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Executive Committee - Minutes, 2/20/2024, Academic Senate

Academic Senate Minutes

No abstract provided.

Stem Lunch #2: Reconsidering Class Time Through Flipped Learning, Dan Mattern, Mike Gill, Winn Hutchcraft, Bibek Kattel

Events

In flipped learning, first contact with new concepts moves outside the classroom to individual study time so that the classroom is transformed into a dynamic, interactive learning environment. In this session, we’ll hear from a panel of UM instructors -- Dan Mattern (chemistry), Mike Gill (chemical engineering), Winn Hutchcraft, and Bibek Kattel (electrical engineering) -- about how they take a flipped approach to their courses. Lunch from Grit. (Tuesday, February 20, 2024, 12:00-1:00 p.m., Student Union 326)

Soil Health Class-2: Soil Ph, Jiyul Chang, Becki Ritter, Dean Feller, Madhav P. Nepal

iLEARN Teaching Resources

This lesson on soil pH explores the crucial role of soil acidity or alkalinity in plant health and productivity. Soil pH, or potential of Hydrogen ions in soil, is a measure of how acidic or basic soil is. Appropriate soil pH condition is important to grow plants. If soil pH is not appropriate, plants cannot absorb nutrients from soil well, then plants cannot grow well and cannot produce vegetables. This class will show what an appropriate soil pH condition is and how to measure soil pH of garden using simple test kit. Covering the pH scale from acidic to alkaline, …

Misinformation, Social Media, And Opportunities For Content-Based Regulation Within The Constraints Of The United States Constitution's Free Speech Guarantee, Leslie Gielow Jacobs

University of the Pacific Law Review

No abstract provided.

Effects Of Micromachining On Anti-Oxidant Elution From A Mechanically-Adaptive Polymer, Natalie N. Mueller, Youjoung Kim, Mali Ya Mungu Ocoko, Peter Dernelle, Ishani Kale, Simran Patwa, Anna Clarissa Hermoso, Deeksha Chirra, Jeffrey R. Capadona, Allison E. Hess-Dunning

Faculty Scholarship

Intracortical microelectrodes (IMEs) can be used to restore motor and sensory function as a part of brain–computer interfaces in individuals with neuromusculoskeletal disorders. However, the neuroinflammatory response to IMEs can result in their premature failure, leading to reduced therapeutic efficacy. Mechanically-adaptive, resveratrol-eluting (MARE) neural probes target two mechanisms believed to contribute to the neuroinflammatory response by reducing the mechanical mismatch between the brain tissue and device, as well as locally delivering an antioxidant therapeutic. To create the mechanically-adaptive substrate, a dispersion, casting, and evaporation method is used, followed by a microfabrication process to integrate functional recording electrodes on the material. …

Novel Ancestry-Specific Primary Open-Angle Glaucoma Loci And Shared Biology With Vascular Mechanisms And Cell Proliferation, Valeria Lo Faro, Arjun Bhattacharya, Wei Zhou, Dan Zhou, Ying Wang, Kristi Läll, Masahiro Kanai, Esteban Lopera-Maya, Peter Straub, Priyanka Pawar, Ran Tao, Xue Zhong, Shinichi Namba, Global Biobank Meta-Analysis Initiative, Serena Sanna, Ilja M Nolte, Yukinori Okada, Nathan Ingold, Stuart Macgregor, Harold Snieder, Ida Surakka, Jonathan Shortt, Chris Gignoux, Nicholas Rafaels, Kristy Crooks, Anurag Verma, Shefali S Verma, Lindsay Guare, Daniel J Rader, Cristen Willer, Alicia R Martin, Milam A Brantley, Eric R Gamazon, Nomdo M Jansonius, Karen Joos, Nancy J Cox, Jibril Hirbo

Faculty, Staff and Student Publications

Primary open-angle glaucoma (POAG), a leading cause of irreversible blindness globally, shows disparity in prevalence and manifestations across ancestries. We perform meta-analysis across 15 biobanks (of the Global Biobank Meta-analysis Initiative) (n = 1,487,441: cases = 26,848) and merge with previous multi-ancestry studies, with the combined dataset representing the largest and most diverse POAG study to date (n = 1,478,037: cases = 46,325) and identify 17 novel significant loci, 5 of which were ancestry specific. Gene-enrichment and transcriptome-wide association analyses implicate vascular and cancer genes, a fifth of which are primary ciliary related. We perform an extensive statistical analysis of …

