Digital Commons Network^™

Appreciating The Lotp Study: Further Refining Scope-Of-Practice Analysis., Eduardo Rivé Lockwood

Ambulatory and Primary Care Articles

No abstract provided.

Mycobacterium Genavense-Induced Spindle Cell Pseudotumor Presenting With Symptoms Of Giant Cell Arteritis., Britney Le, Guilherme Kuceki, Jamie Zussman

Ambulatory and Primary Care Articles

No abstract provided.

Clinical Uptake Of An Antigen-Based Approach To Membranous Nephropathy: A Survey Of General Nephrologists And Glomerular Disease Experts., Eibhlin Goggins, Andrew Delaat, Bryce Barr, Jonathan Taliercio, Ali Mehdi, Georges Nakhoul, Brendan Bowman, Corey Cavanaugh

Ambulatory and Primary Care Articles

BACKGROUND: In recent years, there has been an emergence of new antigens discovered in membranous nephropathy (MN). Whether these antigens have impacted the approach to, and management of, MN patients undertaken by nephrologists is still unclear.

METHODS: We conducted a cross-sectional international survey pertaining to 13 antigens recently discovered in MN. The survey was distributed by the National Kidney Foundation, direct emails, and social media.

RESULT: PLA2R, THSD7A, NELL1, and EXT1/2 testing were readily available while the most common response for other antigen testing was 'Not Performed' or 'Unknown'. All respondents had tested for or treated PLA2R-positive MN. Of 79 …

Penicillin Adverse Drug Reaction (Historical), Children's Mercy Kansas City

Clinical Pathways

No abstract provided.

Endocannabinoids Mediate Racial/Ethnic Discrimination Prediction Of Posttraumatic Stress Disorder Symptoms Moderated By Resting-State Functional Connectivity In Black And African American Individuals, Emily A. Albertina, Lucas Torres, Garrett Sauber, Cecilia J. Hillard, Jacklynn M. Fitzgerald, Terri A. Deroon-Cassini, Christine L. Larson

Psychology Faculty Research and Publications

Background

Individuals from marginalized ethnoracial groups face higher risk for posttraumatic stress disorder (PTSD) symptoms, exacerbated by experiencing racial/ethnic discrimination. Previous work separately explored the endocannabinoid (eCB) system and functional connectivity response to stress/trauma and suggested that experiences of chronic minority stress, such as racial discrimination, contribute to eCB tone and resting-state functional connectivity. We explored how circulating eCB tone, in conjunction with resting-state connectivity, contributes to increased risk for PTSD symptoms following trauma among individuals experiencing discrimination.

Methods

Black/African Americans (n = 74; mean age = 33.81 years) were recruited from a level 1 trauma center. Correlational and …

Massachusetts' Latino Population: 2020-2040, Phillip Granberry

Gastón Institute Publications

Latinos have been a vital component of Massachusetts’ population growth since 1990. Their younger age structure has helped to offset the older age structure of the much larger non-Latino White population. As Latinos’ population crosses the 1 million threshold by 2030, their growth (even as it slows) will be faster than the commonwealth’s overall population change.

Latinos In Massachusetts Selected Areas: Boston, Phillip Granberry, Florita Coto Tristán

Gastón Institute Publications

The City of Boston Planning Department has found that Boston’s population was undercounted in the 2020 Census by as many as 25,000 people and that subsequent population estimates continue to understate the population.1 The Planning Department’s Research Division has developed a tool to display limited demographic data, but these population estimates are insufficient for purposes of this report.2 Therefore, this report uses 2019-2023 American Community Survey and may therefore undercount Boston’s population. Boston, the largest city in the Commonwealth, is home to an estimated 126,647 Latinos. This is the largest Latino population in the state, though other smaller cities (Lawrence, …

Accordance And Conflict Between Religious And Scientific Precautions Against Covid-19 In 27 Societies, T. Samore, D.M.T. Fessler, A.M. Sparks, C. Holbrook, L. Aarøe, C.G. Baeza, M.T. Barbato, P. Barclay, R. Berniūnas, J. Contreras-Garduño, B. Costa-Neves, M.P. Grazioso, P. Elmas, P. Fedor, Li, Norman P., R. Fernández-Morales, L. Garcia-Marques, P. Giraldo-Perez, P. Gul, F. Habacht

