Digital Commons Network^™

Characterization Of Subclonal Variants In Hg002 Genome In A Bottle Reference Material As A Resource For Benchmarking Variant Callers., Camille A. Daniels, Adetola A. Abdulkadir, Megan H. Cleveland, Jennifer H. Mcdaniel, David Jáspez, Luis Alberto Rubio-Rodríguez, Adrián Muñoz-Barrera, José Miguel Lorenzo-Salazar, Carlos Flores, Byunggil Yoo, Sayed Mohammad Ebrahim Sahraeian, Yina Wang, Massimiliano Rossi, Arun Visvanath, Lisa Murray, Wei-Ting Chen, Severine Catreux, James Han, Rami Mehio, Gavin Parnaby, Andrew Carroll, Pi-Chuan Chang, Kishwar Shafin, Daniel Cook, Alexey Kolesnikov, Lucas Brambrink, Mohammed Faizal Eeman Mootor, Yash Patel, Takafumi N. Yamaguchi, Paul C. Boutros, Karolina Sienkiewicz, Jonathan Foox, Christopher E. Mason, Bryan R. Lajoie, Carlos A. Ruiz-Perez, Semyon Kruglyak, Justin M. Zook, Nathan D. Olson

Manuscripts, Articles, Book Chapters and Other Papers

We developed a benchmark set of subclonal variants in the Genome in a Bottle (GIAB) Consortium HG002 reference material (RM) DNA for evaluating lower-frequency variant callsets. We used a somatic variant caller with high-coverage (300×) whole-genome sequencing data from the GIAB Ashkenazi Jewish trio to identify potential subclonal variants in the HG002 RM DNA. Using orthogonal sequencing data and manual curation, we defined a benchmark set with 85 high-confidence subclonal single-nucleotide variants (SNVs) (allele frequency [AF] > 5%) and a benchmark region covering 2.45 Gbp of the autosomes. External validation supported that it can be used to reliably identify both false …

Diabetes Mellitus And Its Association With Tuberculosis Clinical Presentation And Treatment Outcomes: Results From A Prospective Cohort Study In Ghana, Monica Baaba Jones, Kwadwo Ansah Koram, Francis Anto, Michael Lauzardo, Blanca I. Restrepo, Margaret Lartey, Hafisatu Gbadamosi, Awewura Kwara

School of Medicine Publications

Background: Tuberculosis (TB)-diabetes is a growing public health threat in TB-endemic settings. We aimed to determine diabetes prevalence among TB patients in Greater Accra and its association with TB clinical presentation and treatment outcomes.

Methods: We enrolled 204 adults (≥20 years) with bacteriologically confirmed pulmonary TB across 14 health facilities. At treatment initiation, participants were screened for diabetes using self-report, fasting plasma glucose, and glycated hemoglobin, following standard diagnostic criteria. Baseline characteristics were recorded, and participants were followed to determine TB treatment outcomes. Associations between diabetes, baseline characteristics and treatment outcomes were assessed using bivariate and multivariate analysis in STATA. …

Overlapping Mhc Class I/Ii Epitopes Program Cdc1-Like Differentiation Of Monocyte-Derived Dendritic Cells Via Mtorc1 Signaling Inhibition, S B Amanya, A Murthy, N Bisht, Z N Bullock, K J Ernste, J Vasquez-Perez, W Liu, A Trivedi, D Oyewole-Said, A Paul, L Umokoro, V Akhanov, M Samuel, Z Shi, M H Nguyen, S Huang, M Jeong, P Iakova, K A Jain, K Pham, D C Kraushaar, V Konduri, W K Decker

Faculty, Staff and Students Publications

Viral infection polarizes monocyte-derived dendritic cells (moDC) to initiate type 1 immunity. The availability of overlapping (homologous) MHC class I and II epitopes, an occurrence frequently and primarily associated with intracellular infection, significantly enhances this process; however, the underlying mechanism(s) are unclear. We demonstrate that moDC loaded with homologous MHC epitopes acquire a cDC1-like phenotype in a process governed by mTORC1. mTORC1 pathway inhibition leads to NF-κB-mediated expression of IL-12 and other type I immune polarizing genes. The observed cDC1-like gene signature was also significantly enhanced in clinical moDC vaccine products made through methodologies that enforced class I and II …

Bone Marrow Aspirate Concentrate And Xenograft Versus Autograft And Xenograft In The 3d Reconstruction Of Atrophic Maxillary Ridges: A Split-Mouth Randomized Controlled Trial, Moataz Bahaa, Ahmed Abdelmaksoud Dr., Mohamed Mounir Prof, Yasmin Nassar Prof, Mohamed Shawky Dr., Sara Elmoshy Dr.

Dentistry

To evaluate bone quality and quantity after 3D augmentation of vertically and horizontally atrophied maxillary ridges and compare the use of bone marrow aspirate concentrate (BMAC) and xenograft versus autograft and xenograft, both using prebent titanium (Ti) mesh over a virtually augmented model. Materials and Methods: Ten fully edentulous patients with severe maxillary vertical and horizontal bone loss were recruited. Virtual horizontal and vertical bone augmentation was performed for the deficient ridge to produce virtually augmented models for prebent Ti meshes preoperatively. Each patient was rehabilitated with BMAC and xenograft on one side of their mouth (test side) and with …

Constitutional Structure And Election Law, Manoj Mate

Journal Articles

Since Bush v. Gore, scholarship on election law has centered on a theoretical debate between rights-based and structural theory approaches, and the appropriate role and scope of judicial intervention in election law cases. However, these debates have not fully assessed the degree to which the Court’s approach to constitutional structure has fundamentally reshaped election law. Over the past two decades, the Court has increasingly emphasized the importance of constitutional structure-based approaches in election law cases.

