Browsing Mathematics & Statistics Department by Title
Now showing items 1-20 of 269
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Activation of the NOTCH Pathway in Head and Neck Cancer
(American Association for Cancer Research, 2014)NOTCH1 mutations have been reported to occur in 10% to 15% of head and neck squamous cell carcinomas (HNSCC). To determine the significance of these mutations, we embarked upon a comprehensive study of NOTCH signaling in ... -
AGA: Interactive pipeline for reproducible gene expression and DNA methylation data analyses
(F1000Research, 2015)Automated Genomics Analysis (AGA) is an interactive program to analyze high-throughput genomic data sets on a variety of platforms. An easy to use, point and click, guided pipeline is implemented to combine, define, and ... -
Analyzing collective motion with machine learning and topology
(American Institute of Physics, 2019-12-18)We use topological data analysis and machine learning to study a seminal model of collective motion in biology [M. R. D’Orsogna et al., Phys. Rev. Lett. 96, 104302 (2006)]. This model describes agents interacting nonlinearly ... -
Application of Bayesian Decomposition for analysing microarray data
(Oxford University Press, 2002)Motivation: Microarray and gene chip technology provide high throughput tools for measuring gene expression levels in a variety of circumstances, including cellular response to drug treatment, cellular growth and development, ... -
An argument for mechanism-based statistical inference in cancer
(Springer Verlag, 2015)Cancer is perhaps the prototypical systems disease, and as such has been the focus of extensive study in quantitative systems biology. However, translating these programs into personalized clinical care remains elusive and ... -
ASAP: automated sequence annotation pipeline fo rw eb-based updating of sequence information with a local dynamic database
(Oxford University Press, 2003)The automated sequence annotation pipeline (ASAP) is designed to ease routine investigation of new functional annotations on unknown sequences, such as expressed sequence tags (ESTs), through querying of web-accessible ... -
Barriers to success: understanding the student experience
(2018-03)At The College of New Jersey, faculty from the School of Science have partnered with the institutional Educational Opportunity Fund (EOF) program to revitalize the existing STEM Summer Scholars bridge program in order to ... -
Bayesian decomposition analysis of bacterial phylogenomic profiles
(Adis, 2005)BACKGROUND: The past two decades have seen the appearance of new infectious diseases and the reemergence of old diseases previously thought to be under control. At the same time, the effectiveness of the existing ... -
Bayesian decomposition: analyzing microarray data within a biological context
(Wiley, 2004-05)The detection and correct identification of cancer, especially at an early stage, are vitally important for patient survival and quality of life. Since signaling pathways play critical roles in cancer development and ... -
Becoming student ready: transforming institutional structures and cultures to support success for all students
(2018-03)With initial funding from the National Science Foundation, we have created new programs to provide scholarships, mentored research experiences, and coordinated support programs to undergraduates who are typically ... -
BeoBLAST: distributed BLAST and PSI-BLAST on a Beowulf cluster
(Oxford University Press, 2002)BeoBLAST is an integrated software package that handles user requests and distributes BLAST and PSI-BLAST searches to nodes of a Beowulf cluster, thus providing a simple way to implement a scalable BLAST system on top of ... -
Bifurcations in the Kuramoto model on graphs
(American Institute of Physics, 2018-07-27)In his classical work, Kuramoto analytically described the onset of synchronization in all-to-all coupled networks of phase oscillators with random intrinsic frequencies. Specifically, he identified a critical value of the ... -
Bifurcations in valveless pumping techniques from a coupled fluid-structure-electrophysiology model in heart development
(2017-12-06)We explore an embryonic heart model that couples electrophysiology and muscle-force generation to flow induced using a 2𝘋 fluid-structure interaction framework based on the immersed boundary method. The propagation of ... -
Biologically-informed neural networks guide mechanistic modeling from sparse experimental data
(Public Library of Science, 2020-12-01)Biologically-informed neural networks (BINNs), an extension of physics-informed neural networks [1], are introduced and used to discover the underlying dynamics of biological systems from sparse experimental data. In the ... -
Biomedical informatics in cancer research
(Springer, 2010) -
Boundedness of the space of stable logarithmic maps
(EMS Press, 2017)We prove that the moduli space of stable logarithmic maps with fixed numerical invariants, from logarithmic curves to a fixed projective target logarithmic scheme with fine and saturated logarithmic structure, is a proper ...
