1 ... and summaries of high density oligonucleotide array
probe level ...
Related Articles - Web Search - BL Direct
Ischemic and Nephrotoxic Acute Renal Failure are
Distinguished by their Broad Transcriptomic
NIH NIDDK
- Physiological Genomics - physiolgenomics.physiology.org
... nephrotoxic trajectories, and clear array groupings ...
and BRB ArrayTools (http://linus.
nci.nih.gov/BRB- ... UniGene (NCBI Entrez) and the Genome
Annotation Tool from ...
Related Articles - Web Search
Forum Original Research Communication
SCCVIITC
Grown - Signal - liebertonline.com
... The arrays were prehybridized with buffer [5 saline-sodium ...
The data collated by the
BRB ArrayTools were ... by using Stanford’s SOURCE unification tool
with the ...
Web Search
应用聚类分析和 GO 数据库分析间变性星形细胞瘤的微阵列数据 -
江荣才， 喻辉， 浦佩玉， 屠康， - 中国实验诊断学, 2004 - 维普资讯
... 人肿瘤微阵列1．2(Atlas Human Cancer Array 1．2 ... ImageTM 1．01a软件(Clontech，美国)，
BRB—ArrayToolsVersion 2 ... et a1．C,me ontology：tool for the ...
Related Articles - Web Search
A molecular signature of metastasis in primary solid tumors
QH Ye, LX
Qin, M Forgues, P He, JW Kim, AC Peng, R - Nature Medicine, 2003 -
nature.com
... Each array contained 9,180 cDNA clones with 7,102 'named ...
We also used the BRB-ArrayTools
software for both ... We used the Class Comparison Tool based
on univariate ...
Related Articles - Web Search
Effects of Co-administration of Antioxidants and Arsenicals
on the Rat Urinary Bladder Epithelium -
M Wei, L
Arnold, M Cano, SM Cohen - Toxicological Sciences, 2005 -
toxsci.oupjournals.org
... Fluorescent array images were collected for both Cy3 and ...
Lam (http://linus.nci.nih.
gov/BRB-ArrayTools.html ... different antioxidants, may serve
as a tool for the ...
Cited by 2 - Related Articles - Web Search
Informatics-assisted Protein
Profiling in a Transgenic Mouse Model of Amyotrophic Lateral Sclerosis -
TJ Lukas,
WW Luo, H Mao, N Cole, T Siddique - Molecular & Cellular Proteomics, 2006
- mcponline.org
... Microarray data were analyzed with BRB ArrayTools developed
by Dr. Richard Simon
and Amy Peng Lam (Biometric Research Branch, NCI, National Institutes of
Health ...
Related Articles - Web Search
Alterations in the expression of DEAD-box and other RNA
binding proteins during HIV-1 replication -
V Krishnan,
SL Zeichner - Retrovirology, 2004 - retrovirology.com
... Using BRB -ArrayTools /BRB-ArrayTools,
the data were subjected
to statistical analyses using univariate parametric and multivariate ...
Cited by 5 - Related Articles - Cached - Web Search
Independent Validation of Prognostic Relevance of a
Previously Reported Gene-Expression Signature in
G
Marcucci, MD Radmacher, AS Ruppert, K Mrozek, JE - 2005 -
meeting.bloodjournal.org
... with dChip version 1.3. The log (base 2) of expression values were
exported
to BRB-ArrayTools v3. 2.3 for
analysis. Of the 133 genes ...
Cited by 2 - Related Articles - Web Search - BL Direct
Comprehensive expression profiling yields some clues as to
the cell of origin of osteosarcoma-
GE Mason,
R Yang, R Sowers, JH Healey, AG Huvos, - 2006 - aacrmeetingabstracts.org
... four osteosarcomas. Cluster analyses were performed using the BRB
ArrayTools
available through the National Cancer Institute. An ...
