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Rheumatic Heart Disease In The United States: Forgotten But Not Gone: Results Of A 10 Year Multicenter Review, Sarah R De Loizaga, Lakshmi R Gokanapudy Hahn, Et Al
Rheumatic Heart Disease In The United States: Forgotten But Not Gone: Results Of A 10 Year Multicenter Review, Sarah R De Loizaga, Lakshmi R Gokanapudy Hahn, Et Al
Open Access Publications
Background Recent evaluation of rheumatic heart disease (RHD) mortality demonstrates disproportionate disease burden within the United States. However, there are few contemporary data on US children living with acute rheumatic fever (ARF) and RHD. Methods and Results Twenty-two US pediatric institutions participated in a 10-year review (2008-2018) of electronic medical records and echocardiographic databases of children 4 to 17 years diagnosed with ARF/RHD to determine demographics, diagnosis, and management. Geocoding was used to determine a census tract-based socioeconomic deprivation index. Descriptive statistics of patient characteristics and regression analysis of RHD classification, disease severity, and initial antibiotic prescription according to community …
Variant Allele Fraction Of Genomic Alterations In Circulating Tumor Dna (%Ctdna) Correlates With Suv, Amin Haghighat Jahromi, Matthew Zabel, Ryosuke Okamura, Carl K Hoh, Razelle Kurzrock
Variant Allele Fraction Of Genomic Alterations In Circulating Tumor Dna (%Ctdna) Correlates With Suv, Amin Haghighat Jahromi, Matthew Zabel, Ryosuke Okamura, Carl K Hoh, Razelle Kurzrock
Open Access Publications
The relationship between higher variant allele fraction (VAF) of genomic alterations in circulating tumor DNA (%ctDNA), an indicator of poor outcome, and maximum standardized uptake value (SUV
A Phase Ib/Iia Clinical Trial Of Dantrolene Sodium In Patients With Wolfram Syndrome, Damien Abreu, Stephen I. Stone, Toni S. Pearson, Robert C. Bucelli, Ashley N. Simpson, Stacy Hurst, Cris M. Brown, Kelly Kries, Chinyere Onwumere, Hongjie Gu, James Hoekel, Lawrence Tychsen, Gregory P. Van Stavern, Neil H. White, Bess A. Marshall, Tamara Hershey, Fumihiko Urano
A Phase Ib/Iia Clinical Trial Of Dantrolene Sodium In Patients With Wolfram Syndrome, Damien Abreu, Stephen I. Stone, Toni S. Pearson, Robert C. Bucelli, Ashley N. Simpson, Stacy Hurst, Cris M. Brown, Kelly Kries, Chinyere Onwumere, Hongjie Gu, James Hoekel, Lawrence Tychsen, Gregory P. Van Stavern, Neil H. White, Bess A. Marshall, Tamara Hershey, Fumihiko Urano
Open Access Publications
BACKGROUNDWolfram syndrome is a rare ER disorder characterized by insulin-dependent diabetes mellitus, optic nerve atrophy, and progressive neurodegeneration. Although there is no treatment for Wolfram syndrome, preclinical studies in cell and rodent models suggest that therapeutic strategies targeting ER calcium homeostasis, including dantrolene sodium, may be beneficial.METHODSBased on results from preclinical studies on dantrolene sodium and ongoing longitudinal studies, we assembled what we believe is the first-ever clinical trial in pediatric and adult Wolfram syndrome patients with an open-label phase Ib/IIa trial design. The primary objective was to assess the safety and tolerability of dantrolene sodium in adult and pediatric …
Modulation Of The Effects Of Class Ib Antiarrhythmics On Cardiac Nav1.5-Encoded Channels By Accessory Navβ Subunits, Wandi Zhu, Wei Wang, Paweorn Angsutararux, Rebecca L. Mellor, Lori L. Isom, Jeanne M. Nerbonne, Jonathan R. Silva
Modulation Of The Effects Of Class Ib Antiarrhythmics On Cardiac Nav1.5-Encoded Channels By Accessory Navβ Subunits, Wandi Zhu, Wei Wang, Paweorn Angsutararux, Rebecca L. Mellor, Lori L. Isom, Jeanne M. Nerbonne, Jonathan R. Silva
Open Access Publications
Native myocardial voltage-gated sodium (NaV) channels function in macromolecular complexes comprising a pore-forming (α) subunit and multiple accessory proteins. Here, we investigated the impact of accessory NaVβ1 and NaVβ3 subunits on the functional effects of 2 well-known class Ib antiarrhythmics, lidocaine and ranolazine, on the predominant NaV channel α subunit, NaV1.5, expressed in the mammalian heart. We showed that both drugs stabilized the activated conformation of the voltage sensor of domain-III (DIII-VSD) in NaV1.5. In the presence of NaVβ1, the effect of lidocaine on the DIII-VSD was enhanced, whereas the effect of ranolazine was abolished. Mutating the main class Ib …
