Physical Sciences and Mathematics Commons^™

Ckat Software, Debashis Ghosh, Xiang Zhan

Debashis Ghosh

Deciphering The Associations Between Gene Expression And Copy Number Alteration Using A Sparse Double Laplacian Shrinkage Approach, Shuangge Ma

Shuangge Ma

Both gene expression levels (GEs) and copy number alterations (CNAs) have important implications in the development of complex diseases. GEs are partly regulated by CNAs, and much effort has been devoted to understanding their relations. The expression of a gene can be regulated by multiple CNAs, and one CNA can regulate the expression of multiple genes. In addition, multiple GEs (CNAs) can be correlated with each other. The existing methods for associating GEs with CNAs have limitations in deciphering the complex data structures. In this study, we develop a sparse double Laplacian shrinkage approach. It jointly models the effects of …

A Penalized Robust Semiparametric Approach For Gene-Environment Interactions, Shuangge Ma

Shuangge Ma

In genetic and genomic studies, gene-environment (G*E) interactions have important implications. Some of the existing G$\times$E interaction methods are limited by analyzing a small number of G factors at a time, by assuming linear effects of E factors, by assuming no data contamination, and by adopting ineffective selection techniques. In this study, we propose a new approach for identifying important G*E interactions. It jointly models the effects of all E and G factors and their interactions. A partially linear varying coefficient model (PLVCM) is adopted to accommodate possible nonlinear effects of E factors. A rank-based loss function is used to …

Pubspectra To Do Data, George Mcnamara

George McNamara

PubSpectra raw data that I had in my "to do" folder to add to the PubSpectra data set but never did.

PubSpectra has over 2000 spectra in it (last updated 2006) in Excel "big file" format - the XLSX file inside the zip file at

http://works.bepress.com/gmcnamara/9/

Anyone is welcome to add and organize new data yourselves. I used Un-Scan-It from Silk Scientific (www.silkscientific.com).

More importantly, I strongly adopting my PubSpectra format of 1 nm wavelength intervals, with the row number corresponding to nm. For example, 400 nm data appears in row 400.

Much of Urse Utzinger's "Spectra Arizona" data,

http://www.spectra.arizona.edu/ …

Clay Fabric And Mass Physical Properties Of Surficial Marine Sediment Near The Deepwater Horizon Oil Spill, Andrew Head, Richard H. Bennett, Jessica R. Douglas, Kenneth J. Curry

Kenneth J. Curry

Surficial sediment was obtained on the RV Cape Hatteras Cruise (2010) from the seafloor at a water depth of 1570 meters located at latitude 28°44'20.16"N and longitude 88°20'24.96"W in close proximity to the Deepwater Horizon well, Gulf of Mexico. Preliminary clay nano- and microfabric observation using a transmission electron microscope (TEM) depicted a sediment rich in clays and organic matter (OM) especially in the upper 2 cm subbottom. Initial analysis of TEM micrographs depicted a high porosity clay sediment. Initial study of the mass physical properties revealed water content ωt = 67.32 – 67.28% (percent total mass), porosity n= 84.1 …