Digital Commons Network^™

Usage Of E-Resources By The Users Of The Agricultural University Libraries In India, Monisha Mishra, Dr. Krushna Chandra Panda

Library Philosophy and Practice (e-journal)

This paper, a part of the author’s doctoral research, examines the various e-resources to which the users of Agricultural Universities in India have access and how frequently these resources are being used by agricultural scientists, researchers, students. Data collected through a structured questionnaire from 242 users and 20 Librarians from 20 State-run Agricultural Universities in India constitute the database for the present investigation. Additionally, the study also investigates the membership of various consortiums availed by the users and whether the respondents have access to some of the key e-resources of other institutions including frequency of usage of subject gateways, blogs …

Connecting The Dots: Relation Mapping Using Literature Connector And Network Visualization, Shaveta Azad, Priyanka ., Atasi Sinhababu, Rupak Chakravarty

Library Philosophy and Practice (e-journal)

Inciteful consists of two different tools for developing our understanding and establishing connection between different research domains. In the present study, Literature Connector (LC) has been used portraying relationship and association between areas of research including subject/topical domains. It provides an interactive visualization showing how they are connected by the literature facilitating interdisciplinary research (IDR). LC identifies the shortest paths between the papers selected for the study by generating an interactive graph, along with search and filters. The study utilized Literature Connector (LC) to assess the association between Sustainable Development Growth 4 (SDG4) with Library and Information Science (LIS). These …

Application Of Technology Resources To Library Information Processing In Academic Libraries In Nigeria, Peter Olubunmi Olubiyo

Library Philosophy and Practice (e-journal)

The paper is about Application of Technology Resources to Library Information Processing in Academic Libraries in Nigeria. The electronic age has made users search beyond print media while looking for information resources. Latest research work are sent across the world through electronic means and no serious researcher of this age ever depends solely on print media rather the use of internet, websites, e-mail etc are the language of the day. Functionally, university libraries of the current dispensation provide access to both print and electronic resources to serve users and to increase the visibility of their institutions, and as a measure …

Evaluation Of The Availability And Utilization Status Of Texts In Core Subjects In Primary Schools’ Libraries, Valentine Joseph Owan, Daniel Clement Agurokpon, Abahcham V. Owan

Library Philosophy and Practice (e-journal)

The study evaluated primary texts' availability and utilisation status in core subjects (English Language, Mathematics, Social Studies and Basic Science) in primary schools’ libraries in Obubra Local Government Area of Cross River State. The researchers formulated six null hypotheses to guide the study. The study adopted the descriptive survey research design. The target population of this study comprised a total of 30,036 teachers and pupils, distributed across the 73 public primary schools. A proportionate stratified sampling technique was used to select 30% and 5% of the available teachers and pupils in each school, resulting in a sample of 270 respondents. …

A Perusal On Preservation And Conservation Techniques In The Government Aided College Libraries Of Diamond Harbour And Alipore Subdivision In South 24 Parganas, Bibhash Ram Singha, Bikash Kumar Halder

Library Philosophy and Practice (e-journal)

The present study is exhibited the preservation and conservation techniques in the college libraries of Diamond Harbour and Alipore subdivisions in the district of South 24parganas. It also discusses degradation problems of print and non-print materials, causes of deterioration of library documents, and different obstacles to using preservation techniques. To secure the library materials in a good manner need to apply the preservation and conservation techniques which include cleaning and dusting, use of insecticides and insect repellent such as Thymol, Dichlorovos, Dursban, Naphthalene balls, Neem leaf, etc., besides that there is a provision for security systems of the college libraries …

Information Needs And Information-Seeking Behavior Of Undergraduate Students: A Remote Area Perspective, Shahzadi Humbhi, Shabbir Ahmed Tareen, Alia Humbhi

Library Philosophy and Practice (e-journal)

Nowadays it is the prerequisite of the libraries to know the information-seeking behavior of the users and provide the services according to their needs. The prime purpose of the current study is to examine the information needs, information sources, information-seeking behaviors. As well as find out the challenges the undergraduate face while using the library. The survey research method was used to collect the data. With the help of a structured questionnaire, the data was collected and a random sampling method was used for this purpose. The results of the study revealed that 220(62%) undergraduates need information for their semester …