Taspase1 Orchestrates Fetal Liver Hematopoietic Stem Cell And Vertebrae Fates By Cleaving Tfiia, Hidetaka Niizuma, Adam C. Searleman, Shugaku Takeda, Scott A. Armstrong, Christopher Y. Park, Emily H. Cheng, James J. Hsieh
Taspase1 Orchestrates Fetal Liver Hematopoietic Stem Cell And Vertebrae Fates By Cleaving Tfiia, Hidetaka Niizuma, Adam C. Searleman, Shugaku Takeda, Scott A. Armstrong, Christopher Y. Park, Emily H. Cheng, James J. Hsieh
Open Access Publications
Taspase1, a highly conserved threonine protease encoded by TASP1, cleaves nuclear histone-modifying factors and basal transcription regulators to orchestrate diverse transcription programs. Hereditary loss-of-function mutation of TASP1 has recently been reported in humans as resulting in an anomaly complex syndrome, which manifests with hematological, facial, and skeletal abnormalities. Here, we demonstrate that Taspase1-mediated cleavage of TFIIAα-β, rather than of MLL1 or MLL2, in mouse embryos was required for proper fetal liver hematopoiesis and correct segmental identities of the axial skeleton. Homozygous genetic deletion of Taspase1 disrupted embryonic hematopoietic stem cell self-renewal and quiescence states and axial skeleton fates. Strikingly, mice …
Efficient Crispr/Cas9 Mutagenesis For Neurobehavioral Screening In Adult Zebrafish, Dana Shaw, Mayssa Mokalled
Efficient Crispr/Cas9 Mutagenesis For Neurobehavioral Screening In Adult Zebrafish, Dana Shaw, Mayssa Mokalled
Open Access Publications
Adult zebrafish are widely used to interrogate mechanisms of disease development and tissue regeneration. Yet, the prospect of large-scale genetics in adult zebrafish has traditionally faced a host of biological and technical challenges, including inaccessibility of adult tissues to high-throughput phenotyping and the spatial and technical demands of adult husbandry. Here, we describe an experimental pipeline that combines high-efficiency CRISPR/Cas9 mutagenesis with functional phenotypic screening to identify genes required for spinal cord repair in adult zebrafish. Using CRISPR/Cas9 dual-guide ribonucleic proteins, we show selective and combinatorial mutagenesis of 17 genes at 28 target sites with efficiencies exceeding 85% in adult …
Effect Of Alteplase Use On Outcomes In Patients With Atrial Fibrillation: Analysis Of The Initiation Of Anticoagulation After Cardioembolic Stroke Study, Shadi Yaghi, James Giles, Angela Liu, Salah Keyrouz, Et Al
Effect Of Alteplase Use On Outcomes In Patients With Atrial Fibrillation: Analysis Of The Initiation Of Anticoagulation After Cardioembolic Stroke Study, Shadi Yaghi, James Giles, Angela Liu, Salah Keyrouz, Et Al
Open Access Publications
Background Intravenous alteplase improves outcome after acute ischemic stroke without a benefit in 90-day mortality. There are limited data on whether alteplase is associated with reduced mortality in patients with atrial fibrillation (AF)-related ischemic stroke whose mortality rate is relatively high. We sought to determine the association of alteplase with hemorrhagic transformation and mortality in patients with AF. Methods and Results We retrospectively analyzed consecutive patients with acute ischemic stroke between 2015 and 2018 diagnosed with AF included in the IAC (Initiation of Anticoagulation After Cardioembolic Stroke) study, which pooled data from stroke registries at 8 comprehensive stroke centers across …
Gene Expression Profiles Compared In Environmental And Malnutrition Enteropathy In Zambian Children And Adults, Paul Kelly, Beatrice Amadi, Kanta Chandwe, Ellen Besa, Kanekwa Zyambo, Mubanga Chama, Phillip I Tarr, Nurmohammad Shaikh, I. Malick Ndao, Chad Storer, Richard Head
Gene Expression Profiles Compared In Environmental And Malnutrition Enteropathy In Zambian Children And Adults, Paul Kelly, Beatrice Amadi, Kanta Chandwe, Ellen Besa, Kanekwa Zyambo, Mubanga Chama, Phillip I Tarr, Nurmohammad Shaikh, I. Malick Ndao, Chad Storer, Richard Head
Open Access Publications
BACKGROUND: Environmental enteropathy (EE) contributes to growth failure in millions of children worldwide, but its relationship to clinical malnutrition has not been elucidated. We used RNA sequencing to compare duodenal biopsies from adults and children with EE, and from children with severe acute malnutrition (SAM), to define key features of these malnutrition-related enteropathies.
