Search Results - "Gould, N."

EBSeq: an empirical Bayes hierarchical model for inference in RNA-seq experiments by Leng, Ning, Dawson, John A, Thomson, James A, Ruotti, Victor, Rissman, Anna I, Smits, Bart M G, Haag, Jill D, Gould, Michael N, Stewart, Ron M, Kendziorski, Christina

“…Messenger RNA expression is important in normal development and differentiation, as well as in manifestation of disease. RNA-seq experiments allow for the…”
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Retrospective evaluation of the effect of acid suppressant drugs on leukocyte ratios in dogs with mast cell tumors by Oberholtzer, Sydney, Zhu, Xiaojuan, Dedeaux, Andrea, Martin, Olya, Gould, Emily N.

“…Background Acid suppressant drugs (ASDs) are commonly used to decrease gastric acid production, but some evidence exists that ASDs exert immunomodulatory…”
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Nonlinear programming without a penalty function or a filter by Gould, N. I. M., Toint, Ph. L.

“…A new method is introduced for solving equality constrained nonlinear optimization problems. This method does not use a penalty function, nor a filter, and yet…”
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A concise second-order complexity analysis for unconstrained optimization using high-order regularized models by Cartis, C., Gould, N. I. M., Toint, Ph. L.

“…An adaptive regularization algorithm is proposed that uses Taylor models of the objective of order p, , of the unconstrained objective function, and that is…”
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Mucosal associated invariant T cells from human breast ducts mediate a Th17-skewed response to bacterially exposed breast carcinoma cells by Zumwalde, Nicholas A, Haag, Jill D, Gould, Michael N, Gumperz, Jenny E

“…Antimicrobial T cells play key roles in the disease progression of cancers arising in mucosal epithelial tissues, such as the colon. However, little is known…”
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On the Utility of Pooling Biological Samples in Microarray Experiments by Kendziorski, C., Irizarry, R. A., K.-S. Chen, Haag, J. D., Gould, M. N., Wahba, Grace

“…Over 15% of the data sets catalogued in the Gene Expression Omnibus Database involve RNA samples that have been pooled before hybridization. Pooling affects…”
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Corrigendum: On the complexity of finding first-order critical points in constrained nonlinear optimization by Cartis, C., Gould, N. I. M., Toint, Ph. L.

“…In a recent paper (Cartis et al. in Math Prog A 144(2):93–106, 2014 ), the evaluation complexity of an algorithm to find an approximate first-order critical…”
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Outcomes of spontaneous and assisted pregnancies in Turner syndrome: the U.S. National Institutes of Health experience by Hadnott, Tracy N., B.A, Gould, Harley N., B.A, Gharib, Ahmed M., M.D, Bondy, Carolyn A., M.D

“…Objective To assess fetal and maternal outcomes of pregnancies in women with Turner syndrome (TS). Design Retrospective case series. Setting Clinical research…”
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Neutrophil gelatinase-associated lipocalin (NGAL) is a predictor of poor prognosis in human primary breast cancer by Bauer, Maret, Eickhoff, Jens C., Gould, Michael N., Mundhenke, Christoph, Maass, Nicolai, Friedl, Andreas

“…Neutrophil gelatinase-associated lipocalin (NGAL) is a small, secreted glycoprotein with proposed functions in cell proliferation, survival and morphogenesis…”
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Complexity bounds for second-order optimality in unconstrained optimization by Cartis, C., Gould, N.I.M., Toint, Ph.L.

“…This paper examines worst-case evaluation bounds for finding weak minimizers in unconstrained optimization. For the cubic regularization algorithm, Nesterov…”
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Updating the regularization parameter in the adaptive cubic regularization algorithm by Gould, N. I. M., Porcelli, M., Toint, P. L.

“…The adaptive cubic regularization method (Cartis et al. in Math. Program. Ser. A 127(2):245–295, 2011 ; Math. Program. Ser. A. 130(2):295–319, 2011 ) has been…”
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A dimer-type saddle search algorithm with preconditioning and linesearch by Gould, N., Ortner, C., Packwood, D.

“…The dimer method is a Hessian-free algorithm for computing saddle points. We augment the method with a linesearch mechanism for automatic step size selection…”
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Intranasal administration of the chemotherapeutic perillyl alcohol results in selective delivery to the cerebrospinal fluid in rats by Nehra, Geetika, Andrews, Shannon, Rettig, Joan, Gould, Michael N., Haag, Jill D., Howard, Steven P., Thorne, Robert G.

“…Perillyl alcohol (POH) has been extensively studied for the treatment of peripheral and primary brain tumors. The intranasal route of administration has been…”
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An adaptive cubic regularization algorithm for nonconvex optimization with convex constraints and its function-evaluation complexity by Cartis, C., Gould, N. I. M., Toint, P. L.

“…The adaptive cubic regularization algorithm described in Cartis et al. (2009, Adaptive cubic regularisation methods for unconstrained optimization. Part I:…”
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On parametric empirical Bayes methods for comparing multiple groups using replicated gene expression profiles by Kendziorski, C. M., Newton, M. A., Lan, H., Gould, M. N.

“…DNA microarrays provide for unprecedented large‐scale views of gene expression and, as a result, have emerged as a fundamental measurement tool in the study of…”
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The long path from QTL to gene by Drinkwater, Norman R, Gould, Michael N

“…A congenic line carrying the QTL1 chromosomal region from the sensitive strain on the genetic background of the resistant strain is constructed by repeated…”
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Microplastic burden in invasive signal crayfish (Pacifastacus leniusculus) increases along a stream urbanization gradient by Dent, Abigail R., Chadwick, Daniel D. A., Eagle, Lawrence J. B., Gould, Alex N., Harwood, Matthew, Sayer, Carl D., Rose, Neil L.

“…Microplastics are a globally pervasive pollutant with the potential to directly impact species and accumulate in ecosystems. However, there remains a relative…”
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A fast method for binary programming using first-order derivatives, with application to topology optimization with buckling constraints by Browne, P. A., Budd, C., Gould, N. I. M., Kim, H. A., Scott, J. A.

“…SUMMARY We present a method for finding solutions of large‐scale binary programming problems where the calculation of derivatives is very expensive. We then…”
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Worst-case evaluation complexity of regularization methods for smooth unconstrained optimization using Hölder continuous gradients by Cartis, C., Gould, N.I.M., Toint, Ph.L.

“…The worst-case behaviour of a general class of regularization algorithms is considered in the case where only objective function values and associated gradient…”
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The Non-coding Mammary Carcinoma Susceptibility Locus, Mcs5c, Regulates Pappa Expression via Age-Specific Chromatin Folding and Allele-Dependent DNA Methylation by Henning, Amanda N, Haag, Jill D, Smits, Bart M G, Gould, Michael N

“…In understanding the etiology of breast cancer, the contributions of both genetic and environmental risk factors are further complicated by the impact of…”
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