Digital Commons Network^™

The Influence Of Social Context On Perceptions Of Racism, Thaïs Kelly

MA Community Psychology Theses

This study explored how accurate people’s perceptions of racism are compared to the reality of experiences of racism and how social context influences those perceptions, specifically looking at the variables race, highest level of education, socioeconomic status, racial identity relevance, and neighborhood intergroup contact. The research design followed Graham, Nosek, and Haidt’s (2012) quantitative model. Participants were randomly assigned to complete two out of three possible surveys: Landrine, Klonoff, Corral, Fernandez, and Roesch’s (2006) General Ethnic Discrimination Scale (GEDS) answered as oneself, answered as a “typical white person,” or answered as a “typical person of color.” Participants also responded to …

Sivcpz Closely Related To The Ancestral Hiv-1 Is Less Or Non-Pathogenic To Humans In A Hu-Blt Mouse Model, Zhe Yuan, Guobin Kang, Lance Daharsh, Wenjin Fan, Qingsheng Li

Nebraska Center for Virology: Faculty Publications

The HIV-1 pandemic is a consequence of the cross-species transmission of simian immunodeficiency virus in wild chimpanzees (SIVcpz) to humans. Our previous study demonstrated SIVcpz strains that are closely related to the ancestral viruses of HIV-1 groups M (SIVcpzMB897) and N (SIVcpzEK505) and two SIVcpz lineages that are not associated with any known HIV-1 infections in humans (SIVcpzMT145 and SIVcpzBF1167), all can readily infect and robustly replicate in the humanized-BLT mouse model of humans. However, the comparative pathogenicity of different SIVcpz strains remains unknown. Herein, we compared the pathogenicity of the above four SIVcpz strains with HIV-1 using humanized-BLT mice. …

Identification Of Unequally Represented Founder Viruses Among Tissues In Very Early Siv Rectal Transmission, Jian Chen, Yanqin Ren, Lance Daharsh, Lu Liu, Guobin Kang, Qingsheng Li, Qiang Wei, Yanmin Wu, Jianqing Xu

Nebraska Center for Virology: Faculty Publications

Characterizing the transmitted/founder (T/F) viruses of multi-variant SIV infection may shed new light on the understanding of mucosal transmission.We intrarectally inoculated six Chinese rhesus macaques with a single high dose of SIVmac251 (3.1 × 10⁴ TCID₅₀) and obtained 985 full-length env sequences from multiple tissues at 6 and 10 days post-infection by single genome amplification (SGA). All 6 monkeys were infected with a range of 2 to 8 T/F viruses and the dominant variants from the inoculum were still dominant in different tissues from each monkey. Interestingly, our data showed that a cluster of rare T/F viruses …

Analytical Performance Of A Low‐Cost Multiplex Polymerase Chain Reaction Human Papillomavirus Genotyping Assay For Use In Sub‐Saharan Africa, Kandali Samwel, Crispin Kahesa, Julius Mwaiselage, Daniela Gonzalez, John T. West, Charles Wood, Joel Palefsky, Peter C. Angeletti

Nebraska Center for Virology: Faculty Publications

We have tested a multiplex polymerase chain reaction (PCR) human papillomavirus (HPV) genotyping assay to fill the need for rapid and low‐cost HPV detection in Sub‐ Saharan Africa. This method allows high throughput genotyping and simultaneous detection of 14 high‐risk and two low‐risk HPV types, by PCR amplification of HPV DNAs in a single reaction tube. In this study, we describe stepwise experiments to validate the multiplex HPV PCR assay for determination of HPV genotypes from 104 cervical brush samples from Tanzanian women. Assay performance was evaluated by determination of intra‐laboratory reproducibility, sensitivity, and specificity. Further performance was assessed by …

Discovery Of A Non-Nucleoside Rna Polymerase Inhibitor For Blocking Zika Virus Replication Through In Silico Screening, Aryamav Pattnaik, Nicholas Palermo, Bikash R. Sahoo, Zhe Yuan, Duoyi Hu, Arun S. Annamalai, Hiep L. X. Vu, Ignacio Correas, Pavan Kumar Prathipati, Christopher J. Destache, Qingsheng Li, Fernando A. Osorio, Asit K. Pattnaik, Shi-Hua Xiang