METHODS: RNA was extracted and sequenced from biopsies of children with SAM in hospital (n=27), children with non-responsive stunting in the community (n=30), and adults living in the same community (n=37) using an identical sequencing and analysis pipeline. Two biopsies each were profiled and differentially expressed genes …
Cell-Free Dna Ultra-Low-Pass Whole Genome Sequencing To Distinguish Malignant Peripheral Nerve Sheath Tumor (Mpnst) From Its Benign Precursor Lesion: A Cross-Sectional Study, Jeffrey J. Szymanski, R. Taylor Sundby, Paul A. Jones, Divya Srihari, Noah Earland, Peter K. Harris, Wenjia Feng, Faridi Qaium, Haiyan Lei, David Roberts, Michele Landeau, Jamie Bell, Yi Huang, Leah Hoffman, Melissa Spencer, Matthew B. Spraker, Li Ding, Brigitte C. Widemann, Jack F. Shern, Angela C. Hirbe, Aadel A. Chaudhuri
Cell-Free Dna Ultra-Low-Pass Whole Genome Sequencing To Distinguish Malignant Peripheral Nerve Sheath Tumor (Mpnst) From Its Benign Precursor Lesion: A Cross-Sectional Study, Jeffrey J. Szymanski, R. Taylor Sundby, Paul A. Jones, Divya Srihari, Noah Earland, Peter K. Harris, Wenjia Feng, Faridi Qaium, Haiyan Lei, David Roberts, Michele Landeau, Jamie Bell, Yi Huang, Leah Hoffman, Melissa Spencer, Matthew B. Spraker, Li Ding, Brigitte C. Widemann, Jack F. Shern, Angela C. Hirbe, Aadel A. Chaudhuri
Open Access Publications
BACKGROUND: The leading cause of mortality for patients with the neurofibromatosis type 1 (NF1) cancer predisposition syndrome is the development of malignant peripheral nerve sheath tumor (MPNST), an aggressive soft tissue sarcoma. In the setting of NF1, this cancer type frequently arises from within its common and benign precursor, plexiform neurofibroma (PN). Transformation from PN to MPNST is challenging to diagnose due to difficulties in distinguishing cross-sectional imaging results and intralesional heterogeneity resulting in biopsy sampling errors.
METHODS AND FINDINGS: This multi-institutional study from the National Cancer Institute and Washington University in St. Louis used fragment size analysis and ultra-low-pass …
Identification Of Structures For Ion Channel Kinetic Models, Kathryn E. Mangold, Wei Wang, Eric K. Johnson, Druv Bhagavan, Jonathan D. Moreno, Jeanne M. Nerbonne, Jonathan R. Silva
Identification Of Structures For Ion Channel Kinetic Models, Kathryn E. Mangold, Wei Wang, Eric K. Johnson, Druv Bhagavan, Jonathan D. Moreno, Jeanne M. Nerbonne, Jonathan R. Silva
Open Access Publications
Markov models of ion channel dynamics have evolved as experimental advances have improved our understanding of channel function. Past studies have examined limited sets of various topologies for Markov models of channel dynamics. We present a systematic method for identification of all possible Markov model topologies using experimental data for two types of native voltage-gated ion channel currents: mouse atrial sodium currents and human left ventricular fast transient outward potassium currents. Successful models identified with this approach have certain characteristics in common, suggesting that aspects of the model topology are determined by the experimental data. Incorporating these channel models into …
Urine Tumor Dna Detection Of Minimal Residual Disease In Muscle-Invasive Bladder Cancer Treated With Curative-Intent Radical Cystectomy: A Cohort Study, Pradeep S. Chauhan, Kevin Chen, Ramandeep K. Babbra, Wenjia Feng, Nadja Pejovic, Armaan Nallicheri, Peter K. Harris, Katherine Dienstbach, Andrew Atkocius, Lenon Maguire, Faridi Qaium, Jeffrey J. Szymanski, Brian C. Baumann, Li Ding, Dengfeng Cao, Melissa A. Reimers, Eric H. Kim, Zachary L. Smith, Vivek K. Arora, Aadel A. Chaudhuri
Urine Tumor Dna Detection Of Minimal Residual Disease In Muscle-Invasive Bladder Cancer Treated With Curative-Intent Radical Cystectomy: A Cohort Study, Pradeep S. Chauhan, Kevin Chen, Ramandeep K. Babbra, Wenjia Feng, Nadja Pejovic, Armaan Nallicheri, Peter K. Harris, Katherine Dienstbach, Andrew Atkocius, Lenon Maguire, Faridi Qaium, Jeffrey J. Szymanski, Brian C. Baumann, Li Ding, Dengfeng Cao, Melissa A. Reimers, Eric H. Kim, Zachary L. Smith, Vivek K. Arora, Aadel A. Chaudhuri
Open Access Publications
BACKGROUND: The standard of care treatment for muscle-invasive bladder cancer (MIBC) is radical cystectomy, which is typically preceded by neoadjuvant chemotherapy. However, the inability to assess minimal residual disease (MRD) noninvasively limits our ability to offer bladder-sparing treatment. Here, we sought to develop a liquid biopsy solution via urine tumor DNA (utDNA) analysis.