Machine Learning–Driven Multiscale Modeling Reveals Lipid-Dependent Dynamics Of Ras Signaling Proteins, Helgi I. Ingolfsson, Chris Neale, Timothy S. Carpenter, Rebika Shrestha, Cesar A. Lopez, Timothy H. Tran, Tomas Oppelstrup, Harsh Bhatia, Liam G. Stanton, Xiaohua Zhang, Shiv Sundram, Francesco Di Natale, Animesh Agarwal, Gautham Dharuman, Sara I.L. Kokkila Schumacher, Thomas Turbyville, Gulcin Gulten, Que N. Van, For Full Author List, See Comments Below

Faculty Research, Scholarly, and Creative Activity

RAS is a signaling protein associated with the cell membrane that is mutated in up to 30% of human cancers. RAS signaling has been proposed to be regulated by dynamic heterogeneity of the cell membrane. Investigating such a mechanism requires near-atomistic detail at macroscopic temporal and spatial scales, which is not possible with conventional computational or experimental techniques. We demonstrate here a multiscale simulation infrastructure that uses machine learning to create a scale-bridging ensemble of over 100,000 simulations of active wild-type KRAS on a complex, asymmetric membrane. Initialized and validated with experimental data (including a new structure of active wild-type …

Toward A New Chicanidad: New Tribalism, Environmental Justice, And China, Alejandro Ollin Prado

NACCS Annual Conference Proceedings

No abstract provided.

Part Two: Los Relatos De La Vida: Paths To Conocimiento Chisme Save Lives: Chisme, And #Metoo As Storytelling Interventions In Sexual Violence, Amanda Tovar

NACCS Annual Conference Proceedings

No abstract provided.

Defining Sex: Revisiting Bostock V. Clayton County Two Years Later, Laura Kerharo

Themis: Research Journal of Justice Studies and Forensic Science

LGBT rights in the United States have come a long way in the past few decades. Cases such as Lawrence v. Texas and Obergefell v. Hodges have shown the critical role of the Supreme Court in attaining equality for LGBT people. Bostock v. Clayton County is the latest case of this kind. Bostock firmly established that workplace discrimination based on gay or transgender status was forbidden under Title VII of the Civil Rights Act of 1964. This essay examines the case’s majority opinion—written by conservative Justice Gorsuch—and Justice Kavanagh’s dissent. It establishes that Justice Gorsuch used a living textualism approach …

Industry And Malady: Entanglements Of Power, Culture, And Disease Afflicting Breast Cancer Patients In The Bay Area, Brieann N. Deornellas

Master's Theses

Breast cancer is the most common form of cancer in the United States and, apart from some forms of skin cancer, is the most common cancer diagnosis for women. In 2021, the U.S Surveillance, Epidemiology, and End Results reported that approximately 281,550 women were diagnosed with, and 43,600 died of the breast cancer. Despite advancements in testing and treatments, about one in eight women will develop breast cancer in her lifetime, and breast cancer has the highest cancer death rate for women, excluding lung cancer.Studies have also shown that breast cancer prognosis and mortality is not uniform, and is statistically …

An Investigation Of The Relationship Of Wave Intensity And Byssal Thread Strength Of The Mussel Mytilus Californianus, Felicia M. Miller

Master's Theses

The intertidal zone is a stressful environment with one of the main stressors being the fluctuation of wave energy over time and space. A structural adaptation employed by mussels living within the intertidal zone is byssal threads that aid in attachment while dealing with various levels of wave exposure. The California mussel, Mytilus californianus, lives in extremely wave exposure conditions, which makes it a great study species to assess the relationship between wave intensity and byssal thread strength. In this study, Mytilus californianus were collected from two locations in the Monterey Bay, each with a predicted wave exposed site and …

No Association Between Macronutrient Intake And Body Composition Indices In Collegiate Athletes, Bryan Singharaj

