Mixture model-based association analysis with case-control data in genome wide association studies

ALI Fadhaa; Jian Zhang

doi:10.1515/sagmb-2016-0022

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Publication Date

Sun Jan 01 2017

Journal Name

Statistical Applications In Genetics And Molecular Biology

Volume

16

DOI

10.1515/sagmb-2016-0022

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Mixture model-based association analysis with case-control data in genome wide association studies

genome wide association studies

haplotype mixture model

odds ratios

testing for inheritance patterns

ALI Fadhaa

Jian Zhang

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AbstractMultilocus haplotype analysis of candidate variants with genome wide association studies (GWAS) data may provide evidence of association with disease, even when the individual loci themselves do not. Unfortunately, when a large number of candidate variants are investigated, identifying risk haplotypes can be very difficult. To meet the challenge, a number of approaches have been put forward in recent years. However, most of them are not directly linked to the disease-penetrances of haplotypes and thus may not be efficient. To fill this gap, we propose a mixture model-based approach for detecting risk haplotypes. Under the mixture model, haplotypes are clustered directly according to their estimated disease penetrances. A theoretical justification of the above model is provided. Furthermore, we introduce a hypothesis test for haplotype inheritance patterns which underpin this model. The performance of the proposed approach is evaluated by simulations and real data analysis. The results show that the proposed approach outperforms an existing multiple testing method.

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Publication Date

Fri Dec 23 2022

Journal Name

F1000research

Association between polymorphisms within the gene coding for tumor necrosis factor (TNF)-alpha with outcomes of treatment in a sample of Iraqi patients with ankylosing spondylitis taking etanercept: an observational study

Shaimaa

Saleh E. S.

Mohammed

Laith

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Background:Ankylosing spondylitis (AS) is a progressive, chronic inflammatory illness with an unclear etiology that explicitly targets the vertebral column, peripheral joints, and extraarticular tissues. The purpose of this research was to investigate if the existence of single nucleotide polymorphisms (SNPs) in the promoter region of the tumor necrosis factor-alpha (TNF-α) gene at positions -1031T/C (rs199964), -857C/T (rs1799724) and -806C/T (rs4248158) in a sample of Iraqi AS patients could influence the patients' outcomes with etanercept.

Methods:Sixty patients with established AS receiving only etanercept were selected to enroll in this study, with a mean age of 40.75±8.6

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Publication Date

Thu Mar 03 2022

Journal Name

Archives Of Rheumatology

Association of tumor necrosis factor-alpha promoter region gene polymorphism at positions -308G/A, -857C/T, and -863C/A with etanercept response in Iraqi rheumatoid arthritis patients

Samer Imad

Munaf

Faiq

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Objectives: This study aims to evaluate the association between polymorphisms in the promoter region of the tumor necrosis factor-alpha (TNF-α) gene at locations -308G/A, -857C/T, and -863C/A with the tendency of being non-responder to etanercept.

Patients and methods: Between October 2020 and August 2021, a total of 80 patients (10 males, 70 females; mean age: 50 years; range, 30 to 72 years) with rheumatoid arthritis (RA) receiving etanercept for at least six months were included. The patients were divided into two groups responders and non-responders, based on their response after six months of continuous treatment. Following polymerase chain reac

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Publication Date

Wed Nov 01 2023

Journal Name

Iraqi Journal Of Pharmaceutical Sciences ( P-issn 1683 - 3597 E-issn 2521 - 3512)

Serum Soluble Angiotensin-Converting Enzyme-2 Level and Its Potential Association With The Renin-Angiotensin-Aldosterone System in Non-Hypertensive Iraqi COVID-19 Patients: An Observational Study

Mohammed A.

Ali

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Background: The novel coronavirus disease (COVID-19) is caused by Severe acute respiratory syndrome coronavirus 2 (SARS-Cov2) which utilizes angiotensin converting enzyme2 (ACE2) to invade the host cells. This membrane-bound peptidase is widely distributed in the body; its activity antagonizes the renin-angiotensin-aldosterone system (RAAS). Once SARS-Cov2 enters the cell, it causes downregulation of ACE2, resulting in the unopposed activation of RAAS. The unregulated activity of the RAAS system can deteriorate the prognosis in COVID-19 patients. A soluble form of ACE2 (sACE2) was reported to have a role in the SARS-Cov2 invasion of the susceptible cells.