METHODS AND FINDINGS: We applied urine Cancer Personalized Profiling by Deep Sequencing (uCAPP-Seq), a targeted next-generation sequencing (NGS) method for detecting utDNA, to urine cell-free DNA (cfDNA) samples acquired between April 2019 and November 2020 on the day of curative-intent radical cystectomy from 42 patients with localized …
The Alternative Serotonin Transporter Promoter P2 Impacts Gene Function In Females With Irritable Bowel Syndrome, Sandra Mohr, Gregory Sayuk, Et Al
The Alternative Serotonin Transporter Promoter P2 Impacts Gene Function In Females With Irritable Bowel Syndrome, Sandra Mohr, Gregory Sayuk, Et Al
Open Access Publications
Irritable bowel syndrome (IBS) is a gut-brain disorder in which symptoms are shaped by serotonin acting centrally and peripherally. The serotonin transporter gene SLC6A4 has been implicated in IBS pathophysiology, but the underlying genetic mechanisms remain unclear. We sequenced the alternative P2 promoter driving intestinal SLC6A4 expression and identified single nucleotide polymorphisms (SNPs) that were associated with IBS in a discovery sample. Identified SNPs built different haplotypes, and the tagging SNP rs2020938 seems to associate with constipation-predominant IBS (IBS-C) in females. rs2020938 validation was performed in 1978 additional IBS patients and 6,038 controls from eight countries. Meta-analysis on data from …
Dietary Compliance In A Randomized Double-Blind Infant Feeding Trial During Infancy Aiming At Prevention Of Type 1 Diabetes, Suvi M Virtanen, Marilyn Tanner-Blasiar, Et Al
Dietary Compliance In A Randomized Double-Blind Infant Feeding Trial During Infancy Aiming At Prevention Of Type 1 Diabetes, Suvi M Virtanen, Marilyn Tanner-Blasiar, Et Al
Open Access Publications
The international Trial to Reduce IDDM in the Genetically at Risk (TRIGR) tested the hypothesis whether extensively hydrolyzed casein-based versus regular cow's milk-based infant formula reduces the risk of type 1 diabetes. We describe dietary compliance in the trial in terms of study formula intake, feeding of nonrecommended foods, and serum cow's milk antibody concentration reflecting intake of cow's milk protein among 2,159 eligible newborn infants with a biological first-degree relative affected by type 1 diabetes and with HLA-conferred susceptibility to type 1 diabetes. The participating infants were introduced to the study formula feeding at the median age of 15 …
Non-Motor Phenotypic Subgroups In Adult-Onset Idiopathic, Isolated, Focal Cervical Dystonia, Megan E Wadon, Joel S Perlmutter, Et Al
Non-Motor Phenotypic Subgroups In Adult-Onset Idiopathic, Isolated, Focal Cervical Dystonia, Megan E Wadon, Joel S Perlmutter, Et Al
Open Access Publications
BACKGROUND: Non-motor symptoms are well established phenotypic components of adult-onset idiopathic, isolated, focal cervical dystonia (AOIFCD). However, improved understanding of their clinical heterogeneity is needed to better target therapeutic intervention. Here, we examine non-motor phenotypic features to identify possible AOIFCD subgroups.
METHODS: Participants diagnosed with AOIFCD were recruited via specialist neurology clinics (dystonia wales: n = 114, dystonia coalition: n = 183). Non-motor assessment included psychiatric symptoms, pain, sleep disturbance, and quality of life, assessed using self-completed questionnaires or face-to-face assessment. Both cohorts were analyzed independently using Cluster, and Bayesian multiple mixed model phenotype analyses to investigate the relationship between …
Decreased Antiviral Immune Response Within The Central Nervous System Of Aged Mice Is Associated With Increased Lethality Of West Nile Virus Encephalitis, Kristen E Funk, Artem D Arutyunov, Pritesh Desai, James P White, Allison L Soung, Sarah F Rosen, Michael S Diamond, Robyn S Klein
Decreased Antiviral Immune Response Within The Central Nervous System Of Aged Mice Is Associated With Increased Lethality Of West Nile Virus Encephalitis, Kristen E Funk, Artem D Arutyunov, Pritesh Desai, James P White, Allison L Soung, Sarah F Rosen, Michael S Diamond, Robyn S Klein
Open Access Publications
West Nile virus (WNV) is an emerging pathogen that causes disease syndromes ranging from a mild flu-like illness to encephalitis. While the incidence of WNV infection is fairly uniform across age groups, the risk of lethal encephalitis increases with advanced age. Prior studies have demonstrated age-related, functional immune deficits that limit systemic antiviral immunity and increase mortality; however, the effect of age on antiviral immune responses specifically within the central nervous system (CNS) is unknown. Here, we show that aged mice exhibit increased peripheral organ and CNS tissue viral burden, the latter of which is associated with alterations in activation …