Nebraska Center for Virology: Faculty Publications

Zika virus (ZIKV), an emerging arbovirus, has become a major human health concern globally due to its association with congenital abnormalities and neurological diseases. Licensed vaccines or antivirals against ZIKV are currently unavailable. Here, by employing a structure-based approach targeting the ZIKV RNA-dependent RNA polymerase (RdRp), we conducted in silico screening of a library of 100,000 small molecules and tested the top ten lead compounds for their ability to inhibit the virus replication in cell-based in vitro assays. One compound, 3-chloro-N-[({4-[4-(2-thienylcarbonyl)-1-piperazinyl]phenyl}amino)carbonothioyl]-1-benzothiophene-2-carboxamide (TPB), potently inhibited ZIKV replication at submicromolar concentrations. Molecular docking analysis suggests that …

How Does Grant Funding Impact A Campus's Prevention And Response Programming And Education Compared To A Campus Without Grant Funding? An Exploratory Case Study, Aimee Janssen-Robinson

All-Inclusive List of Electronic Theses and Dissertations

With regard to sexual violence prevention and response programming and Education, what are the differences between a campus receiving U.S. Department of Justice Office of Violence Against Women Campus Grant funding and a campus that is not receiving funding? This exploratory case study provides insight about sexual violence prevention Education at higher Education institutions through document review and in-depth interviews with key personnel at two institutions. The findings provide some insights that can deliver some guidance and direction for those higher Education institutions seeking to improve their current sexual violence prevention and response Education and programming. The five themes—collaboration, communication, …

Stormwater Capture In The Built Watershed: Fostering Public Awareness Of Water Conservation Through A Parcel-Level Approach To Stormwater Management, Benjamin Rigby

Pitzer Senior Theses

As California contends with climate change and more extreme cycles of drought and deluge, water management agencies and conservation groups are looking towards solutions to the decreasing reliability of imported water supplies. Stormwater has historically been perceived as a threat to development but when captured properly, it presents a resource that can augment local water supplies. Solutions to water supply issues in California have traditionally employed technical and centrally controlled methods for importing water, but there is a growing understanding that parcel-level capture through vegetated swales presents an opportunity for reducing the impact that development has on California’s hydrology. Vegetated …

Playing Outside The Joints: Where The Religious Freedom Restoration Act Meets Title Vii, Amanda Brennan

American University Law Review

No abstract provided.

Dual Stimuli-Responsive Rotaxane-Branched Dendrimers With Reversible Dimension Modulation, Xu-Qing Wang, Wei Wang, Wei-Jian Li, Li-Jun Chen, Rui Yao, Guang-Qiang Yin, Yu-Xuan Wang, Ying Zhang, Junlin Huang, Hongwei Tan, Yihua Yu, Xiaopeng Li, Lin Xu, Hai-Bo Yang

Chemistry Faculty Publications

With the aim of mimicking biological machines, in which the delicate arrangement of nanomechanical units lead to the output of specific functions upon the external stimulus, the construction of dual stimuli-responsive rotaxane-branched dendrimers was realized in this study. Starting from a switchable organometallic [2]rotaxane precursor, the employment of a controllable divergent approach allowed for the successful synthesis of a family of rotaxane-branched dendrimers up to the third generation with 21 switchable rotaxane moieties located on each branch. More importantly, upon the addition and removal of dimethylsulfoxide (DMSO) molecule or acetate anion as the external stimulus, the amplified responsiveness of the …

Microbial Function And Hydrochemistry Within A Stratified Anchialine Sinkhole: A Window Into Coastal Aquifer Interactions, Madison Davis, James R. Garey

Molecular Biosciences Faculty Publications

Anchialine sinkholes provide insight into coastal aquifer systems and coastal mixing processes. Aquifer microbial community function is usually inferred from hydrochemical information, but there are few direct studies of microbial communities in the Floridan Aquifer. Hospital Hole is a 43 m-deep stratified sinkhole under the Weeki Wachee River, FL, with three distinct brackish layers: a hypoxic layer, a chemocline and a sulfidic anoxic layer. Illumina sequencing and bioinformatic tools were used to reconstruct metabolic functions and interactions of microbial communities in each layer. Each layer appears to originate from different parts of the coastal mixing zone and has a distinct …

Expression And Function Of Nuclear Receptor Coactivator 4 Isoforms In Transformed Endometriotic And Malignant Ovarian Cells, Stephanie Rockfield, Idhaliz Flores, Meera Nanjundan