Master's Theses

A scarcity of literature follows the relationship between macronutrient intake and bodycomposition indices within an athletic population. Therefore, the primary aims of the present study were to evaluate the relationship between the percent intake of carbohydrates, dietary fat, and protein with fat-free mass percentage (FFM %), fat mass percentage (FM %), fat mass index (FMI), and lean mass index (LMI). In addition, a secondary objective was to determine if there were any sex differences in the relationship between macronutrient intake and body composition indices. A total of 58 San José State University student-athletes from multiple sports were included in the …

Characterizing Metabolic Changes In Cancer Cells After Treatment With An Extract Created From Walnuts, Codey Y. Huang

Master's Theses

Cancer cells undergo metabolic reprogramming to meet the energy and metabolite demands of constant proliferation. Originally observed as the Warburg Effect, where cancer cells are more glycolytically active, recent research has shown that cancer cells can also utilize oxidative phosphorylation to meet these demands, better known as metabolic flux. Previous work from our lab showed that treatment with a Walnut Extract (WE) induced cell death in MDA-MB-231 and HeLa cells by destabilizing the mitochondrial outer membrane potential, suggesting that the extract may be able to impact oxidative phosphorylation. The aim of the current research was to further characterize the impact …

Contextualized Vector Embeddings For Malware Detection, Vinay Pandya

Master's Projects

Malware classification is a technique to classify different types of malware which form an integral part of system security. The aim of this project is to use context dependant word embeddings to classify malware. Tansformers is a novel architecture which utilizes self attention to handle long range dependencies. They are particularly effective in many complex natural language processing tasks such as Masked Lan- guage Modelling(MLM) and Next Sentence Prediction(NSP). Different transfomer architectures such as BERT, DistilBert, Albert, and Roberta are used to generate context dependant word embeddings. These embeddings would help in classifying different malware samples based on their similarity …

Predicting Externally Visible Traits From A Dna Sample For Law Enforcement Applications, Niraj Pandkar

Master's Projects

A large majority of crimes such as homicides, sexual assaults and missing person cases are not solved within a reasonable timeframe and become cold cases. The ability to predict visual appearance and ancestry from a DNA sample will provide an unprecedented advancement in such criminal investigations. DNA based prediction of craniofacial features, phenotypes and ancestry can be used to reduce the pool of candidates onto which to perform further investigations. To achieve the above goal, it is first essential to substantiate, model and measure the intrinsic relationship between the genomic markers and phenotypic features. The first step is to standardize …

Differential Gene Expression Analysis Of Zebrafish Embryos Exposed To Simulated Microgravity And Insights Into Cellular Effects, Nicholas Lien

Master's Projects

Spaceflight consists of many dangers which adversely affects the health of astronauts through hazards such as microgravity and cosmic radiation. One area that is still poorly understood is how spaceflight impacts human reproductive health. This study aims to shed insight into how microgravity may impact the development of embryos. Differential gene expression analysis was performed via Jupyter Notebook and SLURM scripts and run on SJSU’s HPC server as a method of implementing NASA GeneLab’s RNA-Seq Consensus Pipeline. Data for this project utilized RNA-Seq files for early-stage embryonic zebrafish (Danio rerio), stored under GLDS-373. Gene Set Enrichment Analysis was performed to …

Understanding How The Relative Abundance Of Candida Species Impacts Transcriptional Regulation In Coculture Biofilms, Diksha Kool

Master's Projects

ABSTRACT Candida albicans and Candida glabrata are common fungal species that can change from commensal to pathogen due to their ability to form robust biofilms. Candida species are the leading cause of life-threatening conditions like Candidemia, and the existing treatments for biofilm-related infections are suboptimal. Research shows that the relative abundance of the two Candida species promotes biofilm formation, enhances pathogenicity, and increases antibiotic resistance. Thus, focusing on the importance of coculture, this paper utilizes RNA sequencing to investigate the gene expression leading to biofilm development in coculture through a time-series study.