Dieta De La Milpa: A Culturally-Concordant Plant-Based Dietary Pattern For Hispanic/Latine People With Chronic Kidney Disease, Annabel Biruete, Gabriela Leal-Escobar, Angeles Espinosa-Cuevas, Luis Mojica, Brandon M. Kistler

Purdue University Libraries Open Access Publishing Fund

Chronic kidney disease (CKD) disproportionately affects minorities in the United States, including the Hispanic/Latine population, and is a public health concern in Latin American countries. An emphasis on healthy dietary patterns, including the Mediterranean and the Dietary Approaches to Stop Hypertension (DASH) diets, has been suggested as they are associated with a lower incidence of CKD, slower CKD progression, and lower mortality in kidney failure. However, their applicability may be limited in people from Latin America. The Dieta de la Milpa (Diet of the Cornfield) was recently described as the dietary pattern of choice for people from Mesoamerica (Central Mexico …

Burial And Subsequent Growth Of Rigid Ryegrass (Lolium Rigidum) And Ripgut Brome (Bromus Diandrus) Following Strategic Deep Tillage, Catherine Borger, George Mwenda, Sarah Collins, Stephen Davies, Arslan Peerzada Dr, Andrew Van Burgel

Biosecurity Research Articles

Soil amelioration via strategic deep tillage is occasionally utilised within the conservation tillage systems to alleviate soil constraints, but its impact on weed seed burial and subsequent growth within the agronomic system is poorly understood. This study assessed the effects of different strategic deep tillage practices, including soil loosening (deep ripping), soil mixing (rotary spading), or soil inversion (mouldboard plough), on weed seed burial and subsequent weed growth, compared to a no-till control. The tillage practices were applied in 2019 at Yerecoin and Darkan, Western Australia, and data on weed seed burial and growth was collected during the following three-year …

A Comprehensive Patient-Specific Prediction Model For Temporomandibular Joint Osteoarthritis Progression, Najla Al Turkestani, Tengfei Li, Jonas Bianchi, Marcela Gurgel, Juan Prieto, Hina Shah, Erika Benavides, Fabiana Soki, Yuji Mishina, Margherita Fontana, Arvind Rao, Hongtu Zhu, Lucia Cevidanes

Pacific Faculty Work

Temporomandibular joint osteoarthritis (TMJ OA) is a prevalent degenerative disease characterized by chronic pain and impaired jaw function. The complexity of TMJ OA has hindered the development of prognostic tools, posing a significant challenge in timely, patient-specific management. Addressing this gap, our research employs a comprehensive, multidimensional approach to advance TMJ OA prognostication. We conducted a prospective study with 106 subjects, 74 of whom were followed up after 2 to 3 y of conservative treatment. Central to our methodology is the development of an innovative, open-source predictive modeling framework, the Ensemble via Hierarchical Predictions through Nested cross-validation tool (EHPN). This …

Executive Committee - Agenda 2/20/2024, Academic Senate

Academic Senate Agendas

No abstract provided.

Susceptible Windows Of Prenatal And Postnatal Fine Particulate Matter Exposures And Attention-Deficit Hyperactivity Disorder Symptoms In Early Childhood, Wei-Jen Chen, Alison M Rector-Houze, Mònica Guxens, Carmen Iñiguez, Michael D Swartz, Elaine Symanski, Jesús Ibarluzea, Antonia Valentin, Aitana Lertxundi, Llúcia González-Safont, Jordi Sunyer, Kristina W Whitworth

Faculty, Staff and Student Publications

Few prior studies have explored windows of susceptibility to fine particulate matter (PM_2.5) in both the prenatal and postnatal periods and children’s attention-deficit/hyperactivity disorder (ADHD) symptoms.