Cached - Web Search
Metastatic gastric adenocarcinomas do not exhibit previously
reported metastasis-specific gene
L Paon,
KR Cummins, N Rainov, L Pazmany, PG - 2004 - aacrmeetingabstracts.org
... those used in the previous study, a platform independence was
claimed in that report
(4). Raw expression intensity data was imported into the BRB-ArrayTools
3.0 ...
Cached - Web Search
Molecular determinants for transfection efficiency of siRNA
lipofection
M Takeda,
T Arao, H Kimura, T Shimoyama, N Hayama, - 2005 - aacrmeetingabstracts.org
... analysis using GeneChip (U133 ver. 2). The gene expression profile
was analyzed
by BRB ArrayTools. The transfection efficacy of the ...
Cached - Web Search
Gene expression and cell cycle arrest in a rat keratinocyte
line exposed to 56Fe ions
FJ Burns,
F Wu, R Zhang, A Uddin - 2006 - aacrmeetingabstracts.org
... were displayed and processed by Affymetrix software and
significantly altered genes
were further analyzed by GeneSpring 7.0 and BRB ArrayTools 3.0
software. ...
Gene expression alterations in rat skin exposed to 56Fe ions
in combination with dietary retinyl -
FJ Burns,
RH Zhang, S Chen, AN Uddin, F Wu - 2005 - aacrmeetingabstracts.org
... displayed by means of Affymetrix's (Santa Clara, CA) rat genome
microarray (RAT
U34-A). A total of 34 microarrays were processed by BRB ArrayTools
software. ...
Cached - Web Search
Molecular Mechanisms of West Nile Virus Pathogenesis in
Brain Cells -
WL Koh,
ML Ng - Emerg Infect Dis, 2005 - cdc.gov
... Analyses of the scanned microarray images were performed with BRB
ArrayTools version
3.1 (developed by R. Simon and AP Lam, National Cancer Institute, Bethesda ...
Related Articles - Cached - Web Search
Downregulation in components of the mitochondrial electron
transport chain in the postmortem frontal -
X Sun, JF
Wang, M Tseng, LT Young - J Psychiatry Neurosci, 2006 - pubmedcentral.nih.gov
... Analyses were performed using BRB ArrayTools
developed by Dr. Richard Simon and
Amy Peng Lam (/BRB-ArrayTools.html,
Biometric Research ...
Cached - Web Search
Gene microarray analysis of peripheral blood cells in pulmonary
arterial hypertension -
TM Bull,
CD Coldren, M Moore, SM Sotto-Santiago, - Am J Respir Crit Care Med, 2004 -
ajrccm.atsjournals.org
... The array data were analyzed with BRB ArrayTools
v3.0.2E developed by Dr. Richard
Simon and Amy Tan. ... and class prediction
functions of BRB ArrayTools. ...
Cited by 16 - Related Articles - Web Search - BL Direct
Laser Capture Microdissection and Microarray Expression
Analysis of Lung Adenocarcinoma Reveals -
K Miura,
ED Bowman, R Simon, AC Peng, AI Robles, - 2002 - cancerres.aacrjournals.org
... The analyses were performed using BRB-ArrayTools. 5.
Hierarchical Clustering. ... 5 Simon,
R., and Peng, A. BRB-ArrayTools Users Guide. National Cancer
Institute. ...
Cited by 61 - Related Articles - Web Search - BL Direct
Distinct Transcriptional Changes in Donor Kidneys upon Brain
Death Induction in Rats: Insights in -
TA
Schuurs, F Gerbens, JAB van der Hoeven, PJ - American Journal of
Transplantation, 2004 - Blackwell Synergy
... To account for dye bias, resulting data were normalized by
intensity-dependent
regression (Lowess) of the log-transformed ratios by BRB ArrayTools
version 3.0 ...
Cited by 3 - Related Articles - Web Search
Breast cancer classification and prognosis based on gene
expression profiles from a population-based -
C Sotiriou,
SY Neo, LM McShane, EL Korn, PM Long, - Proceedings of the National Academy
of Sciences, 2003 - pnas.org
... Hierarchical agglomerative clustering using the statistical
package BRB-ARRAYTOOLS
software (available at /BRB-ArrayTools.html)
was ...