This Article analyzes these dynamics and advances a typology of constitutional structure-based approaches in election law. Drawing on scholarship on modalities of interpretation and …

The Density Dilemma: Reconciling Energy Efficiency And Social Well-Being In Compact Housing, Adeb Ebrahim

Architecture and Planning Journal (APJ)

This study examines compact housing not only in terms of urban design. From a sequential exploratory mixed-methods approach study on 120 residential units in Sana’a, we observed that there is a paradox where energy modular housing consumes 28% less energy, but social isolation increases 22%. However, this paradox is countered by the design of biophilic shared spaces (β = -0.34). This research establishes a case for more equitably accessible policies on density and proposes that high-density urban fabrics must have a “social connector” code. This study integrates Fainstein's (2020) concept of the 'just city' and contemporary housing innovations into the …

Exploring Teachers’ Perceptions Of School Counselor-Principal-Teacher Collaboration, Collective Teacher Efficacy, And Leadership, Rachel Louise Geesa, Sherri Barrow, Rochelle Maynard, Derien D. Kunce

Mid-Western Educational Researcher

Efforts to support students' academic, social/emotional, personal, and future professional well-being often rely on the collaboration among educational leaders, educators, and community partners. In this study, we examine teachers' perceptions of collaboration among school counselors, principals, and teachers to enhance school culture, with a focus on collective teacher efficacy. We also provide insights for school leaders (e.g., principals, school counselors, and teachers) to implement systemic changes that promote collaboration and student success. This study is framed through the social cognitive theory, where self-efficacy shapes how educators perceive their ability to impact the learning environment and engage students. Using a mixed-methods …

Amplified Voices: Zines, Theatre, And Open Pedagogy, Bethany B. Mickel, Amy Hunsaker

All Things Open

This interactive presentation highlights a collaborative open pedagogy project implemented in an undergraduate vocal theatre course. The scaffolded assignment guided students through research practices and source evaluation, culminating in the creation of student-authored zines focused on vocal warmups. Students explored the history of zines as small, often hand-designed publications rooted in self-expression, community knowledge-sharing, and alternative publishing, values closely aligned with open education practices.

Rather than producing a traditional research paper, students synthesized their findings into creative zines that center voice both pedagogically and literally. Throughout the project, students engaged in discussions about open licensing, authorship, and consent, making informed …

Opening Closed Doors: Supporting Undergraduate Scholars Through Open-Access Publishing, Amelia Baker, Kiara O'Neal, Mikkel Cullen, Amy Buddie, Haleigh Edmonds

All Things Open

Undergraduate publishing is often a closed door due to paywalls, publication fees, and limited access to mentorship. The Kennesaw Journal of Undergraduate Research (KJUR) uses an open-access framework to remove these barriers and expand equitable access to scholarly publishing for students at Kennesaw State University. KJUR is free to submit to and publish in, ensuring financial constraints do not prevent students from sharing their work. The journal is operated by paid and volunteer student editors, providing mentored, hands-on experience in academic publishing. Emphasizing open pedagogy, KJUR supports student authors through developmental editing and multi-semester collaboration, guiding them through …

The Shorthorn: December 4, 1980

The Shorthorn Newspaper Collection: 1980s

No abstract provided.

The Shorthorn: November 25, 1980

The Shorthorn Newspaper Collection: 1980s

No abstract provided.

The Shorthorn: November 20, 1980

The Shorthorn Newspaper Collection: 1980s

No abstract provided.

The Shorthorn: November 21, 1980

The Shorthorn Newspaper Collection: 1980s

No abstract provided.

The Shorthorn: November 18, 1980

The Shorthorn Newspaper Collection: 1980s

No abstract provided.

The Shorthorn: November 12, 1980

The Shorthorn Newspaper Collection: 1980s

No abstract provided.

The Shorthorn: November 7, 1980

The Shorthorn Newspaper Collection: 1980s

No abstract provided.

The Shorthorn: November 11, 1980

The Shorthorn Newspaper Collection: 1980s

No abstract provided.

The Shorthorn: November 4, 1980

The Shorthorn Newspaper Collection: 1980s

No abstract provided.

The Shorthorn: October 30, 1980

The Shorthorn Newspaper Collection: 1980s

No abstract provided.

The Shorthorn: October 24, 1980

The Shorthorn Newspaper Collection: 1980s

No abstract provided.

The Shorthorn: October 21, 1980

The Shorthorn Newspaper Collection: 1980s

No abstract provided.

The Shorthorn: October 22, 1980

The Shorthorn Newspaper Collection: 1980s

No abstract provided.

The Shorthorn: October 17, 1980

The Shorthorn Newspaper Collection: 1980s

No abstract provided.

The Shorthorn: October 15, 1980

The Shorthorn Newspaper Collection: 1980s

No abstract provided.

The Shorthorn: October 8, 1980

The Shorthorn Newspaper Collection: 1980s

No abstract provided.

The Shorthorn: October 2, 1980

The Shorthorn Newspaper Collection: 1980s

No abstract provided.

The Shorthorn: September 30, 1980

The Shorthorn Newspaper Collection: 1980s

No abstract provided.

The Shorthorn: September 26, 1980

The Shorthorn Newspaper Collection: 1980s

No abstract provided.

The Shorthorn: September 24, 1980

The Shorthorn Newspaper Collection: 1980s

No abstract provided.

The Shorthorn: September 18, 1980

The Shorthorn Newspaper Collection: 1980s

No abstract provided.