We analyzed data from 1,416 mother-child pairs from the Spanish INMA (INfancia y Medio Ambiente) Study (2003–2008). Around 5 years of age, teachers reported the number of ADHD symptoms (i.e., inattention, hyperactivity/impulsivity) using the ADHD Diagnostic and Statistical Manual of Mental Disorders. Around 7 years of age, parents completed the Conner’s Parent Rating Scales, from which we evaluated the ADHD index, cognitive problems/inattention, hyperactivity, and oppositional subscales, reported as age- and sex-standardized …

Annual Research Review: The Power Of Predictability – Patterns Of Signals In Early Life Shape Neurodevelopment And Mental Health Trajectories, Elysia Poggi Davis, Laura M. Glynn

Psychology Faculty Articles and Research

The global burden of early life adversity (ELA) is profound. The World Health Organization has estimated that ELA accounts for almost 30% of all psychiatric cases. Yet, our ability to identify which individuals exposed to ELA will develop mental illness remains poor and there is a critical need to identify underlying pathways and mechanisms. This review proposes unpredictability as an understudied aspect of ELA that is tractable and presents a conceptual model that includes biologically plausible mechanistic pathways by which unpredictability impacts the developing brain. The model is supported by a synthesis of published and new data illustrating the significant …

The Fuxi Farm: Practice Exploration And Reflection On Integrated Innovation Of Smart Agriculture Technology, Yucheng Zhang, Xiaobo Zhang, Shuqin Gao, Congcong Zheng, Jingyao Zhang, Ya Wen, Lujun Li, Zhuo Wang, Tie Li, Honglong Zhao

Bulletin of Chinese Academy of Sciences (Chinese Version)

Smart agriculture plays a pivotal role in enhancing food security by optimizing resource use and improving crop yields through the application of AI technologies. The establishment of smart farms is critical to rapidly integrating AI into agricultural production, offering platforms for both the deployment and testing of AI solutions and equipment. This paper examines the development of smart farms, with a focus on practices from developed countries, and assesses the current status of smart farming in China. We then focus on exploring the content, pathways, and practices for constructing a smart agricultural production system in China through the establishment of …

Accelerate Innovation Of Forage Intelligent Breeding Technology: Reflection And Suggestions, Haichun Jing, Weijuan Hu, Jingbo Jin, Jingyu Zhang, Yao Zhou, Yue Gong, Gang Yao, Lei Wang, Kang Chong

Bulletin of Chinese Academy of Sciences (Chinese Version)

The world is facing unprecedented changes today, with continuous population growth intensifying the pressure on food demand. The shift towards diversified dietary structures has increased the demand for feed grains, while climate change further threatens China’s food security by affecting agricultural productivity and carbon sequestration economy. At present, China has entered a new era of food supply and feed. As the food supply for animals, forage is the core component of feed, and its industrial development has profound strategic significance for ensuring national food security. This study analyzes the current situation of China’s forage seed industry, summarizes the cutting-edge achievements …

Experience And Enlightenment Of Eu Natura 2000 Protected Area Network, Ling Tang, Baorong Huang, Tong Jin, Xuetian Hu

Bulletin of Chinese Academy of Sciences (Chinese Version)

The EU Natura 2000 protected area network, covering nearly 19% of the land and 10% of the sea in the EU, has played an important role in protecting biodiversity and enhancing regional socio-economic well-being, and is regarded as the most successful protected area network in the world. Its successful experience is mainly reflected in five aspects. (1) The adoption of regional biodiversity conservation legislation and the promotion of compliance with the law by member countries to promote the construction of the protected area network. (2) The establishment of a decision-making and implementation mechanism that combines the EU resolution process and …

Panorama Of Human Embryo-Derived Cells In Biomedicine And Progress In Their Research And Regulation, Jianchao Gao, Yaojin Peng, Wei Wei, Shuang Lu, Chenyan Gao

Bulletin of Chinese Academy of Sciences (Chinese Version)

Since the establishment of the first human diploid cell line derived from aborted fetal tissue in the 1960s, human embryoderived cells have been widely used in biomedical field and significantly contributes to improving human health. In recent years, human pluripotent stem cells, including human embryonic stem cells (hESCs), have shown great therapeutic potential in regenerative medicine, and thus received great attention from governments and the public. However, due to various factors such as history, culture, religious beliefs, ethics and morality, research and application involving human embryo-derived cells have been controversial worldwide. This study explores the history and progress of human …