Cited by 167 - Related Articles - Web Search - BL Direct
Gene profiling of scleroderma skin reveals robust signatures
of disease that are imperfectly -
H
Gardner, JR Shearstone, R Bandaru, T Crowell, M - ARTHRITIS &
RHEUMATISM, 2006 - doi.wiley.com
... Data were analyzed using the BRB ArrayTools system.
When appropriate, findings were
followed up with immunohistochemical analysis or TaqMan studies. Results. ...
Related Articles - Web Search
Single-Nucleotide Polymorphisms Associated with Symptomatic
Infection and Differential Human Gene -
JR Kerr,
N Kaushik, D Fear, DA Baldwin, EF - The Journal of Infectious Diseases,
2005 - journals.uchicago.edu
... Further analysis was performed using BRB ArrayTools
(version 3.02; Molecular Sta-
tistics and Bioinformatics Section, National Cancer Institute), developed by
R ...
Cited by 1 - Related Articles - Web Search - BL Direct
Selective deficits in the expression of striatal-enriched
mRNAs in Huntington's disease -
PA
Desplats, KE Kass, T Gilmartin, GD Stanwood, EL - JOURNAL OF
NEUROCHEMISTRY, 2006 - Blackwell Synergy
... Using the 'Present list' and their respective RMA expression
signal values,
hierarchical clustering by sample was performed with BRB-ArrayTools
software ( http ...
Related Articles - Web Search - BL Direct
A Gene Expression Signature Associated with Metastatic
Outcome in Human Leiomyosarcomas -
YF Lee, M
John, A Falconer, S Edwards, J Clark, P - 2004 - cancerres.aacrjournals.org
... BRB-ArrayTools (Biometric Research Branch, National
Cancer Institute, Bethesda,
MD) was used for class comparison analyses (univariate F test/two-sample t
test ...
Cited by 11 - Related Articles - Web Search - BL Direct
Human Immunodeficiency Virus Type 1 Vpr-Dependent Cell Cycle
Arrest through a Mitogen-Activated -
N
Yoshizuka, Y Yoshizuka-Chadani, V Krishnan, SL - Journal of Virology, 2005
- jvi.asm.org
... was performed with univariate parametric and multivariate
permutation tests based
on the one-sample random-variance statistic in BRB-ArrayTools
(http://linus ...
Cited by 2 - Related Articles - Web Search - BL Direct
Analysis of gene expression profiles of hepatocellular
carcinomas with regard to 18 F- -
JD Lee, M
Yun, JM Lee, Y Choi, YH Choi, JS Kim, SJ - European Journal of Nuclear
Medicine and Molecular Imaging, 2004 - Springer
... et al. [13] and BRB ArrayTools ver- sion 3.0 developed
by Simon and Lam
(/ BRB-ArrayTools.html). The class ...
Related Articles - Web Search
Gene expression profile identifies a rare epithelioid
variant case of pleomorphic liposarcoma -
L De
Cecco, M Gariboldi, JF Reid, MS Lagonigro, E - Histopathology, 2005 -
Blackwell Synergy
... Norway). 7 Multi-dimensional scaling was performed using BRB-ArrayTools
v3.1 developed by Dr Richard Simon and Amy Peng Lam. All ...
Cited by 2 - Related Articles - Web Search
Microarray analysis of differentially expressed genes in rat
frontal cortex under
ML Chen,
CH Chen, H City - acnp.org
... The image data were subject to further analysis using BRB-ArrayTools
... risperidone
treatment using class comparison function of the BRB-ArrayTools
v3.1 ...
Related Articles - View as HTML - Web Search
Identification of a plasma proteomic signature to
distinguish pediatric osteosarcoma from benign -
Y Li, TA
Dang, J Shen, L Perlaky, J Hicks, J - Proteomics, 2006 - doi.wiley.com
... 681) identified by Ciphergen Express 3.0 software (background
subtracted and normalized)
were log 2 trans- formed and imported to BRB ArrayTools 3.01
developed ...