Aim of the study: This study aims to inve

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(1)

Publication Date

Tue Jun 01 2021

Journal Name

Journal Of Planner And Development

Case studies on urban agriculture as a planning strategy for achieving sustainability in cities

self-sufficiency

sustainable development

climate change

wetlands

food security

سعاد جابر

ثامر خلف

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Urban agriculture is one of the important urban uses of land in cities since the inception of cities and civilizations, but the great expansion of cities in the world during the twentieth century and the beginning of the twentieth century and the increase in the number of urban residents compared to the rural population has led to a decline in this use in favor of other uses.

This decline in agricultural and green land areas in cities has negatively affected the environment, natural life and biological diversity in cities in addition to the great impact on the climate and the increase in temperatures and the negative impact on the economic side, since urban agriculture is an important pillar of the economy, especially

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Publication Date

Sat Dec 01 2018

Journal Name

Journal Of Hydrology

Complementary data-intelligence model for river flow simulation

Zaher Mundher

Salih

Ahmad

Shamsuddin

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(93)

Publication Date

Sat May 01 2021

Journal Name

Journal Of Physics: Conference Series

The Bifurcation Analysis of Food Web Prey- Predator Model with Toxin

Azhar Abbas

Mohamed Akram

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AbstractLocal and global bifurcations of food web model consists of immature and mature preys, first predator, and second predator with the current of toxicity and harvesting was studied. It is shown that a trans-critical bifurcation occurs at the equilibrium point <italic>E</italic> 0, and it revealed the existence of saddle-node bifurcation occurred at equilibrium points <italic>E</italic> 1, <italic>E</italic> 2 and <italic>E</italic> 3. At any point, the occurrence of bifurcation of the pitch for ... Show More

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Publication Date

Sat Oct 01 2022

Journal Name

Environmental Advances

Stability and performance studies of emulsion liquid membrane on pesticides removal using mixture of Fe3O4Â nanoparticles and span80

The current study investigated the impact of nonionic surfactant span 80 in the existence of Fe3O4 magnetic nanoparticles on the emulsification of mixture of kerosene as petroleum based organic solvents and corn oil as a green diluent in the ratio 1:1

HCl was used as internal phase and the stability of the emulsion was carried out. The proposed Pickering emulsion liquid membrane has been exploited to investigate it is ability in the extraction of Abamectin pesticides from aqueous solution without utilizing carrier agent. Further

the effects of experimental parameters on extraction efficiency and emulsion stability such as

homogenizer speed

emulsification speed

contact time

Fe3O4-Span 80 ratios

HCL concentration

internal to membrane volume ratio (I/O) and pH of the external feed solution were carried out. The results showed that more than 99% of Abamectin could be extracted at 10 min contact time with a minimum breakage percent of 0.52% at the optimal conditions. The kinetic of the extraction were studied and the mass transfer coefficient was found to be for external phase () of 1.2

interfacial reaction rate constant () of 5.83 and the overall mass transfer coefficient () of 3.91 . The results of recyclability of the PELM revealed that the emulsion stability and extraction efficiency was nearly unchanged after three cycles.

Ahmed A.

Noor Q.

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Publication Date

Sat Oct 01 2016

Journal Name

2016 6th International Conference On Information Communication And Management (icicm)

Enhancing case-based reasoning retrieval using classification based on associations

Ahmed

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Publication Date

Sat Apr 30 2022

Journal Name

Biomedical Research And Therapy

Association between anti-collagen type II autoantibodies and the acute rheumatoid arthritis phenotype in a cohort of rheumatoid arthritis patients

Mohammed

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Publication Date

Thu Dec 01 2022

Journal Name

Ieee Transactions On Human-machine Systems

Myoelectric Control With Fixed Convolution-Based Time-Domain Feature Extraction: Exploring the Spatio–Temporal Interaction

Rami N.

Ali H.

Oluwarotimi Williams

Erik

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