Uchl1 Is A Potential Molecular Indicator And Therapeutic Target For Neuroendocrine Carcinomas, Shiqin Liu, Timothy Chai, Fernando Garcia-Marques, Qingqing Yin, En-Chi Hsu, Michelle Shen, Angus Martin Shaw Toland, Abel Bermudez, Alifiani B Hartono, Christopher F Massey, Chung S Lee, Liwei Zheng, Maya Baron, Caden J Denning, Merve Aslan, Holly M Nguyen, Rosalie Nolley, Amina Zoubeidi, Millie Das, Christian A Kunder, Brooke E Howitt, H Tom Soh, Irving L Weissman, Michael A Liss, Arnold I Chin, James D Brooks, Eva Corey, Sharon J Pitteri, Jiaoti Huang, Tanya Stoyanova

Faculty, Staff and Student Publications

Neuroendocrine carcinomas, such as neuroendocrine prostate cancer and small-cell lung cancer, commonly have a poor prognosis and limited therapeutic options. We report that ubiquitin carboxy-terminal hydrolase L1 (UCHL1), a deubiquitinating enzyme, is elevated in tissues and plasma from patients with neuroendocrine carcinomas. Loss of UCHL1 decreases tumor growth and inhibits metastasis of these malignancies. UCHL1 maintains neuroendocrine differentiation and promotes cancer progression by regulating nucleoporin, POM121, and p53. UCHL1 binds, deubiquitinates, and stabilizes POM121 to regulate POM121-associated nuclear transport of E2F1 and c-MYC. Treatment with the UCHL1 inhibitor LDN-57444 slows tumor growth and metastasis across neuroendocrine carcinomas. The combination of …

An Extended Bayesian Semi-Mechanistic Dose-Finding Design For Phase I Oncology Trials Using Pharmacokinetic And Pharmacodynamic Information, Chao Yang, Yisheng Li

Faculty, Staff and Student Publications

We propose a model-based, semi-mechanistic dose-finding (SDF) design for phase I oncology trials that incorporates pharmacokinetic/pharmacodynamic (PK/PD) information when modeling the dose-toxicity relationship. This design is motivated by a phase Ib/II clinical trial of anti-CD20/CD3 T cell therapy in non-Hodgkin lymphoma patients; it extends a recently proposed SDF model framework by incorporating measurements of a PD biomarker relevant to the primary dose-limiting toxicity (DLT). We propose joint Bayesian modeling of the PK, PD, and DLT outcomes. Our extensive simulation studies show that on average the proposed design outperforms some common phase I trial designs, including modified toxicity probability interval (mTPI) …

Molecular, Metabolic, And Subcellular Mapping Of The Tumor Immune Microenvironment Via 3d Targeted And Non-Targeted Multiplex Multi-Omics Analyses, Sammy Ferri-Borgogno, Jared K Burks, Erin H Seeley, Trevor D Mckee, Danielle L Stolley, Akshay V Basi, Javier A Gomez, Basant T Gamal, Shamini Ayyadhury, Barrett C Lawson, Melinda S Yates, Michael J Birrer, Karen H Lu, Samuel C Mok

Faculty, Staff and Student Publications

Most platforms used for the molecular reconstruction of the tumor-immune microenvironment (TIME) of a solid tumor fail to explore the spatial context of the three-dimensional (3D) space of the tumor at a single-cell resolution, and thus lack information about cell-cell or cell-extracellular matrix (ECM) interactions. To address this issue, a pipeline which integrated multiplex spatially resolved multi-omics platforms was developed to identify crosstalk signaling networks among various cell types and the ECM in the 3D TIME of two FFPE (formalin-fixed paraffin embedded) gynecologic tumor samples. These platforms include non-targeted mass spectrometry imaging (glycans, metabolites, and peptides) and Stereo-seq (spatial transcriptomics) …

Circulating Microrna Biomarkers Of Thiazide Response In Hypertension, Lakshmi Manasa S Chekka, Marwa Tantawy, Taimour Langaee, Danxin Wang, Rolf Renne, Arlene B Chapman, John G Gums, Eric Boerwinkle, Rhonda M Cooper-Dehoff, Julie A Johnson

Faculty, Staff and Student Publications

Background: Thiazide diuretics are the second most frequently prescribed class of antihypertensives, but up to 50% of patients with hypertension have minimal antihypertensive response to thiazides. We explored circulating microRNAs (miRNAs) in search of predictive biomarkers of thiazide response.