Related Articles - Web Search
Emphysema lung tissue gene expression profiling -
HA
Golpon, CD Coldren, MR Zamora, GP Cosgrove, MD - Am J Respir Cell Mol Biol,
2004 - ajrcmb.org
... was further analyzed with BRB ArrayTools v2.1d1
developed by Dr. Richard
Simon and Amy Tan. Gene Ontology analysis was conducted ...
Cited by 9 - Related Articles - Web Search
Therapy prediction in a breast cancer primary systemic
chemotherapy (PST) study applying docetaxel/ -
U Vogt, B
Brandt, U Bosse, U Bonk, H Adiguzel, Y - Journal of Clinical Oncology, 2006
- asco.org
... The selection of predictor genes was done with BRB-ArrayTools
Version 3.3 using
a model based on the Compound Covariate Predictor, Diagonal Linear
Discriminant ...
Cached - Web Search
Increased Expression of Metallothionein Is Associated with
Irinotecan Resistance in Gastric Cancer -
JH Chun, HK
Kim, E Kim, IH Kim, JH Kim, HJ Chang, - 2004 - cancerres.aacrjournals.org
... present’ (P) Affymetrix Microarray Analysis Suite (MAS) detection
calls in all 16
samples (B). Clustering was performed by BRB-ArrayTools
software (National ...
Cited by 4 - Related Articles - Web Search - BL Direct
运动对女性慢性疲劳综合征患者外周血单核细胞基因表达影响的实验
柯杰兵， 马文丽， 林建棣， 郑文岭 - 中国临床康复, 2006 - 万方数据资源系统
... performance and relevance for chronic fatigue syndrome.Clin Diagn
Lab Immunol
2005;12(10):1259-60 [6]Biometric Research Branch.BRB ArrayTools//Division
of ...
Related Articles - Web Search
Molecular analysis of colonic transformation in the ileum
after total colectomy in rats
K
Fukushima, S Haneda, KI Takahashi, H Ogawa, K - Surgery, 2006 - Elsevier
... analysis. Data also were analyzed with the use of BRB ArrayTools.
Quantitative
reverse transcriptase-polymerase chain reaction. The ...
Related Articles - Web Search
Expression Patterns of a2, 3 Sialyltransferases and a1, 3
Fucosyltransferases Determine the Mode of -
JR Brown,
MM Fuster, JD Esko - Journal of Biological Chemistry - jbc.org
... linkage was performed with the software BRB ArrayTools
(http://linus.nci.
nih.gov/BRB-ArrayTools.html) developed by Dr. Richard Simon ...
Cited by 1 - Related Articles - Web Search
Comparative Proteomic Analysis of Intra-and Interindividual
Variation in Human Cerebrospinal Fluid* -
Y Hu, JP
Malone, AM Fagan, RR Townsend, DM - Molecular & Cellular Proteomics,
2005 - mcponline.org
... BRB Arraytools (linus.nci.nih.gov/BRB-ArrayTools.html)
were used for multidimensional
scaling analysis. Euclidean distance was used to measure similarity. ...
Cited by 2 - Related Articles - Web Search - BL Direct
Regulation of lipocalin-2 gene by the cancer chemopreventive
retinoid 4-HPR. -
S Caramuta,
L De Cecco, JF Reid, L Zannini, M - Int. J. Cancer, 2006 - doi.wiley.com
... Carlsbad, CA). Data analysis was performed using BRB-ArrayTools
v3.1 developed
by Dr. Richard Simon and Amy Peng Lam. Genes whose ...
Related Articles - Web Search
pH Regulates Genes for Flagellar Motility, Catabolism, and
Oxidative Stress in Escherichia coli K- -
LM
Maurer, E Yohannes, SS Bondurant, M Radmacher, - Journal of Bacteriology,
2004 - jb.asm.org
... The gene expression profiles of the arrays were visualized in
two-dimensional
Euclidian space, by using BRB ArrayTools software. ...