Radiation Therapy For Vaginal And Perirectal Lesions In Recurrent Ovarian Cancer, E A Johns, J A Stanley, M D Toboni, J K Schwarz, F Zhang, A R Hagemann, K C Fuh, P H Thaker, C K Mccourt, D G Mutch, M A Powell, D Khabele, L M Kuroki
Radiation Therapy For Vaginal And Perirectal Lesions In Recurrent Ovarian Cancer, E A Johns, J A Stanley, M D Toboni, J K Schwarz, F Zhang, A R Hagemann, K C Fuh, P H Thaker, C K Mccourt, D G Mutch, M A Powell, D Khabele, L M Kuroki
Open Access Publications
The role for localized radiation to treat ovarian cancer (OC) patients with locally recurrent vaginal/perirectal lesions remains unclear, though we hypothesize these patients may be salvaged locally and gain long-term survival benefit. We describe our institutional outcomes using intensity modulated radiation therapy (IMRT) +/- high-dose rate (HDR) brachytherapy to treat this population. Our primary objectives were to evaluate complete response rates of targeted lesions after radiation and calculate our 5-year in-field control (IFC) rate. Secondary objectives were to assess radiation-related toxicities, chemotherapy free-interval (CFI), as well as post-radiation progression-free (PFS) and overall survival (OS). PFS and OS were defined from …
Eeg/Erp As A Pragmatic Method To Expand The Reach Of Infant-Toddler Neuroimaging In Hbcd: Promises And Challenges, Elizabeth S Norton, Leigha A Macneill, Emily M Harriott, Norrina Allen, Sheila Krogh-Jespersen, Christopher D Smyser, Cynthia E Rogers, Tara A Smyser, Joan Luby, Lauren Wakschlag
Eeg/Erp As A Pragmatic Method To Expand The Reach Of Infant-Toddler Neuroimaging In Hbcd: Promises And Challenges, Elizabeth S Norton, Leigha A Macneill, Emily M Harriott, Norrina Allen, Sheila Krogh-Jespersen, Christopher D Smyser, Cynthia E Rogers, Tara A Smyser, Joan Luby, Lauren Wakschlag
Open Access Publications
Though electrophysiological measures (EEG and ERP) offer complementary information to MRI and a variety of advantages for studying infants and young children, these measures have not yet been included in large cohort studies of neurodevelopment. This review summarizes the types of EEG and ERP measures that could be used in the HEALthy Brain and Cognitive Development (HBCD) study, and the promises and challenges in doing so. First, we provide brief overview of the use of EEG/ERP for studying the developing brain and discuss exemplar findings, using resting or baseline EEG measures as well as the ERP mismatch negativity (MMN) as …
Systematic Analysis Of Sars-Cov-2 Infection Of An Ace2-Negative Human Airway Cell, Maritza Puray-Chavez, Kyle M Lapak, Jennifer L Elliott, Dhaval P Bhatt, Ria Jasuja, Dana Q Lawson, Keanu Davis, Paul W Rothlauf, Zhuoming Liu, Nakyung Lee, Kasyap Tenneti, Jenna E Eschbach, Christian Shema Mugisha, Hung R Vuong, Laura A Vanblargan, Adam L Bailey, Michael S Diamond, Sean P J Whelan, Amjad Horani, Steven L Brody, Dennis Goldfarb, M Ben Major, Sebla B Kutluay, Et Al
Systematic Analysis Of Sars-Cov-2 Infection Of An Ace2-Negative Human Airway Cell, Maritza Puray-Chavez, Kyle M Lapak, Jennifer L Elliott, Dhaval P Bhatt, Ria Jasuja, Dana Q Lawson, Keanu Davis, Paul W Rothlauf, Zhuoming Liu, Nakyung Lee, Kasyap Tenneti, Jenna E Eschbach, Christian Shema Mugisha, Hung R Vuong, Laura A Vanblargan, Adam L Bailey, Michael S Diamond, Sean P J Whelan, Amjad Horani, Steven L Brody, Dennis Goldfarb, M Ben Major, Sebla B Kutluay, Et Al
Open Access Publications
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) spike (S) variants govern transmissibility, responsiveness to vaccination, and disease severity. In a screen for new models of SARS-CoV-2 infection, we identify human H522 lung adenocarcinoma cells as naturally permissive to SARS-CoV-2 infection despite complete absence of angiotensin-converting enzyme 2 (ACE2) expression. Remarkably, H522 infection requires the E484D S variant; viruses expressing wild-type S are not infectious. Anti-S monoclonal antibodies differentially neutralize SARS-CoV-2 E484D S in H522 cells as compared to ACE2-expressing cells. Sera from vaccinated individuals block this alternative entry mechanism, whereas convalescent sera are less effective. Although the H522 receptor remains …
Patient-Derived Ipsc-Cerebral Organoid Modeling Of The 17q11.2 Microdeletion Syndrome Establishes Crlf3 As A Critical Regulator Of Neurogenesis, Michelle L Wegscheid, Corina Anastasaki, Kelly A Hartigan, Olivia M Cobb, Jason B Papke, Jennifer N Traber, Stephanie M Morris, David H Gutmann
Patient-Derived Ipsc-Cerebral Organoid Modeling Of The 17q11.2 Microdeletion Syndrome Establishes Crlf3 As A Critical Regulator Of Neurogenesis, Michelle L Wegscheid, Corina Anastasaki, Kelly A Hartigan, Olivia M Cobb, Jason B Papke, Jennifer N Traber, Stephanie M Morris, David H Gutmann