Molecular Biosciences Faculty Publications

Iron is proposed to contribute to the transition from endometriosis to specific subtypes of ovarian cancers (OVCAs). Regulation of intracellular iron occurs via a ferritinophagic process involving NCOA4 (Nuclear Receptor Coactivator 4), represented by two major isoforms (NCOA4α and NCOA4β), whose contribution to ovarian cancer biology remains uninvestigated. We thus generated transformed endometriotic cells (via HRAS^V12A, c-MYC^T58A, and p53 inactivation) whose migratory potential was increased in response to conditioned media from senescent endometriotic cells. We identified elevated NCOA4 mRNA in transformed endometriotic cells (relative to non-transformed). Knockdown of NCOA4 increased ferritin heavy chain (FTH1) and p21 …

Mbd2-Cp2c Loop Drives Adult-Type Globin Gene Expression And Definitive Erythropoiesis, Min Young Kim, Ji Sook Kim, Seung Han Son, Chang Su Lim, Hea Young Eum, Dae Hyun Ha, Mi Ae Park, Eun Jung Baek, Buom-Yong Ryu, Ho Chul Kang, Vladimir N. Uversky, Chul Geun Kim

Molecular Biosciences Faculty Publications

During hematopoiesis, red blood cells originate from the hematopoietic stem cell reservoir. Although the regulation of erythropoiesis and globin expression has been intensively investigated, the underlining mechanisms are not fully understood, including the interplay between transcription factors and epigenetic factors. Here, we uncover that the Mbd2-free NuRD chromatin remodeling complex potentiates erythroid differentiation of proerythroblasts via managing functions of the CP2c complexes. We found that both Mbd2 and Mbd3 expression is downregulated during differentiation of MEL cells in vitro and in normal erythropoiesis in mouse bone marrow, and Mbd2 downregulation is crucial for erythropoiesis. In uninduced MEL cells, the Mbd2-NuRD …

Yeast Lifespan Variation Correlates With Cell Growth And Sir2 Expression, Jessica T. Smith, Jill W. White, Huzefa Dungrawala, Hui Hua, Brandt L. Schneider

Molecular Biosciences Faculty Publications

Isogenic wild type yeast cells raised in controlled environments display a significant range of lifespan variation. Recent microfluidic studies suggest that differential growth or gene expression patterns may explain some of the heterogeneity of aging assays. Herein, we sought to complement this work by similarly examining a large set of replicative lifespan data from traditional plate assays. In so doing, we reproduced the finding that short-lived cells tend to arrest at senescence with a budded morphology. Further, we found that wild type cells born unusually small did not have an extended lifespan. However, large birth size and/or high inter-generational growth …

Radx Modulates Rad51 Activity To Control Replication Fork Protection, Kamakoti P. Bhat, Archana Krishnamoorthy, Huzefa Dungrawala, Edwige B. Garcin, Mauro Modesti, David Cortez

Molecular Biosciences Faculty Publications

RAD51 promotes homologous recombination repair (HR) of double-strand breaks and acts during DNA replication to facilitate fork reversal and protect nascent DNA strands from nuclease digestion. Several additional HR proteins regulate fork protection by promoting RAD51 filament formation. Here, we show that RADX modulates stalled fork protection by antagonizing RAD51. Consequently, silencing RADX restores fork protection in cells deficient for BRCA1, BRCA2, FANCA, FANCD2, or BOD1L. Inactivating RADX prevents both MRE11- and DNA2-dependent fork degradation. Furthermore, RADX overexpression causes fork degradation that is dependent on these nucleases and fork reversal. The amount of RAD51 determines the fate of stalled replication …

Septal Secretion Of Protein A In Staphylococcus Aureus Requires Seca And Lipoteichoic Acid Synthesis, Wenqi Yu, Dominique Missiakas, Olaf Schneewind

Molecular Biosciences Faculty Publications

Surface proteins of Staphylococcus aureus are secreted across septal membranes for assembly into the bacterial cross-wall. This localized secretion requires the YSIRK/GXXS motif signal peptide, however the mechanisms supporting precursor trafficking are not known. We show here that the signal peptide of staphylococcal protein A (SpA) is cleaved at the YSIRK/GXXS motif. A SpA signal peptide mutant defective for YSIRK/GXXS cleavage is also impaired for septal secretion and co-purifies with SecA, SecDF and LtaS. SecA depletion blocks precursor targeting to septal membranes, whereas deletion of secDF diminishes SpA secretion into the cross-wall. Depletion of LtaS blocks lipoteichoic acid synthesis and …

