A robust aCGH data recovery framework based on half quadratic minimization

Computers in Biology and Medicine
Majid Mohammadi, Ghosheh Abed Hodtani

Abstract

This paper presents a general half quadratic framework for simultaneous analysis of the whole array comparative genomic hybridization (aCGH) profiles in a data set. The proposed framework accommodates different M-estimation loss functions and two underlying assumptions for aCGH profiles of a data set: sparsity and low rank. Using M-estimation loss functions, this framework is more robust to various types of noise and outliers. The solution of the proposed framework is given by half quadratic (HQ) minimization. To hasten this procedure, accelerated proximal gradient (APG) is utilized. Experimental results support the robustness of the proposed framework in comparison to the state-of-the-art algorithms.

References

Sep 26, 2002·Proceedings of the National Academy of Sciences of the United States of America·Jonathan R PollackPatrick O Brown
Feb 12, 2005·BMC Bioinformatics·Franck PicardJean-Jacques Daudin
Jan 19, 2006·Nature Reviews. Genetics·Lars FeukStephen W Scherer
Jul 29, 2006·Bioinformatics·Sohrab P ShahKevin P Murphy
May 22, 2007·Biostatistics·Robert Tibshirani, Pei Wang
Jan 1, 1995·IEEE Transactions on Image Processing : a Publication of the IEEE Signal Processing Society·D Geman, C Yang
Jan 10, 2009·BMC Bioinformatics·Paola M V RancoitaIvo Kwee
Oct 21, 2010·Bioinformatics·Sandro MorganellaMichele Ceccarelli
Dec 8, 2010·IEEE Transactions on Pattern Analysis and Machine Intelligence·Ran HeBao-Gang Hu
Jun 7, 2011·Biostatistics·Gen NowakRobert Tibshirani
Jun 1, 2008·Journal of the American Statistical Association·Subharup GuhaDonna Neuberg
May 25, 2013·IEEE/ACM Transactions on Computational Biology and Bioinformatics·Xiaowei ZhouWeichuan Yu
Apr 1, 2014·IEEE Transactions on Pattern Analysis and Machine Intelligence·Ran HeLiang Wang

❮ Previous
Next ❯

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.

Related Papers

Revista brasileira de ginecologia e obstetrícia : revista da Federação Brasileira das Sociedades de Ginecologia e Obstetrícia
Gabriele TonniEdward Araujo Júnior
Clinical Chemistry and Laboratory Medicine : CCLM
Barbara LombardoLucio Pastore
© 2021 Meta ULC. All rights reserved