Open Access Publications
Neurodevelopmental disorders are often caused by chromosomal microdeletions comprising numerous contiguous genes. A subset of neurofibromatosis type 1 (NF1) patients with severe developmental delays and intellectual disability harbors such a microdeletion event on chromosome 17q11.2, involving the NF1 gene and flanking regions (NF1 total gene deletion [NF1-TGD]). Using patient-derived human induced pluripotent stem cell (hiPSC)-forebrain cerebral organoids (hCOs), we identify both neural stem cell (NSC) proliferation and neuronal maturation abnormalities in NF1-TGD hCOs. While increased NSC proliferation results from decreased NF1/RAS regulation, the neuronal differentiation, survival, and maturation defects are caused by reduced cytokine receptor-like factor 3 (CRLF3) expression and …
A Deep Learning Algorithm To Translate And Classify Cardiac Electrophysiology, Parya Aghasafari, Pei-Chi Yang, Divya C. Kernik, Kazuho Sakamoto, Yasunari Kanda, Junko Kurokawa, Igor Vorobyov, Colleen E. Clancy
A Deep Learning Algorithm To Translate And Classify Cardiac Electrophysiology, Parya Aghasafari, Pei-Chi Yang, Divya C. Kernik, Kazuho Sakamoto, Yasunari Kanda, Junko Kurokawa, Igor Vorobyov, Colleen E. Clancy
Open Access Publications
The development of induced pluripotent stem cell-derived cardiomyocytes (iPSC-CMs) has been a critical in vitro advance in the study of patient-specific physiology, pathophysiology, and pharmacology. We designed a new deep learning multitask network approach intended to address the low throughput, high variability, and immature phenotype of the iPSC-CM platform. The rationale for combining translation and classification tasks is because the most likely application of the deep learning technology we describe here is to translate iPSC-CMs following application of a perturbation. The deep learning network was trained using simulated action potential (AP) data and applied to classify cells into the drug-free …
A Phase Ii Study Of Everolimus In Patients With Advanced Solid Malignancies With Tsc1, Tsc2, Nf1, Nf2 Or Stk11 Mutations, Siddhartha Devarakonda, Bruna Pellini, Luke Verghese, Haeseong Park, Daniel Morgensztern, Ramaswamy Govindan, Rama Suresh, Peter Oppelt, Maria Q. Baggstrom, Ningying Wu, Saiama N. Waqar
A Phase Ii Study Of Everolimus In Patients With Advanced Solid Malignancies With Tsc1, Tsc2, Nf1, Nf2 Or Stk11 Mutations, Siddhartha Devarakonda, Bruna Pellini, Luke Verghese, Haeseong Park, Daniel Morgensztern, Ramaswamy Govindan, Rama Suresh, Peter Oppelt, Maria Q. Baggstrom, Ningying Wu, Saiama N. Waqar
Open Access Publications
Background: Activation of the mTOR pathway has been implicated in the development of several malignancies and alterations in
Methods: A total of 12 patients with histologically confirmed diagnosis of advanced solid tumors (metastatic, recurrent, or unresectable) with mutations in
Results: Of 12 patients enrolled, 8 were evaluable for response at the end of 2 cycles. One complete response (CR) was observed (12.5%) and one patient (12.5%) had stable disease (SD), while six (75%) patients showed disease progression. Everolimus was overall well tolerated with anemia, decreased neutrophil and lymphocyte counts, peripheral edema and hyperglycemia representing the most common adverse events. One …
Npc1 Regulates The Distribution Of Phosphatidylinositol 4-Kinases At Golgi And Lysosomal Membranes, Candice Kutchukian, Oscar Vivas, Maria Casas, Julia G Jones, Scott A Tiscione, Sergi Simó, Daniel S Ory, Rose E Dixon, Eamonn J Dickson
Npc1 Regulates The Distribution Of Phosphatidylinositol 4-Kinases At Golgi And Lysosomal Membranes, Candice Kutchukian, Oscar Vivas, Maria Casas, Julia G Jones, Scott A Tiscione, Sergi Simó, Daniel S Ory, Rose E Dixon, Eamonn J Dickson
Open Access Publications
Cholesterol and phosphoinositides (PI) are two critically important lipids that are found in cellular membranes and dysregulated in many disorders. Therefore, uncovering molecular pathways connecting these essential lipids may offer new therapeutic insights. We report that loss of function of lysosomal Niemann-Pick Type C1 (NPC1) cholesterol transporter, which leads to neurodegenerative NPC disease, initiates a signaling cascade that alters the cholesterol/phosphatidylinositol 4-phosphate (PtdIns4P) countertransport cycle between Golgi-endoplasmic reticulum (ER), as well as lysosome-ER membrane contact sites (MCS). Central to these disruptions is increased recruitment of phosphatidylinositol 4-kinases-PI4KIIα and PI4KIIIβ-which boosts PtdIns4P metabolism at Golgi and lysosomal membranes. Aberrantly increased PtdIns4P …