Author Correction: Evolutionary History Of Plant Hosts And Fungal Symbionts Predicts The Strength Of Mycorrhizal Mutualism, Jason D. Hoeksema, James D. Bever, Sounak Chakraborty, V. Bala Chaudhary, Monique Gardes, Catherine A. Gehring, Miranda M. Hart, Elizabeth A. Housworth, Wittaya Kaonongbua, Marc J. Lajeunesse

Integrative Biology Faculty and Staff Publications

In the original published version of the article, the description of the fixed-effect predictor Inoculum Complexity presented in the Methods was incorrect. The incorrect description given was: “single fungal genus, multiple fungal genera, or whole soil inoculum”. The correct description is: “single fungal species, multiple fungal species, or whole soil inoculum”. The error does not affect any of the results presented in the paper. The correction has been made to the HTML and PDF versions of the paper.

A Multilevel Model Of Collaboration And Creativity, Michael Beyerlein, Soo Jeoung Han, Ambika Prasad

Organizational Performance and Workplace Learning Faculty Publications and Presentations

The progress of science requires the growth of understanding in both directions, downward from the whole to the parts and upward from the parts to the whole.

—FREEMAN DYSON, 1996, p.2

Creativity does not occur in a vacuum. An enabling environment must exist. Whether creativity is at the breakthrough level or a cluster of micro-level events, it requires environments with special facets—especially collaboration that enables knowledge sharing and idea synthesis.

Primary Liver Cancers, Part 2: Progression Pathways And Carcinogenesis, Kun Jiang, Barbara A. Centeno

Pathology and Cell Biology Faculty Publications

Hepatocellular carcinoma (HCC) and primary intrahepatic cholangiocarcinoma (ICC) have been increasing in incidence worldwide and are leading causes of cancer death. Studies of the molecular alterations leading to these carcinomas provide insights into the key mechanisms involved. A literature review was conducted to identify articles with information relevant to current understanding of the etiologies and molecular pathogenesis of HCC and ICC. Chronic inflammatory diseases are the key etiological risk factors for both HCC and ICC, although other diseases play a role, and for many ICCs, an underlying risk factor is not identified. Mutations in catenin beta 1 (CTNBB1) …

Recurrent Aneurysmal Bone Cyst Of The Distal Fibula Treated With Denosumab And Curettage, Philip B. Fontenot, Jose Jesurajan, Marilyn Bui, Damon Reed, Odion Binitie

Pathology and Cell Biology Faculty Publications

We report the case of a 13-year-old girl with multiple recurrences of an aneurysmal bone cyst of the distal fibula successfully treated with denosumab and curettage. Aneurysmal bone cysts are locally aggressive lesions with high rates of recurrence. The novel use of denosumab with curettage in a long bone showed a favorable outcome with no adverse events or signs of recurrence three years after treatment.

Primary Liver Cancers—Part 1: Histopathology, Differential Diagnoses, And Risk Stratification, Kun Jiang, Sameer Al-Diffalha, Barbara A. Centeno

Pathology and Cell Biology Faculty Publications

Hepatocellular carcinoma (HCC) and cholangiocarcinoma (CC) are the 2 most common primary malignant liver tumors, with hepatocellular and bile ductular differentiation, respectively. This article reviews the key histopathological findings of these 2 primary liver cancers and includes a review of the role of ancillary testing for differential diagnosis, risk stratification according to the American Joint Committee on Cancer (AJCC) staging recommendation, and a review of precancerous lesions. A literature review was conducted to identify articles with information relevant to precancerous precursors, current histopathological classification, ancillary testing, and risk stratification of primary malignant liver tumors. The histomorphology of normal liver, preinvasive …

Plasma Derived From Human Umbilical Cord Blood: Potential Cell-Additive Or Cell-Substitute Therapeutic For Neurodegenerative Diseases, Jared Ehrhart, Paul R. Sanberg, Svitlana Garbuzova-Davis

Neurosurgery and Brain Repair Faculty Publications

Limited efficacy of current therapeutic approaches for neurodegenerative disease has led to increased interest in alternative therapies. Cord blood plasma (CBP) derived from human umbilical cord blood (hUCB) may be a potential therapeutic. Benefits of CBP injection into rodent models of aging or ischaemic stroke have been demonstrated, though how benefits are elicited is still unclear. The present study evaluated various factors within the same samples of CBP and human adult blood plasma/sera (ABP/S). Also, autologous CBP effects vs. ABP/S or foetal bovine serum supplements on mononuclear cells from hUCB (MNC hUCB) in vitro were determined. Results showed significantly low …