Cited by 17 - Related Articles - Web Search
Functional and genomic implications of global gene
expression profiles in cell lines from human -
J Lee -
Hepatology, 2002 - doi.wiley.com
... 2,3,13 The mul- tidimensional scaling (MDS) was performed using BRB
ArrayTools,
which was developed by Richard Simon and his colleagues in the Biometric ...
Cited by 31 - Related Articles - Web Search - BL Direct
Blood Gene Expression Profiling of Neurologic DiseasesA
Pilot Microarray Study -
Y Tang,
DL Gilbert, TA Glauser, AD Hershey, FR - 2005 - archneur.ama-assn.org
... As an internal means of validation, we performed permu- tation
analysis (BRB ArrayTools;
developed by Richard Si- mon, DSc, and Amy Peng Lam), which determines ...
Cited by 7 - Related Articles - Web Search
Recombinant human activated protein C reduces human
endotoxin-induced pulmonary inflammation via -
JA Nick,
CD Coldren, MW Geraci, KR Poch, BW Fouty, - Blood, 2004 - bloodjournal.org
... Microarray data were analyzed using BRB ArrayTools
v3.1. Tabular intensity data
were imported, log 2 transformed, and each array was normalized (mean
centered ...
Cited by 30 - Related Articles - Web Search
Distinct gene signatures of transient and acute
megakaryoblastic leukemia in Down syndrome -
J
Lightfoot, JK Hitzler, A Zipursky, M Albert, PF - Leukemia, 2004 -
nature.com
... Multidimensional scaling of the same data set of 8543 genes
carried out done using
BRB ArrayTools, which was developed by Dr Richard Simon and Amy
Peng Lam ...
Cited by 4 - Related Articles - Web Search - BL Direct
The role of microRNA genes in papillary thyroid carcinoma -
H He, K
Jazdzewski, W Li, S Liyanarachchi, R Nagy, - Proceedings of the National
Academy of Sciences, 2005 - pnas.org
... Raw data from miRNA chips were assembled by using BRB ArrayTools
(Richard Simon
and Amy Peng Lam, National Cancer Institute, Bethesda). ...
Cited by 4 - Related Articles - Web Search - BL Direct
Birth of parthenogenetic mice that can develop to adulthood
Y Obata,
Q Wu, K Niwa, Y Ono, Y Yamamoto, ES Park, - Nature, 2004 - nature.com
... Analyses were performed using Cluster developed by M. Eisen 27 and
BRB ArrayTools
developed by R. Simon and A. Peng (/BRB-ArrayTools
...
Related Articles - Cached - Web Search
Mutant p53 and aberrant cytosine methylation cooperate to
silence gene expression -
MM
Oshiro, GS Watts, RJ Wozniak, DJ Junk, JL Munoz - Oncogene, 2003 -
nature.com
... analysis. Multidimensional scaling was performed using BRB-ArrayTools
software
(/BRB-ArrayTools. html). Genes ...
Cited by 20 - Related Articles - Web Search - BL Direct
A two-gene expression ratio predicts clinical outcome in
breast cancer patients treated with -
XJ Ma, Z
Wang, PD Ryan, SJ Isakoff, A Barmettler, - Cancer Cell, 2004 -
icbp.med.ohio-state.edu
Page 1. ARTICLE A two-gene expression ratio predicts clinical outcome in
breast cancer patients treated with tamoxifen Xiao-Jun Ma ...
Cited by 66 - Related Articles - View as HTML - Web Search
Human Naive CD8 T Cells Down-Regulate Expression of the WNT
Pathway Transcription Factors Lymphoid -
T
Willinger, T Freeman, M Herbert, H Hasegawa, AJ - The Journal of
Immunology, 2006 - jimmunol.highwire.org
... with RNA from CD8 + T N , T CM , T EM , and T EMRA for data set 2.
We used GCOS
software (Affymetrix) and the software package BRB-ArrayTools
for data analysis ...