Research Collection School of Social Sciences

Meaning-making systems underlie perceptions of the efficacy of threat-mitigating behaviors. Religion and science both offer threat mitigation, yet these meaning-making systems are often considered incompatible. Do such epistemological conflicts swamp the desire to employ diverse precautions against threats? Or do individuals—particularly individuals who are highly reactive to threats—hedge their bets by using multiple threat-mitigating practices despite their potential epistemological incompatibility? Complicating this question, perceptions of conflict between religion and science likely vary across cultures; likewise, pragmatic features of precautions prescribed by some religions make them incompatible with some scientifically-based precautions. The COVID-19 pandemic elicited diverse precautions thus providing an opportunity …

A Multifaceted Nudge-Based Intervention To Reduce Smartphone Use: Findings From A Randomized Cross-Over Trial, K. T. A. Sandeeshwara Kasturiratna, Yi Jing Chua, Andree Hartanto

Research Collection School of Social Sciences

The widespread use of smartphones has raised concerns about problematic usage behaviors, including excessive screentime and frequent phone checking, which can disrupt daily functioning. This study aimed to evaluate the effectiveness of a multifaceted nudge-based intervention in reducing smartphone use through subtle changes to smartphone settings. The intervention incorporated adjustments such as disabling face/touch ID, setting longer passwords, switching to grayscale mode, and removing social media apps from the home screen. A randomized within-subject cross-over trial with counterbalancing was conducted over a two-week period using a daily diary approach paired with objective smartphone usage data to track the impact of …

Prevalence Of Depression, Anxiety, Burden, Burnout, And Stress In Informal Caregivers: An Umbrella Review Of Meta-Analyses, Xun Ci Soh, Andree Hartanto, Naoki Ling, Mayr Reyes, Lester Sim, Nadyanna M. Majeed

Research Collection School of Social Sciences

Informal caregiving is a physically and emotionally taxing role that has a profound impact on caregivers’ emotional and mental well-being. Previous research has examined the mental health of caregivers and found elevated levels of depression, anxiety, burden, burnout, or stress. However, the global rates of the five mental health factors and/or outcomes (i.e., depression, anxiety, burden, burnout, and stress) among caregivers remain largely unclear. Therefore, this umbrella review examines the prevalence of these factors and/or outcomes, including various subgroup factors, such as gender, medical and/or psychological condition of the care recipient, region, and assessment tools. A systematic search was conducted …

(When) Can Trade Wars Be Good?, Henry S. Gao, Weihuan Zhou

Research Collection Yong Pung How School Of Law

‘Trade wars are good, and easy to win,’ tweeted Donald Trump in 2018. The US–China trade war that followed proved otherwise – especially when confronting a major economic power. Yet, can trade wars ever be good? While the academic consensus holds they harm all participants, we argue that under certain circumstances they can produce positive outcomes. Set against the backdrop of the Liberation Day tariffs announced on April 2, 2025, this paper examines the limits of the Ricardian free trade model underpinning the current multilateral trading system, identifies when trade wars may serve strategic goals, and explores alternative rules to …

Public Support For And Reactive Behavior Toward Technological Risk Interventions: An Extension Of Secondary Risk Theory, Hye Kyung Kim, Rui Gu, Fiona Goh, Sonny Rosenthal, Shirley S. Ho

Research Collection College of Integrative Studies

Project Wolbachia is a dengue control initiative in Singapore. Guided by Secondary Risk Theory, this study examined how primary (dengue) and secondary (Wolbachia) threat and coping appraisals shape public support and reactive behavior toward the project. A nationally representative survey of 1,000 Singaporeans showed that support was positively linked to the perceived primary risk, the efficacy of the project and the government, while negatively related to the perceived secondary risk. Reactive behavior was positively associated with perceptions of both primary and secondary risk. Media attention and trust in the government indirectly influenced support and behavior moderated by knowledge.

Iot Sensors As A Tool For Assessing Spatiotemporal Risk To Extreme Heat, Kijin Seong, Seung Jun Choi, Junfeng Jiao

Research Collection College of Integrative Studies

The safety of urban populations sensitive to extreme heat is under increasing threat. Few studies examine the potential benefits of deploying IoT environmental sensors in the urban context and their integration with large-scale human activity data. This paper examines the deployment of IoT sensors in high-resolution extreme heat risk assessment in the case of Seoul, South Korea. This study conducted spatiotemporal analysis on heat exposure with IoT sensors, compared it with an existing land surface temperature map for validation, combined it with human activity data for risk assessment, and finally discussed the benefits of IoTs in detecting abnormal weather events. …