Reduction Of Microhemorrhages In The Spinal Cord Of Symptomatic Als Mice After Intravenous Human Bone Marrow Stem Cell Transplantation Accompanies Repair Of The Blood-Spinal Cord Barrier, David J. Eve, George Steiner, Ajay Mahendrasah, Paul R. Sanberg, Crupa Kurien, Avery Thomson, Cesar V. Borlongan, Svitlana Garbuzova-Davis

Neurosurgery and Brain Repair Faculty Publications

Blood-spinal cord barrier (BSCB) alterations, including capillary rupture, have been demonstrated in animal models of amyotrophic lateral sclerosis (ALS) and ALS patients. To date, treatment to restore BSCB in ALS is underexplored. Here, we evaluated whether intravenous transplantation of human bone marrow CD34⁺ (hBM34⁺) cells into symptomatic ALS mice leads to restoration of capillary integrity in the spinal cord as determined by detection of microhemorrhages. Three different doses of hBM34⁺ cells (5 × 10⁴, 5 × 10⁵ or 1 × 10⁶) or media were intravenously injected into symptomatic G93A SOD1 mice …

Fabry-Perot Cavity Resonance Enabling Highly Polarization-Sensitive Double-Layer Gold Grating, Jehwan Hwang, Boram Oh, Yeongho Kim, Sinhara Rishi Malinda Silva, Jun Oh Kim, David A. Czaplewski, Jong Eun Ryu, Eun Kyu Kim, Augustine Urbas, Jiangfeng Zhou, Zahyun Ku, Sang Jun Lee

Physics Faculty Publications

We present experimental and theoretical investigations on the polarization properties of a single- and a double-layer gold (Au) grating, serving as a wire grid polarizer. Two layers of Au gratings form a cavity that effectively modulates the transmission and reflection of linearly polarized light. Theoretical calculations based on a transfer matrix method reveals that the double-layer Au grating structure creates an optical cavity exhibiting Fabry-Perot (FP) resonance modes. As compared to a single-layer grating, the FP cavity resonance modes of the double-layer grating significantly enhance the transmission of the transverse magnetic (TM) mode, while suppressing the transmission of the transverse …

Origin Of Metastable Oligomers And Their Effects On Amyloid Fibril Self-Assembly, Filip Hasecke, Tatiana Miti, Carlos Perez, Jeremy Barton, Daniel Schölzel, Lothar Gremer, Clara S. R. Grüning, Garrett Matthews, Georg Meisl, Tuomas P. J. Knowles, Ghanim Ullah, Martin M. Muschol

Physics Faculty Publications

Assembly of rigid amyloid fibrils with their characteristic cross-β sheet structure is a molecular signature of numerous neurodegenerative and non-neuropathic disorders. Frequently large populations of small globular amyloid oligomers (gOs) and curvilinear fibrils (CFs) precede the formation of late-stage rigid fibrils (RFs), and have been implicated in amyloid toxicity. Yet our understanding of the origin of these metastable oligomers, their role as on-pathway precursors or off-pathway competitors, and their effects on the self-assembly of amyloid fibrils remains incomplete. Using two unrelated amyloid proteins, amyloid-β and lysozyme, we find that gO/CF formation, analogous to micelle formation by surfactants, is delineated by …

Feasibility Assessment Of Physical Factors Of Rectal Cancer Short-Course Chemoradiotherapy With Delayed Surgery, Jihye Koo, Mijoo Chung, Weon Kuu Chung, Sunsik Jin, Dong Wook Kim

Physics Faculty Publications

To verify the correlations between the clinical outcomes and physical factors of short-course chemoradiotherapy (SCRT) and long-course chemoradiotherapy (LCRT) with delayed surgery in patients with rectal cancer. Seventy-two patients with rectal cancer were enrolled in this study. Nineteen patients were treated with SCRT (25 Gy, 5 fractions) by intensity-modulated radiation therapy (IMRT), and 53 patients were treated with LCRT (50.4 Gy, 28 fractions) by three-dimensional conformal radiation therapy (3DCRT). Various physical factors for the target and organs at risk (OARs) were calculated to compare the clinical outcomes. The organ equivalent dose (OED) and lifetime attributable risk (LAR) of bowels and …

Indigenous Siberian Food Sharing Networks: Social Innovation In A Transforming Economy, John P. Ziker, Karen S. Fulk