Related Articles - Cached - Web Search - BL Direct
Preliminary evidence of mitochondrial dysfunction associated
with post-infective fatigue after acute -
SD
Vernon, T Whistler, B Cameron, IB Hickie, WC - BMC Infectious Diseases,
2006 - biomedcentral.com
... The Class Comparison analyses were performed using BRB ArrayTools
[17] developed
by Dr. Richard Simon and Amy Peng Lam to determine if gene expression
profiles ...
Related Articles - Cached - Web Search
HOXA genes are included in genetic and biologic networks
defining human acute T-cell leukemia (T-ALL -
J
Soulier, E Clappier, JM Cayuela, A Regnault, M - Blood, 2005 -
bloodjournal.org
... on the quantile-normalized data using dChip1.3
(http://biosun1.harvard.edu/complab/
dchip/) and BRB (/BRB-ArrayTools.html)
software, as ...
Cited by 13 - Related Articles - Web Search - BL Direct
Distinguishing Right from Left Colon by the Pattern of Gene
Expression 1 -
OK
Glebov, LM Rodriguez, K Nakahara, J Jenkins, J - Cancer Epidemiology
Biomarkers & Prevention, 2003 - intl-cebp.aacrjournals.org
... Multidimensional scaling, clustering of genes and arrays, and
class prediction of
arrays were performed with the BRB-ArrayTools (version 2.1)
software package ...
Cited by 22 - Related Articles - Web Search - BL Direct
Molecular Classification of Parathyroid Neoplasia by Gene
Expression Profiling -
C
Morrison, W Farrar, J Kneile, N Williams, Y Liu- - 2004 - ajp.amjpathol.org
... microarray expression data were then evaluated using GeneCluster
(version 2.1.6
ß, http://www-genome.wi.mit.edu/cancer/), BRB-ArrayTools
Version 3.1 (http ...
Cited by 7 - Related Articles - Web Search - BL Direct
Chapter 4
M
Wilkens, KA Kooi, P van de Vlies, T Dijkhuizen, -
dissertations.ub.rug.nl
... were treated separately. Data analysis was performed using BRB
ArrayTools
v3.3 developed by Dr. Richard Simon and Amy Peng Lam (http ...
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Chapter 3
A ter
Elst, BE Hiemstra, KA Kooi, P van der Vlies, -
dissertations.ub.rug.nl
... Further data analysis was performed using BRB ArrayTools
v3.2 developed by Dr. Richard
Simon and Amy Peng Lam (/brb/download.html). ...
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Chapter 2
M Wilkens, KA Kooi, EAD Plantinga, GJ te Meerman, -
dissertations.ub.rug.nl
... al., 2005). Normalised data was further analysed using BRB ArrayTools
v3.1 developed by Dr. Richard Simon and Amy Peng Lam (http ...
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Gene Expression Profiling of Acute Myeloid Leukemia with
Translocation t (8; 16)(p 11; p 13) and -
M Camos,
J Esteve, P Jares, D Colomer, M Rozman, N - Cancer Research, 2006 -
cancerres.aacrjournals.org
... significant differences in their expression level among different AML
categories,
we used a random-variance F test as described in BRB ArrayTools
software (BRB ...
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Evaluation of Quality-Control Criteria for Microarray Gene
Expression Analysis -
CI Dumur,
S Nasim, AM Best, KJ Archer, AC Ladd, VR - Clinical Chemistry, 2004 -
clinchem.org
... same class comparisons. Both the F-test and the permutation-based
P values
were obtained with use of BRB-ArrayTools, Ver. 3.1.0(18 ...
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Expression Profiling of Mucinous Tumors of the Ovary
Identifies Genes of Clinicopathologic -
FW
Wamunyokoli, T Bonome, JY Lee, CM Feltmate, WR - 1110 - clincancerres.aacrjournals.org
... using Biometric Research Branch ArrayTools version 3.2.2 software
developed by Dr.
Richard Simon and Amy Peng Lam (/BRB-ArrayTools.html
...