The Cool, Quiet City Machine Learning Competition: Overview And Results, Clayton Miller, M. Ibrahim, I.S. Akbar, B. Picchetti, Y.X. Chua, M. Frei, F. Biljecki, A. Chong, M. Quintana, C. Fu

Research Collection College of Integrative Studies

The prediction of thermal and noise-based preferences in the urban context is valuable in characterizing interventions to mitigate the challenges of health, productivity, and satisfaction of urban dwellers. The growth of crowd-sourced data and data-driven techniques provides an opportunity to increase the understanding of which machine learning models are most accurate and applicable for this context. This paper outlines the results of a machine learning competition aiming to enhance the accuracy of predicting human comfort in the city context. The competition asks contestants to use contextual data to predict noise distraction and thermal preference in various indoor and outdoor spaces. …

Sex Disparities In Chlamydia And Gonorrhea Treatment In Us Adult Emergency Departments: A Systematic Review And Meta-Analysis, Rachel E Solnick, Rahi Patel, Ethan Chang, Carmen Vargas-Torres, Maaz Munawar, Carlin Pendell, Judith E Smith, Ethan Cowan, Keith E Kocher, Roland C Merchant

Faculty, Staff and Student Publications

BACKGROUND: Empiric antibiotic treatment for gonorrhea (GC) and chlamydia (CT) is common in U.S. emergency departments (EDs) due to the delayed availability of test results. Local studies have identified sex-based disparities in sexually transmitted infection (STI) care, with females potentially receiving less empiric treatment than males. This study evaluates how STI treatment aligns with laboratory-confirmed results to quantify potential overtreatment and undertreatment rates and investigates sex differences for these outcomes.

METHODS: We conducted a preregistered (PROSPERO #241429) systematic review and meta-analysis of studies published between January 2010 and January 2025 in U.S. EDs, excluding studies conducted exclusively in pediatric settings. …

Correction: Imaging In Pelvic Exenteration-A Multidisciplinary Practice Guide From The Esgar-Sar-Esur-Pelvex Collaborative Group, Stephanie Nougaret, Doenja M J Lambregts, Geerard L Beets, Regina G H Beets-Tan, Lennart Blomqvist, David Burling, Quentin Denost, Maria A Gambacorta, Benedetta Gui, Ann Klopp, Yulia Lakhman, Kate E Maturen, Riccardo Manfredi, Iva Petkovska, Luca Russo, Atul B Shinagare, James A Stephenson, Damian Tolan, Aradhana M Venkatesan, Aaron J Quyn, Rosemarie Forstner

Faculty, Staff and Student Publications

No abstract provided.

Stakeholder Views On Lessons Learned For The Antimicrobial Resistance Panel From Previous International Science Panels [Version 1], Iruka N. Okeke, Ayodele A. Akinyele, Javier Guzman, Kevin Outterson

Faculty Scholarship

The United Nations General Assembly called in September 2024 for the establishment of an independent panel for actionable evidence against antimicrobial resistance (IPEA). The task of designing the panel was given to the Quadripartite Joint Secretariat (QJS) on Antimicrobial Resistance (AMR) with a delivery timeline of 15 months. To promote stakeholder thought and input around what this panel should look like and how it should work, which could feed into the QJS’s consultation process, we independently commissioned seven papers to examine lessons that could be learned from other high-level scientific panels. We then called a convening of stakeholders that were …

Risk Of Second Primary Lung Cancer Among Cancer Survivors Stratified By The Site Of First Primary Cancer And The Lung Cancer Screening Eligibility Status, Sara Nofal, Edwin J Ostrin, Jianjun Zhang, Jia Wu, Paul Scheet, Mara B Antonoff, John V Heymach, Iakovos Toumazis

Faculty, Staff and Student Publications

Personal history of cancer is an independent risk factor for developing lung cancer. However, it is not considered in the current US lung cancer screening (LCS) guidelines. In this study, we assessed the risk of developing lung cancer among cancer survivors across 24 different sites of first primary cancer stratified by their LCS eligibility status. Using data from the Patient History Database at the University of Texas MD Anderson Cancer Center, we calculated and compared the cumulative incidence of second primary lung cancer, the overall and the LCS eligibility status-specific, stratified by the site of first primary cancer among cancer …

Experiences And Perspectives Of Sexual And Reproductive Health Among Women In Recovery From Opioid Use Disorder, Nicole M. Mattson, Aleigha Barry, Jessica L. Zemlak

College of Nursing Faculty Research and Publications

Background

Women in recovery from opioid use disorder (OUD) have unmet sexual and reproductive health (SRH) needs resulting in health disparities such as unintended pregnancy and sexually transmitted infections/HIV infection compared with women without OUD. The purpose of this qualitative descriptive study was to explore the perceptions and experiences of co-occurring multiple social-ecologic influences (individual, interpersonal, community, society) on SRH among women in recovery from OUD.