Methods and results: We profiled 754 miRNAs in baseline plasma samples of 36 hypertensive European American adults treated with hydrochlorothiazide, categorized into responders (n=18) and nonresponders (n=18) on the basis of diastolic blood pressure response to hydrochlorothiazide. miRNAs with ≥2.5-fold differential expression between responders and nonresponders were considered for validation in 3 cohorts (n=50 each): hydrochlorothiazide-treated European Americans, chlorthalidone-treated European Americans, …

Current Strategies For Increasing Knock-In Efficiency In Crispr/Cas9-Based Approaches, Andrés Felipe Leal, Angelica María Herreno-Pachón, Eliana Benincore-Flórez, Amali Karunathilaka, Shunji Tomatsu

Department of Pediatrics Faculty Papers

Since its discovery in 2012, the clustered regularly interspaced short palindromic repeats (CRISPR) and CRISPR-associated protein 9 (Cas9) system has supposed a promising panorama for developing novel and highly precise genome editing-based gene therapy (GT) alternatives, leading to overcoming the challenges associated with classical GT. Classical GT aims to deliver transgenes to the cells via their random integration in the genome or episomal persistence into the nucleus through lentivirus (LV) or adeno-associated virus (AAV), respectively. Although high transgene expression efficiency is achieved by using either LV or AAV, their nature can result in severe side effects in humans. For instance, …

Commercially Available Products In Increase Soil Water-Holding Capacity, Shital Poudyal, Jake Powell, Rowe Zwahlen, Grant Cardon

All Current Publications

Although adding organic matter is traditionally the most effective way to enhance soil water-holding capacity, several commercial products in the market also have the potential to increase soil water-holding capacity. In this fact sheet, we discuss the properties and characteristics of those commercially available products and recommended application rates. We also explore some limitations of using these products.

Inhibition Of Csf1r And Kit With Pexidartinib Reduces Inflammatory Signaling And Cell Viability In Endometriosis, Timothy N Dunn, Dominique I Cope, Suni Tang, Tirupataiah Sirupangi, Sydney E Parks, Zian Liao, Fei Yuan, Chad J Creighton, Ramya P Masand, Linda Alpuing Radilla, Xiaoming Guan, Laura Detti, Diana Monsivais, Martin M Matzuk

Faculty, Staff and Students Publications

Endometriosis is a common and debilitating disease, affecting ∼170 million women worldwide. Affected patients have limited therapeutic options such as hormonal suppression or surgical excision of the lesions, though therapies are often not completely curative. Targeting receptor tyrosine kinases (RTKs) could provide a nonhormonal treatment option for endometriosis. We determined that 2 RTKs, macrophage-colony stimulating factor 1 receptor (CSF1R) and mast/stem cell growth factor receptor KIT (KIT), are overexpressed in endometriotic lesions and could be novel nonhormonal therapeutic targets for endometriosis. The kinase activity of CSF1R and KIT is suppressed by pexidartinib, a small molecule inhibitor that was recently approved …

Imputation Of Plasma Lipid Species To Facilitate Integration Of Lipidomic Datasets, Aleksandar Dakic, Jingqin Wu, Tingting Wang, Kevin Huynh, Natalie Mellett, Thy Duong, Habtamu B. Beyene, Dianna J. Magliano, Joanne E. Curran, John Blangero

School of Medicine Publications

Recent advancements in plasma lipidomic profiling methodology have significantly increased specificity and accuracy of lipid measurements. This evolution, driven by improved chromatographic and mass spectrometric resolution of newer platforms, has made it challenging to align datasets created at different times, or on different platforms. Here we present a framework for harmonising such plasma lipidomic datasets with different levels of granularity in their lipid measurements. Our method utilises elastic-net prediction models, constructed from high-resolution lipidomics reference datasets, to predict unmeasured lipid species in lower-resolution studies. The approach involves (1) constructing composite lipid measures in the reference dataset that map to less …

Possible Role Of The One-Half Heuristic In Overconfidence Research, Vojtěch Zíka

ESI Working Papers

Overconfidence research often involves estimating performance within a fixed range. Recent studies suggest that overprecision is affected by central tendency bias, the tendency to estimate near the center of a perceived distribution. This paper examines whether a similar pattern influences the other two overconfidence types, overestimation and overplacement. In a laboratory experiment (N = 120), participants estimated their own and the average performance over five rounds of ten Rock–Paper–Scissors games. Each round earned for up to 40 points, but average performance varied across three treatments, with means of 16.6, 20, and 23.3 points. The main question was whether this manipulation …