Predicting The Environmental Suitability For Onchocerciasis In Africa As An Aid To Elimination Planning, Elizabeth A. Cromwell, Ziyad Al-Aly, Et Al
Predicting The Environmental Suitability For Onchocerciasis In Africa As An Aid To Elimination Planning, Elizabeth A. Cromwell, Ziyad Al-Aly, Et Al
Open Access Publications
Recent evidence suggests that, in some foci, elimination of onchocerciasis from Africa may be feasible with mass drug administration (MDA) of ivermectin. To achieve continental elimination of transmission, mapping surveys will need to be conducted across all implementation units (IUs) for which endemicity status is currently unknown. Using boosted regression tree models with optimised hyperparameter selection, we estimated environmental suitability for onchocerciasis at the 5 × 5-km resolution across Africa. In order to classify IUs that include locations that are environmentally suitable, we used receiver operating characteristic (ROC) analysis to identify an optimal threshold for suitability concordant with locations where …
Machine Learning Liver-Injuring Drug Interactions With Non-Steroidal Anti-Inflammatory Drugs (Nsaids) From A Retrospective Electronic Health Record (Ehr) Cohort, Arghya Datta, Noah R. Flynn, Dustyn A. Barnette, Keith F. Woeltje, Grover P. Miller, S. Joshua Swamidass
Machine Learning Liver-Injuring Drug Interactions With Non-Steroidal Anti-Inflammatory Drugs (Nsaids) From A Retrospective Electronic Health Record (Ehr) Cohort, Arghya Datta, Noah R. Flynn, Dustyn A. Barnette, Keith F. Woeltje, Grover P. Miller, S. Joshua Swamidass
Open Access Publications
Drug-drug interactions account for up to 30% of adverse drug reactions. Increasing prevalence of electronic health records (EHRs) offers a unique opportunity to build machine learning algorithms to identify drug-drug interactions that drive adverse events. In this study, we investigated hospitalizations' data to study drug interactions with non-steroidal anti-inflammatory drugs (NSAIDS) that result in drug-induced liver injury (DILI). We propose a logistic regression based machine learning algorithm that unearths several known interactions from an EHR dataset of about 400,000 hospitalization. Our proposed modeling framework is successful in detecting 87.5% of the positive controls, which are defined by drugs known to …
Protein Prenylation And Hsp40 In Thermotolerance Of Plasmodium Falciparum Malaria Parasites, Emily S Mathews, Andrew J Jezewski, Audrey R Odom John
Protein Prenylation And Hsp40 In Thermotolerance Of Plasmodium Falciparum Malaria Parasites, Emily S Mathews, Andrew J Jezewski, Audrey R Odom John
Open Access Publications
During its complex life cycle, the malaria parasite survives dramatic environmental stresses, including large temperature shifts. Protein prenylation is required during asexual replication of Plasmodium falciparum, and the canonical heat shock protein 40 protein (HSP40; PF3D7_1437900) is posttranslationally modified with a 15-carbon farnesyl isoprenyl group. In other organisms, farnesylation of Hsp40 orthologs controls their localization and function in resisting environmental stress. In this work, we find that plastidial isopentenyl pyrophosphate (IPP) synthesis and protein farnesylation are required for malaria parasite survival after cold and heat shock. Furthermore, loss of HSP40 farnesylation alters its membrane attachment and interaction with proteins in …
Sotorasib For Lung Cancers With Kras P.G12c Mutation, Ferdinandos Skoulidis, Ramaswamy Govindan, Et Al
Sotorasib For Lung Cancers With Kras P.G12c Mutation, Ferdinandos Skoulidis, Ramaswamy Govindan, Et Al
Open Access Publications
BACKGROUND: Sotorasib showed anticancer activity in patients with
METHODS: In a single-group, phase 2 trial, we investigated the activity of sotorasib, administered orally at a dose of 960 mg once daily, in patients with
RESULTS: Among the 126 enrolled patients, the majority (81.0%) had previously received both platinum-based chemotherapy and inhibitors of programmed death 1 (PD-1) or programmed death ligand 1 (PD-L1). According to central review, 124 patients had measurable disease at baseline and were evaluated for response. An objective response was observed in 46 patients (37.1%; 95% confidence interval [CI], 28.6 to 46.2), including in 4 (3.2%) who had …
Does Raising The Arms Modify Head Tremor Severity In Cervical Dystonia?, Elizabeth Cisneros, Joel S Perlmutter, Et Al
Does Raising The Arms Modify Head Tremor Severity In Cervical Dystonia?, Elizabeth Cisneros, Joel S Perlmutter, Et Al
Open Access Publications
Background: A defining characteristic of dystonia is its position-dependence. In cervical dystonia (CD), sensory tricks ameliorate head tremor (HT). But it remains unknown whether raising the arms alone has the same impact.