Methods

Purposive sampling was used to recruit cis-gender women aged 18–49 who self-identify as being in recovery from OUD and speak English. We conducted one 45- to 60-minute audio-recorded semistructured telephone interview with each …

Multiyear Implementation And Qualitative Evaluation Of A Peer Mentoring Circle Program, Tana M. Karenke, Juanita T. Garcia, Alexandria Zielinski

College of Nursing Faculty Research and Publications

Background

Students from disadvantaged backgrounds often experience intensified challenges, including life stressors, social isolation, discomfort relating to the dominant culture on campus, and under-preparation if coming from low-resource high schools and neighborhoods. Multiyear implementation and outcomes of an ongoing peer mentoring circle (PMC) program for undergraduate nursing students from disadvantaged and underrepresented minority backgrounds are described.

Method

This study examined a 5-year longitudinal descriptive evaluation of ongoing PMC programming using thematic analysis.

Results

Four major themes were identified from student qualitative evaluation data: (a) connection and friendship; (b) adjustment and transition; (c) academic support; and (d) leadership skills. Challenges encountered …

A “Re-Imagining The Economic Value Of Nursing” Summit Summary And Recommendations, Olga Yakusheva, Marianne E. Weiss, Tanya Mulvey, Anabel F. Castillo, Marcela Campoli

College of Nursing Faculty Research and Publications

In April 2024, the ANA Enterprise sponsored a “Re-imagining the Economic Value of Nursing” Summit to move the conversation forward on recognizing and leveraging the economic value of nursing within organizations across the US healthcare system. Invited participants engaged in a spirited dialogue about reconceptualizing nurses as critical assets in generating value within the production and financial dynamics of contemporary healthcare systems. This article summarizes the discussion and recommendations emerging from the summit.

In healthcare organizations and systems, nurse executives are the bridge between the production of patient care by the nursing workforce and the organizational financial performance. Historically, nursing …

Botulinum Neurotoxin Light Chain/A1 Uses Fast Synaptic Vesicle Cycling To Cleave Plasma Membrane Bound Snap-25, Alexander Gardner, Molly Sneller, William H. Tepp, Joseph T. Barbieri, Sabine Pellett

College of Nursing Faculty Research and Publications

Botulinum neurotoxins (BoNT) are the most potent protein toxins for humans, yet how BoNT-Light Chain/A1 (LC/A1) journeys to cleave intracellular SNAP-25 is understudied. Here we use a cell-based assay to measure cytosolic EGFP-LC/A1 intracellular trafficking and SNAP-25 cleavage in Neuro-2A cells. Intracellular LC/A1 associated on microtubules and co-localized with Rab GTPases involved in fast synaptic vesicles and endosome recycling. Multiple Dominant Negative (DN) Rabs GTPases involved in fast synaptic vesicles or endosome recycling inhibited LC/A1 trafficking to the intracellular plasma membrane and SNAP-25 cleavage. A cytosolic LC/A1 variant that bound the plasma membrane from the cytosol was insensitive to DNRab …

Comparative Pathology Boards Facilitate The Translation Of Knowledge Between Canine And Human Cancer Patients, Jessica A Beck, Christina Mazcko, Sara Belluco, Mireille Bitar, Daniel Brat, Jonathan W Bush, Rati Chkheidze, Kara N Corps, Chad Frank, Caterina Giannini, Craig Horbinski, Jason T Huse, Jennifer W Koehler, Andrew D Miller, C Ryan Miller, M Gerard O'Sullivan, Joanna J Phillips, Daniel R Rissi, Courtney R Schott, Anat Stemmer-Rachamimov, Stephen Yip, Amy K Leblanc

Faculty, Staff and Student Publications

Comparative pathology boards bring together anatomic pathologists with expertise in canine and human histology to identify shared features, including immune or TME components, tumor subtypes, or prognostic tissue biomarkers. This article summarizes feedback to improve future initiatives and enhance the translational relevance of comparative oncology for human patients.