Multimodal Neuro-Nanotechnology: Challenging The Existing Paradigm In Glioblastoma Therapy, Sergej Kudruk, Connor M Forsyth, Michelle Z Dion, Jenny K Hedlund Orbeck, Jingqin Luo, Robyn S Klein, Albert H Kim, Amy B Heimberger, Chad A Mirkin, Alexander H Stegh, Natalie Artzi

2020-Current year OA Pubs

Integrating multimodal neuro- and nanotechnology-enabled precision immunotherapies with extant systemic immunotherapies may finally provide a significant breakthrough for combatting glioblastoma (GBM). The potency of this approach lies in its ability to train the immune system to efficiently identify and eradicate cancer cells, thereby creating anti-tumor immune memory while minimizing multi-mechanistic immune suppression. A critical aspect of these therapies is the controlled, spatiotemporal delivery of structurally defined nanotherapeutics into the GBM tumor microenvironment (TME). Architectures such as spherical nucleic acids or poly(beta-amino ester)/dendrimer-based nanoparticles have shown promising results in preclinical models due to their multivalency and abilities to activate antigen-presenting cells …

I-Prf : A Smart Cell Scaffold, Dr.Lochini Suriya

Annual Research Symposium

In regenerative dentistry, platelet rich plasma (PRP) has been used as a supra-physiological concentration of autologous growth factors capable of encouraging tissue regeneration. Despite this, there have been concerns raised about the use of anticoagulants, which are known to impair wound healing. In this work, a liquid formulation of platelet rich fibrin (PRF) called injectable-PRF (I-PRF) was studied without the need of anti-coagulants .

Development Of A Protocol For Obtaining Biological Samples For Genetic Testing From Remote Individuals, Noah R. Schultz, Brandon J. Burger, Jacob Warner, Alfred Amendolara, Jameson Williams, Molly Henley, Layla Risdon, Alessandra Maisie Rivera, Amanda Page, Millicent Jiang, Denisse Castaneda, Garret Phillips, John A. Kriak, Kyle B. Bills, David W. Sant

Annual Research Symposium

Pharmacogenomic sequencing allows individuals to learn more about how they will respond to certain medications but requires shipping of a biological sample. One complication of sending biological samples to remote laboratories is stability. Blood generally yields sufficient quantities of high-quality DNA but requires a clinic visit. Saliva and buccal swabs are routinely used for DNA extractions, but the DNA quality is notoriously low due to the presence of bacteria in the mouth. Additionally, elderly individuals have difficulty producing enough saliva for testing, and the tubes contain several milliliters of liquid and shipping requires special considerations. Dried blood spot cards, which …

Surface Modifications Of Orthodontic Bone Screws - A Novel Approach, Sai Kalyan Menta Dr, Ravi M. S

Annual Research Symposium

Anchorage control plays a key role in the correction of malocclusion. With the advent of orthodontic bone screws, attaining absolute anchorage control has become hassle free. They have the advantages of low cost, simple surgical placement, and ease of removal; therefore, they are convenient in the treatment of various malocclusions. Although the clinical stability of bone screws is exceptionally high, stability of the bone screws is compromised by factors such as microbial contamination and morphological defects. To overcome this, surface modifications are introduced to enhance the stability of the bone screws.

The Transformative Potential Of Ligaplants In Replicating Natural Tooth Connections, Mohan Prasad, Mohan Muthu Kumar

Annual Research Symposium

Over the past decade, dental implants have become the gold standard in tooth replacement, with osseointegrated implants reigning supreme. However, these implants present certain limitations, notably the absence of the periodontal ligament (PDL). In response to this challenge, innovative periodontal ligament implants, known as ligaplants, have emerged. By combining tissue engineering principles with cutting-edge implant materials, ligaplants offer a promising alternative to traditional implants, showcasing superior biological performance and potentially extending prosthetic life.Dental implantology has witnessed a transformative shift over the last ten years, with osseointegrated implants dominating the landscape of tooth replacement. Despite their widespread adoption, these implants face …