Methods: We analyzed data collected from patients enrolled by the Dystonia Coalition. For 120 patients with HT, we assessed how raising their arms without touching their head changed their HT severity.
Results: Forty-eight out of 120 patients exhibited changes in HT severity when raising their arms. These patients were more likely to exhibit decreases in HT severity (N = 35) than increases (N = 13, χ
Discussion: Raising …
A Role For Il-33-Activated Ilc2s In Eosinophilic Vasculitis, Maya E Kotas, Jérémie Dion, Steven Van Dyken, Roberto R Ricardo-Gonzalez, Claire J Danel, Camille Taillé, Luc Mouthon, Richard M Locksley, Benjamin Terrier
A Role For Il-33-Activated Ilc2s In Eosinophilic Vasculitis, Maya E Kotas, Jérémie Dion, Steven Van Dyken, Roberto R Ricardo-Gonzalez, Claire J Danel, Camille Taillé, Luc Mouthon, Richard M Locksley, Benjamin Terrier
Open Access Publications
Eosinophilic granulomatosis with polyangiitis (EGPA) is a rare but serious disease with poorly understood mechanisms. Here, we report that patients with EGPA have elevated levels of TSLP, IL-25, and soluble ST2, which are well-characterized cytokine "alarmins" that activate or modulate type 2 innate lymphoid cells (ILC2s). Patients with active EGPA have a concurrent reduction in circulating ILC2s, suggesting a role for ILC2s in the pathogenesis of this disease. To explore the mechanism of these findings in patients, we established a model of EGPA in which active vasculitis and pulmonary hemorrhage were induced by IL-33 administration in predisposed, hypereosinophilic mice. In …
Ketogenic Diet Restrains Aging-Induced Exacerbation Of Coronavirus Infection In Mice, Seungjin Ryu, Irina Shchukina, Maxim Artyomov, Et Al
Ketogenic Diet Restrains Aging-Induced Exacerbation Of Coronavirus Infection In Mice, Seungjin Ryu, Irina Shchukina, Maxim Artyomov, Et Al
Open Access Publications
Increasing age is the strongest predictor of risk of COVID-19 severity and mortality. Immunometabolic switch from glycolysis to ketolysis protects against inflammatory damage and influenza infection in adults. To investigate how age compromises defense against coronavirus infection, and whether a pro-longevity ketogenic diet (KD) impacts immune surveillance, we developed an aging model of natural murine beta coronavirus (mCoV) infection with mouse hepatitis virus strain-A59 (MHV-A59). When inoculated intranasally, mCoV is pneumotropic and recapitulates several clinical hallmarks of COVID-19 infection. Aged mCoV-A59-infected mice have increased mortality and higher systemic inflammation in the heart, adipose tissue, and hypothalamus, including neutrophilia and loss …
Sars-Cov-2 E Gene Variant Alters Analytical Sensitivity Characteristics Of Viral Detection Using A Commercial Reverse Transcription-Pcr Assay, Stephen Tahan, Bijal A Parikh, Lindsay Droit, Meghan A. Wallace, Carey-Ann D Burnham, David Wang
Sars-Cov-2 E Gene Variant Alters Analytical Sensitivity Characteristics Of Viral Detection Using A Commercial Reverse Transcription-Pcr Assay, Stephen Tahan, Bijal A Parikh, Lindsay Droit, Meghan A. Wallace, Carey-Ann D Burnham, David Wang
Open Access Publications
Diagnostic assays for detecting severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) are essential for patient management, infection prevention, and the public health response for coronavirus disease 2019 (COVID-19). The efficacy and reliability of these assays are of paramount importance in both tracking and controlling the spread of the virus. Real-time reverse transcription-PCR (RT-PCR) assays rely on a fixed genetic sequence for primer and probe binding. Mutations can potentially alter the accuracy of these assays and lead to unpredictable analytical performance characteristics and false-negative results. Here, we identify a G-to-U transversion (nucleotide 26372) in the SARS-CoV-2 E gene in three specimens …