In Situ Programming Of The Tumor Microenvironment To Alleviate Immunosuppression For Pancreatic Cancer Immunotherapy, Man Sun, Huan Zhang, Yarui Ma, Simiao Wang, Jiayi Chen, Yaxin Cui, Yun Zhang, Siyuan Hu, Dan Zhou, Pengchen Zhang, Yahui Liu, Betty Y S Kim, Wen Jiang, Xiaobing Wang, Zhaogang Yang

Faculty, Staff and Student Publications

Recent studies have highlighted the pivotal role of the cGAS‐STING pathway in cancer immunotherapy. However, clinical trials with cGAS‐STING pathway agonists have faced setbacks thanks to their short biological half‐life, lack of tumor specificity, and potential to promote tumor immune evasion. To address these challenges, a novel exosome‐based drug delivery platform, termed cmExoaCD11b is developed, designed to precisely target and reprogram the tumor microenvironment (TME) in situ for pancreatic cancer immunotherapy. cmExoaCD11b is engineered to encapsulate high copy numbers of IL‐12 mRNA and 2′3’‐cGAMP (cGAMP) and is functionalized with CD11b antibodies for targeted delivery to macrophages. Notably, cmExoaCD11b facilitated the …

Predicting Clinical Success Of Ct-Based Functional Drained Liver Volume Assessment In Malignant Biliary Obstruction, Ethan Y Lin, Bruno C Odisio, Koustav Pal, Iwan Paolucci, Ryan P Kempen, Nicolas Cardenas, Paige Reed, Ketan Y Shah, Ahmed Awad, Rahul A Sheth, David Fuentes, Alda Tam

Faculty, Staff and Student Publications

Purpose

To compare the predictive accuracy of subjective versus objective assessment of three-dimensional functional drained liver volume (fDLV) for clinical success after percutaneous transhepatic biliary drainage (PTBD).

Materials and Methods

This retrospective study included patients with malignant biliary obstruction and hyperbilirubinemia who underwent de novo PTBD between January 2016 and February 2017. Clinical success was defined as achieving total bilirubin level less than 1.8 mg/dL (30.8 μmol/L) within 30 days after PTBD. Seven interventional radiologists independently categorized subjective fDLV into four groups: less than 30%, 30%–50%, 51%–75%, and greater than 75% of the total liver volume. Objective fDLV was calculated …

Designing An Electronic Patient-Reported Outcomes Information Infrastructure Supported By The Re-Aim Implementation Framework, Amy C Moreno, Angela Peek, Toshiko S Stein, Kevin R Shook, Sara M Ali, Laia Humbert-Vidan, Aileen Chen, Miriam Lango, Anna Lee, Michael Spiotto, William H Morrison, Adam S Garden, Jack Phan, Steven J Frank, Katherine Hutcheson, David I Rosenthal, Clifton D Fuller, G Brandon Gunn

Faculty, Staff and Student Publications

Objective: Patient-reported outcomes (PROs) contain valuable information that can be leveraged by providers to perform timely interventions and improve quality of life and survival. However, the implementation of electronic PROs (ePROs) remains a challenge from technical and evaluation perspectives. Our objective was to construct a robust electronic health record (EHR)-integrated ePRO information infrastructure founded on RE-AIM (reach-effectiveness-adoption-implementation-maintenance) principles.

Materials and methods: We used Epic Systems as our EHR platform to build the MD Anderson Symptom Index Head and Neck Module (MDASI-HN) for release to all patients undergoing evaluation and/or treatment in our HN Radiation Oncology clinics. RE-AIM metrics were established …

Rezafungin Versus Caspofungin For The Treatment Of Candidemia And Invasive Candidiasis: Results From The Double-Blind, Randomized, Phase 3 Restore Trial Including The China Extension Study, George R Thompson, Haihui Huang, Sizhou Feng, Yunsong Yu, Alex Soriano, Oliver A Cornely, Bart Jan Kullberg, Peter G Pappas, Marin Kollef, Jose A Vazquez, Patrick M Honore, Laura Cox, Matteo Bassetti

2020-Current year OA Pubs

BACKGROUND: Rezafungin is approved for use in adults with candidemia and/or invasive candidiasis (IC) based on data from the ReSTORE trial (NCT03667690), which demonstrated noninferior efficacy to caspofungin. For regulatory purposes, an additional cohort of patients from China was recruited to ReSTORE. Here, we compared rezafungin and caspofungin in patients with candidemia and/or IC through analysis of the ReSTORE global data plus the China extension study.