“What I Have Learned About Ethnic Studies Is To Love Myself More”: A Look At Culturally Sustaining Pedagogy And Newcomer Students, Lan Nguyen

Master's Projects

Throughout American history, schooling has been used as a tool of settler colonialism, hegemony, and white supremacy. This process of utilizing schooling as a tool of domination has been labeled by theorists as “miseducation”. To attempt to combat the miseducation that students experience in their schooling, I implemented culturally sustaining pedagogy, which necessitates the maintenance and strengthening of students’ relationships with their cultures in schools. In my project, I focused on newcomer students, as immigrant students are often the most underserved population in schools, and also are the most vulnerable to assimilationist teachings. This project utilized classroom observations, student work, …

Codis: Community Detection Via Distributed Seed-Set Expansion On Graph Streams, Austin Anderson

Master's Projects

Community detection has been and remains a very important topic in several fields. From marketing and social networking to biological studies, community detec- tion plays a key role in advancing research in many different fields. Research on this topic originally looked at classifying nodes into discrete communities, but eventually moved forward to placing nodes in multiple communities. Unfortunately, community detection has always been a time-inefficient process, and recent data sets have been simply to large to realistically process using traditional methods. Because of this, recent methods have turned to parallelism, but all these methods, while offering sig- nificant decrease in …

Metagenomic Analysis Of Microbial 18s Eukaryotes Communities And Environmental Factors In The Western Antarctic Peninsula Waters During Austral Summers, Idan Siman-Tov

Master's Projects

Little is known about the environmental factors that impact eukaryotic microbial populations in the Western Antarctic Peninsula. Metagenomic and environmental data have been collected over the course of three consecutive austral summers in the Western Antarctic Peninsula off Palmer Station. More than 13 million 18S rRNA eukaryotic sequences have been taxonomically identified and categorized from the Antarctic water samples collected. Here we will investigate the environmental factors that affect eukaryotic organism populations, as well as possible indicator species that could provide insight as to the status of other eukaryotic species. Due to climate change, understanding these factors and identifying status …

Proxy Re-Encryption In Blockchain-Based Application, Wangcheng Yuan

Master's Projects

Nowadays, blockchain-based technology has risen to a new dimension. With the advantage of the decentralized identity, data are transferred through decentralized and public ledgers. Those new contracts provide great visibility. However, there is still a need to keep some data private in many cases. Those private data should be encrypted while still benefiting from the decentralized on-chain protocol. Securing those private data in such a decentralized blockchain-based system is thus a critical problem. Our solution provides a decentralized protocol that lets users grant access to their private data with proxy re-encryption in SpartanGold (a blockchain-based cryptocurrency). We implement a third-party …

Mrna-Sequencing Pipeline And Pathway Analysis To Determine The Effects Of Bisphenol A On Fragile X Syndrome In Drosophila Melanogaster, Rashi Raghulan

Master's Projects

Neurological disorders (NDDs), like Fragile X Syndrome (FXS), are becoming more prevalent. One outstanding question in the field is how genetic risk factors for NDDs, like Fmr1, converge with environmental risk factors like bisphenol A (BPA). Our research compares and contrasts the different molecular impacts of BPA exposure in wild-type and FXS flies using mRNA-sequencing analysis. This analysis identifies the mutation in the Fmr1 gene is shown to have a stronger effect on the Drosophila than the presence of BPA, resulting in significant differential gene expression that perturbed several neurological pathways. Moreover, numerous genes responsible for genetic human diseases have …

The Impact Of Bisphenol A And Its Analogues On Neurodevelopmental Transcriptomes In Drosophila Melanogaster, An Nguyen

Master's Projects

Bisphenol A (BPA) is an endocrine-disrupting compound (EDC) that can act as an agonist or antagonist to interfere with multiple signaling pathways, including neurological pathways. The impact of BPA related to neurodevelopmental disorders (NDDs) is one of the biggest concerns in BPA exposure in humans. Therefore, BPA analogues are used to replace BPA in manufacturing and BPA-free products. However, most BPA analogues, including Bisphenol F (BPF) and Bisphenol S (BPS), act the same way as BPA on estrogen and androgen receptors. RNASequencing (RNA-seq) analysis was used to investigate the impact of BPA, BPF, and BPS on neurodevelopmental transcriptomes in Drosophila …