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基因芯片技术在肝癌转移相关基因筛选中的应用 -
叶青海， 汤钊猷， 钦伦秀， 马曾辰 - 中华肝胆外科杂志, 2004 - 维普资讯
... and hybridized with the genes on the genechips．The Class Comparison
Too1，a supervised
machine learning algorithm of BRB-ArrayTools software developed
by NCI ...
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Altered Proteolysis and Global Gene Expression in Hepatitis
B Virus X Transgenic Mouse Liver -
Z Hu, Z
Zhang, JW Kim, Y Huang, TJ Liang - Journal of Virology, 2005 - jvi.asm.org
... The BRB ArrayTools (version 3.01) developed by G.
Simon and A. Lam (Biometric Research
Branch, National Cancer Institute, NIH) was used for the analysis. ...
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Research Article
RM Baxter,
TP Crowell, ME McCrann, EM Frew, H - Laboratory Investigation, 2005 -
nature.com
... Gene Profiling Data Analysis. Analyses were performed using BRB
ArrayTools developed
by Dr Richard Simon and Amy Peng Lam. Immunohistochemistry. ...
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Gene Expression Profiles in Peripheral Lymphocytes by
Arsenic Exposure and Skin Lesion Status in a -
M Argos,
MG Kibriya, F Parvez, F Jasmine, M - Cancer Epidemiology Biomarkers &
Prevention, 2006 - cebp.aacrjournals.org
... All analyses were done using BRB ArrayTools version
3.3.0 Beta 2 (49). ... [Abstract/
Free Full Text]; Simon R, Lam A. BRB ArrayTools User Guide,
version 3.3. ...
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A Candidate Gene Study of CYP19 (Aromatase) and Male Sexual
Orientation -
MG
DuPree, BS Mustanski, S Bocklandt, C Nievergelt - Behavior Genetics, 2004 -
Springer
... using GenePix Pro v3.0 software (Axon Instruments) and the Cy3 and
Cy5 signal
intensities were normalized for each sample using the BRB ArrayTools
developed by ...
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Alternative mutations of BRAF, RET and NTRK1 are associated
with similar but distinct gene -
M
Frattini, C Ferrario, P Bressan, D Balestra, L - Oncogene, 2004 -
nature.com
... Supervised analysis (class comparison, clustering and
multidimensional scaling)
was performed using BRB-ArrayTools v3.1 ( McShane et al., 2002
). Tables. ...
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Gross, histologic, and gene expression characteristics of
osteoarthritic articular cartilage of the -
M
Radmacher - Am Vet Med Assoc
Page 1. AJVR, Vol 67, No.8, August 2006 1299 O steoarthritis is one of
the most important causes of lameness in horses 1 and has ...
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Glucose Induces Clonal Selection and Reversible Dinucleotide
Repeat Expansion in Mesangial Cells -
A
Fornoni, O Lenz, LJ Striker, GE Striker - 2003 -
diabetes.diabetesjournals.org
... Microarray analysis was carried out using the software packages BRB-ArrayTools,
SAM: Significance Analysis of Microarrays, and j-express (27–29). ...
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Met-regulated expression signature defines a subset of human
hepatocellular carcinomas with poor -
P
Kaposi-Novak, JS Lee, L Gomez-Quiroz, C - Journal of Clinical
Investigation, 2006 - jci.org
... between groups of Met KO and Cre-control hepatocyte samples were
identified by a
multivariate permutation t test using the BRB ArrayTools 3.3
software package ...
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ORAL PRESENTATIONS -
N Friday,
A Briccoli, M Rocca, S Galletti, P - hindawi.com
... Arrays were scanned, quantitated and normalized prior to
statistical analysis
using GenePix and SPlus, and then analysed with BrB ArrayTools.
...
View as HTML - Web Search
Chipping away at breast cancer: insights from microarray
studies of human and mouse mammary cancer -
KV Desai,
CJ Kavanaugh, A Calvo, JE Green - Endocrine-Related Cancer, 2002 -
erc.endocrinology-journals.org
... Software for micro- array analysis is available at
/
BRB-ArrayTools.html, http://genome.www4.stanford.edu/
microarray/SMD/restech.html ...