METHODS: Adults with candidemia/IC were randomized (1:1) to receive weekly rezafungin (400/200 mg) or daily caspofungin (70/50 mg) for ≤28 days. Noninferiority was concluded for primary efficacy endpoints if the upper bound of the …

Walking Interventions And Cognitive Health In Older Adults: A Systematic Review Of Randomized Controlled Trials, Jongwon Lee, Delia West, Christine Pellegrini, Jingkai Wei, Sara Wilcox, Jean Neils-Strunjas, A Caroline Rudisill, Daniela B Friedman, David X Marquez, Jenna Dzwierzynski, Joyce Balls-Berry, Rachelle Gajadhar, Chih-Hsiang Yang

2020-Current year OA Pubs

ObjectiveThis systematic review summarizes the effectiveness and the dose of walking interventions on specific cognition domains in older adults, including executive function, memory, attention, processing speed, and global cognition.Data sourcePublished randomized controlled trials in PubMed, Embase, and Web of Science until 10 May 2023.Study Inclusion and Exclusion CriteriaStudies include older adults without Alzheimer's or related dementias, involving a walking intervention and performance-based neuropsychological assessments for executive function, memory, processing speed, attention, or global cognition.Data ExtractionTwo independent research assistants reviewed 8424 studies and included 17 studies.Data SynthesisParticipant demographics, intervention features (type, intensity, time, frequency, duration, format, and context), cognitive assessment tools, …

Spatial Colocalization And Molecular Crosstalk Of Myofibroblastic Cafs And Tumor Cells Shape Lymph Node Metastasis In Oral Squamous Cell Carcinoma, Ken Furudate, Shuya Kasai, Tadashi Yoshizawa, Yuya Sasaki, Kohei Fujikura, Shintaro Goto, Ryohei Ito, Koki Takagi, Tomoyuki Tanaka, Hiroshi Kijima, Kosei Kubota, Ken Itoh, Wataru Kobayashi, Koichi Takahashi

Faculty, Staff and Student Publications

Lymph node metastasis (LNM) is a critical prognostic factor for patients with oral squamous cell carcinoma (OSCC). Previous research has implicated the partial epithelial-to-mesenchymal transition of tumor cells and myofibroblastic cancer-associated fibroblasts (myCAFs) in the LNM process. However, the underlying molecular mechanisms remain poorly understood. Here, we conducted a comprehensive molecular analysis integrating original and publicly available OSCC data from bulk genome and transcriptome, single-cell transcriptome, and spatial transcriptome analyses. We found that myCAFs were quantitatively and functionally activated in LNM-positive samples and spatially colocalized with OSCC cells within the invasive tumor front (ITF), providing a niche that may facilitate …

Dna Methylation Cooperates With Genomic Alterations During Non-Small Cell Lung Cancer Evolution, Francisco Gimeno-Valiente, Carla Castignani, Elizabeth Larose Cadieux, Nana E Mensah, Xiaohong Liu, Kezhong Chen, Olga Chervova, Takahiro Karasaki, Clare E Weeden, Corentin Richard, Siqi Lai, Carlos Martínez-Ruiz, Emilia L Lim, Alexander M Frankell, Thomas B K Watkins, Georgia Stavrou, Ieva Usaite, Wei-Ting Lu, Daniele Marinelli, Sadegh Saghafinia, Gareth A Wilson, Pawan Dhami, Heli Vaikkinen, Jonathan Steif, Selvaraju Veeriah, Robert E Hynds, Martin Hirst, Crispin Hiley, Andrew Feber, Özgen Deniz, Mariam Jamal-Hanjani, Nicholas Mcgranahan, Tracerx Consortium, Stephan Beck, Jonas Demeulemeester, Miljana Tanić, Charles Swanton, Peter Van Loo, Nnennaya Kanu

Faculty, Staff and Student Publications

Aberrant DNA methylation has been described in nearly all human cancers, yet its interplay with genomic alterations during tumor evolution is poorly understood. To explore this, we performed reduced representation bisulfite sequencing on 217 tumor and matched normal regions from 59 patients with non-small cell lung cancer from the TRACERx study to deconvolve tumor methylation. We developed two metrics for integrative evolutionary analysis with DNA and RNA sequencing data. Intratumoral methylation distance quantifies intratumor DNA methylation heterogeneity. MR/MN classifies genes based on the rate of hypermethylation at regulatory (MR) versus nonregulatory (MN) CpGs to identify driver genes exhibiting recurrent functional …