Anthropology Faculty Publications and Presentations

The sustainability of indigenous communities in the Arctic, and the vulnerable households within, is in large part dependent on their continuing food security. A social food-sharing network within the Ust’-Avam community on the Taimyr Peninsula in northern Siberia is analyzed for underlying patterns of resilience and key evolutionarily stable strategies supporting cooperative behavior. Factors influencing the network include interhousehold relatedness, reciprocal sharing, and interaction effects. Social association also influences sharing. Evidence for multiple determinants of food sharing in this sample is discussed in reference to major evolutionary hypotheses and comparable studies. In sum, the findings illustrate the robustness of self-organizing …

Including Phenotypic Causal Networks In Genome-Wide Association Studies Using Mixed Effects Structural Equation Models, Mehdi Momen, Ahmad Ayatollahi Mehrgardi, Mahmoud Amiri Roudbar, Andreas Kranis, Renan Mercuri Pinto, Bruno D. Valente, Gota Morota, Guilherme J.M. Rosa, Daniel Gianola

Department of Animal Science: Faculty Publications

Background: Phenotypic networks describing putative causal relationship among multiple phenotypes can be used to infer single-nucleotide polymorphism (SNP) effects in genome-wide association studies (GWAS). In GWAS with multiple phenotypes, reconstructing underlying causal structures among traits and SNPs using a single statistical framework is essential for understanding the entirety of genotype-phenotype maps. A structural equation model (SEM) can be used for such purpose.

Methods: We applied SEM to GWAS (SEM-GWAS) in chickens, taking into account putative causal relationships among body weight (BW), breast meat (BW), hen-house production (HHP), and SNPs. We assessed the performance of SEM-GWAS by comparing the model results …

Big Data Analytics And Precision Animal Agriculture Symposium: Machine Learning And Data Mining Advance Predictive Big Data Analysis In Precision Animal Agriculture, Gota Morota, Ricardo V. Ventura, Fabyano F. Silva, Masanori Koyama, Samodha C. Fernando

Department of Animal Science: Faculty Publications

Precision animal agriculture is poised to rise to prominence in the livestock enterprise in the domains of management, production, welfare, sustainability, health surveillance, and environmental footprint. Considerable progress has been made in the use of tools to routinely monitor and collect information from animals and farms in a less laborious manner than before. These efforts have enabled the animal sciences to embark on information technology-driven discoveries to improve animal agriculture. However, the growing amount and complexity of data generated by fully automated, high-throughput data recording or phenotyping platforms, including digital images, sensor and sound data, unmanned systems, and information obtained …

The Influence Of Fat And Hemicellulose On Methane Production And Energy Utilization In Lactating Jersey Cattle, O. R. Drehmel, T. M. Brown-Brandl, J. V. Judy, S. C. Fernando, P. S. Miller, K. E. Hales, Paul J. Kononoff

Department of Animal Science: Faculty Publications

Feeding fat to lactating dairy cows may reduce methane production. Relative to cellulose, fermentation of hemicellulose is believed to result in less methane; however, these factors have not been studied simultaneously. Eight multiparous, lactating Jersey cows averaging (±SD) 98 ± 30.8 d in milk and body weight of 439.3 ± 56.7 kg were used in a twice-replicated 4 × 4 Latin square to determine the effects of fat and hemicellulose on energy utilization and methane production using a headbox-type indirect calorimetry method. To manipulate the concentration of fat, porcine tallow was included at either 0 or 2% of the diet …

Predictive Ability Of Genome-Assisted Statistical Models Under Various Forms Of Gene Action, Mehdi Momen, Ahmad Ayatollahi Mehrgardi, Ayyub Sheikhi, Andreas Kranis, Llibertat Tussell, Gota Morota, Guilherme J. M. Rosa, Daniel Gianola

Department of Animal Science: Faculty Publications

Recent work has suggested that the performance of prediction models for complex traits may depend on the architecture of the target traits. Here we compared several prediction models with respect to their ability of predicting phenotypes under various statistical architectures of gene action: (1) purely additive, (2) additive and dominance, (3) additive, dominance, and two-locus epistasis, and (4) purely epistatic settings. Simulation and a real chicken dataset were used. Fourteen prediction models were compared: BayesA, BayesB, BayesC, Bayesian LASSO, Bayesian ridge regression, elastic net, genomic best linear unbiased prediction, a Gaussian process, LASSO, random forests, reproducing kernel Hilbert spaces regression, …