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Classification analysis of the transcriptosome of
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FK Tan,
BA Hildebrand, MS Lester, DN Stivers, S - Arthritis & Rheumatism, 2005
- doi.wiley.com
... The program BRB ArrayTools, version 3.2 (designed by
Richard Simon and Amy Peng
Lam, Biomet- ric Research Branch, National Cancer Institute) was used for
these ...
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Gene selection for microarray data analysis using principal
component analysis -
A Wang,
EA Gehan - Stat Med, 2005 - doi.wiley.com
Page 1. STATISTICS IN MEDICINE Statist. Med. (in press) Published online in
Wiley
InterScience (www.interscience.wiley.com). DOI: 10.1002/sim.2082 ...
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Cancers as Wounds that Do Not Heal: Differences and
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J Riss, C
Khanna, S Koo, GVR Chandramouli, HH Yang - Cancer Research, 2006 -
cancerres.aacrjournals.org
... fact. Microarray analyses were done using BRB ArrayTools
developed by Dr.
R. Simon and A. Peng Lam. We gratefully acknowledge Drs. ...
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DNA sequence-specific polyamides alleviate transcription
inhibition associated with long GAA {middle -
R
Burnett, C Melander, JW Puckett, LS Son, RD - Proceedings of the National
Academy of Sciences, 2006 - pnas.org
... The Affymetrix probe set-level data were imported to BRB Arraytools
(Version
3.3.0 Beta 3a), selecting the U133 chips used in the experiment and leaving
all ...
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Gene expression profiling of plasma cell dyscrasias reveals
molecular patterns associated with -
M
Mattioli, L Agnelli, S Fabris, L Baldini, F - Oncogene, 2005 - nature.com
... The presence of significant clusters was assessed by applying the
global test of
clustering stability implemented in the BRB ArrayTools
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Surveillance of transcriptomes in basic military trainees
with normal, febrile respiratory illness, -
AZ
Publications - Genes and Immunity, 2005 - nature.com
... using gene-expression data were performed in Arraytools 3.2.0 Beta
developed by
Richard Simon and Amy Lam (/BRB-ArrayTools.html).
...
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Distinct organ-specific metastatic potential of individual
breast cancer cells and primary tumors -
AJ Minn,
Y Kang, I Serganova, GP Gupta, DD Giri, M - Journal of Clinical
Investigation, 2005 - jci.org
... clustering, Affymetrix data were imported into BRBArray Tools 3.1
(developed by
Richard Simon and Amy Peng Lam; /BRB-ArrayTools.html).
...
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Downregulation of lipopolysaccharide response in drosophila by
negative crosstalk between the AP1 -
T Kim, J
Yoon, H Cho, W Lee, J Kim, YH Song, SN - Nature Immunology, 2005 -
nature.com
Nature Immunology, USERNAME: PASSWORD: Save password ?
| Forgotten password? ...
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Mechanisms of Toxicity, Carcinogenesis, Cancer Prevention
and Cancer Therapy
Z Arany -
Toxicologic Pathology, 2003 - Taylor & Francis
Page 1. T OXICOLOGIC P ATHOLOGY , vol 31, no 1, pp 140–170, 2003 Copyright C
2003
by the Society of Toxicologic Pathology DOI: 10.1080/01926230390173950 ...
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RAP1 SIGNALLING: ADHERING TO NEW MODELS
YG Park,
X Zhao, F Lesueur, DR Lowy, M Lancaster, - Nature Genetics, 2005 -
nature.com
name="robots"> nature.com homepage Full text access provided
to Googlebot Access by Web Services. ...
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Mutation and genomic deletion status of ataxia
telangiectasia mutated (ATM) and p53 confer specific -
TC
Greiner, C Dasgupta, VV Ho, DD Weisenburger, LM - Proceedings of the
National Academy of Sciences, 2006 - pnas.org
... log-rank test (27, 28). Differentially expressed genes were
identified
by using BRB ARRAYTOOLS (15). Random-variance t tests were ...
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