An Investigation Of Segmental Duplications Across Topologically Associating Domains, Sara Bell

Master's Projects

High-throughput chromosome conformation capture (Hi-C) reveals organization within genomes. Topologically associating domains (TADs) make up one level of organization and are identified by applying algorithms to Hi-C data. TADs have boundaries disrupted by structural variants (SVs), hypothesized to form due to recombination that occurs between segmental duplications (SDs). Little research is available about the effects of SDs at TAD boundaries. This project aimed to understand the distribution of SDs near TADs and determine any overlap between the two features. We analyzed public data and found SDs to have low breakpoint frequency and coverage at TAD boundaries. We then processed a …

City Of Milpitas Trash Capture Device Program: An Evaluation Of System Performance And Compliance With The Municipal Regional Permit, Joseph Aguilera

Master's Projects

Water pollution negatively impacts the environment and human population. The problem persists despite various mitigation efforts, strategies, and the implementation of regulatory requirements. It is estimated that Californians dispose of approximately 40 million tons of consumer items and waste materials annually (California Department of Resource Recycling and Recovery, 2019). As the population increases, it is expected that negative impacts of trash on the environment will be exacerbated. To address this, municipalities in California apply various methods to reduce trash before it enters ocean waters.

The primary vehicle for urban trash pollutants to reach ocean waters is through storm water conveyance …

Hidden Markov Models With Momentum, Andrew Miller

Master's Projects

Momentum is a popular technique for improving convergence rates during gradient descent. In this research, we experiment with adding momentum to the Baum-Welch expectation-maximization algorithm for training Hidden Markov Models. We compare discrete Hidden Markov Models trained with and without momentum on English text and malware opcode data. The effectiveness of momentum is determined by measuring the changes in model score and classification accuracy due to momentum. Experiments indicate that adding momentum to Baum-Welch can reduce the number of iterations required for initial convergence during HMM training, particularly in cases where the model is slow to converge. However, momentum does …

Modeling Sequencing Artifacts For Next Generation Sequencing, Yvonna Leung

Master's Projects

Advancements in Next Generation Sequencing (NGS) have enabled detection of genetic alterations at large scales with high throughputs. NGS offers advantages over the established sequencing method, Sanger sequencing, by processing large sections of the genome simultaneously at a lower cost with higher accuracy. However, recent research has shown that sequencing artifacts are introduced at various steps in the NGS workflow. These artifacts are the result of an accumulation of errors from multiple steps, such as library preparation and downstream processes, and can result in variants being identified that aren’t actually present in the sequenced genome. Therefore, there is a need …

Mirna-Seq Analysis Pipeline And R Shiny App, Alexis Torres

Master's Projects

ABSTRACT Thrombosis in the internal jugular vein (IJV) has been identified as a risk factor for astronauts undergoing spaceflight, following a 2019 study in which one astronaut developed a thrombus, and several others experienced stagnant or retrograde blood flow. To better understand this phenomenon, a model that simulates the effects of microgravity on blood flow in the IJV is being developed. mRNA and microRNA NGS sequencing will be used to study the transcriptome of human umbilical vein endothelial cells (HUVEC) in simulated microgravity conditions. A microRNA sequencing (miRNA-seq) pipeline has been developed to quantify the miRNA sequencing results. A graphical …

Comparison Of An Oxford Nanopore Technologies Sequencing Platform To Existing Sequencing Methods For Differential Expression Studies, Nikola Klier

Master's Projects

As the genomics revolution continues, there is constant pressure to make sequencing technology more accessible and practical for a growing series of applications. Existing sequencing technologies are often prohibitively expensive, limiting their use for novel diagnostic and research applications. Additionally, existing technologies are often limited by short read lengths, which may present problems to certain quantitative sequencing applications. One such application is Differential Expression Analysis, in which RNA-Seq is performed in paired samples under different experimental conditions to identify differences in gene expression. In this study, an Oxford Nanopore Technologies sequencing platform was used to conduct a differential expression study …