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JOURNAL ARTICLE
Robert Dagostino, Assaf Gottlieb
BACKGROUND: Deciphering gene regulation is essential for understanding the underlying mechanisms of healthy and disease states. While the regulatory networks formed by transcription factors (TFs) and their target genes has been mostly studied with relation to cis effects such as in TF binding sites, we focused on trans effects of TFs on the expression of their transcribed genes and their potential mechanisms. RESULTS: We provide a comprehensive tissue-specific atlas, spanning 49 tissues of TF variations affecting gene expression through computational models considering two potential mechanisms, including combinatorial regulation by the expression of the TFs, and by genetic variants within the TF...
April 17, 2024: BMC Genomics
#2
JOURNAL ARTICLE
John Kanayochukwu Nduka, Theresa Chisom Umeh, Henrietta Ijeoma Kelle, Francisca Chioma Okeke, Genevieve Chinyere Iloka, Perpetua Chioma Okafor
The manuscript presents the investigation results on the pollution and risk of metal mines, and it is considered an important report on environmental pollution near mines in Nigeria, with archival value. The research involved soil sampling and heavy metal analysis for about 12 months in three metal mines. Based on these results, the paper provides information on pollution levels and hazards using well-known methods like pollution and ecological risk indexes. The increasing population in urban communities attracted by various industrial, economic and social activities causes contamination of atmospheric environment that can affect human health...
March 2024: Environmental analysis, health and toxicology
#3
JOURNAL ARTICLE
Melina Peressini, Rosario Garcia-Campelo, Bartomeu Massuti, Cristina Marti, Manuel Cobo, Vanesa Gutiérrez, Manuel Dómine, Jose Fuentes, Margarita Majem, Javier de Castro, Juan Felipe Cordoba, Maria Pilar Diz, Dolores Isla, Emilio Esteban, Enric Carcereny, Laia Vila, Alberto Moreno-Vega, Silverio Ros, Amaia Moreno, Francisco Javier Garcia, Gerardo Huidobro, Carlos Aguado, Victor Cebey-Lopez, Javier Valdivia, Ramon Palmero, Pilar Lianes, Marta Lopez-Brea, Oscar Juan Vidal, Mariano Provencio, Edurne Arriola, Javier Baena, Mercedes Herrera, Helena Bote, Magdalena Molero, Vera Adradas, Santiago Ponce-Aix, Angel Nuñez-Buiza, Álvaro Ucero, Susana Hernandez, Fernando Lopez-Rios, Esther Conde, Luis Paz-Ares, Jon Zugazagoitia
BACKGROUND: Transcriptomic subtyping holds promise for personalized therapy in extensive-stage small-cell lung cancer (ES-SCLC). In this study, we aimed to assess intratumoral transcriptomic subtype diversity and to identify biomarkers of long-term chemoimmunotherapy benefit in human ES-SCLC. PATIENTS AND METHODS: We analyzed tumor samples from 58 ES-SCLC patients enrolled in two multicenter single-arm phase IIIb studies evaluating front-line chemoimmunotherapy in Spain: n=32 from the IMfirst trial, and n=26 from the CANTABRICO trial...
April 17, 2024: Clinical Cancer Research
#4
JOURNAL ARTICLE
M Cristina Vazquez Guillamet, Rodrigo Vazquez Guillamet, Ashraf Rjob, Daniel Reynolds, Bijal Parikh, Vladimir Despotovic, Derek E Byers, Ali H Ellebedy, Marin H Kollef, Philip A Mudd
RATIONALE: Recent studies suggest that both hypo- and hyperinflammatory acute respiratory distress syndrome (ARDS) phenotypes characterize severe COVID-19-related pneumonia. The role of lung Severe Acute Respiratory Syndrome - Coronavirus 2 (SARS-CoV-2) viral load in contributing to these phenotypes remains unknown. OBJECTIVES: To redefine COVID-19 ARDS phenotypes when considering quantitative SARS-CoV-2 RT-PCR in the bronchoalveolar lavage of intubated patients...
April 17, 2024: Journal of Intensive Care Medicine
#5
JOURNAL ARTICLE
Liane Dupon, Bastien Trabucco, Facundo Muñoz, François Casabianca, François Charrier, Morgane Laval, Ferran Jori
The pig sector in Corsica is based by a wide range of farming systems, mainly characterized on traditional extensive practices, which favor contacts between domestic and wild individuals. These contacts are suspected to influence the maintenance and the transmission of shared infectious diseases between both populations. Therefore, it is important to develop methods that allow to understand and anticipate their occurrence. Modeling these interactions requires accurate data on the presence, location and use of land on pig farms and farming practices, but such data are often unavailable, incomplete or outdated...
2024: Frontiers in Veterinary Science
#6
JOURNAL ARTICLE
Takahiro Maki, Nozomi Sannomiya, Toshihide Hirao, Dai Fukui
This study investigated the relative influences of environmental, spatial, and historical factors, including the island-specific history of land connectivity, on bat assemblages in the Japanese Archipelago. We collected bat distribution data from 1408 studies and assigned them to Japan's First Standard Grid (approximately 6400 km2 ). Japanese bat assemblages were analyzed at two scales: the entire Japanese Archipelago comprised 16 islands and exclusively the four main islands. At first, we calculated taxonomic and functional total beta diversity ( β total ) by Jaccard pairwise dissimilarity and then divided this into turnover ( β repl ) and richness-difference ( β rich ) components...
April 2024: Ecology and Evolution
#7
JOURNAL ARTICLE
David Angeles, Sebastian Kurtek, Elizabeth Klein, Marielle Brinkman, Amy Ferketich
Health warning labels have been found to increase awareness of the harmful effects of tobacco products. An eye tracking study was conducted to determine the optimal placement and type of a health warning label on tobacco waterpipes. Participants viewed images that contained one of (1) four waterpipes, (2) three different types of warning labels, (3) placed in three locations. Typically, statistical analysis of eye tracking data is conducted based on summary statistics such as total dwell time, duration score, and number of visits to an area of interest...
2024: Journal of Applied Statistics
#8
JOURNAL ARTICLE
Rui Gao, Guanghui Li, Pingxiang Liu, Lei Gao, Jingxiu Bi, Yuying Jiang, Honglei Liu, Yutao Wang
Asparagus, a vital economic contributor, is a well-liked vegetable grown around the globe, and some secondary metabolites in its spear are beneficial to human health. Asparagus spears possess a significant quantity of nutrients and phytochemicals; however, the difference in these chemical compositions among various varieties has not been sufficiently studied. This work aimed to detect the chemical compositions of 30 varieties of asparagus and to assess them by principal component analysis (PCA). The results showed that the contents of these chemical compositions varied in varieties...
April 2024: Food Science & Nutrition
#9
JOURNAL ARTICLE
J Niewolik, M Mikuteit, S Klawitter, D Schröder, A Stölting, K Vahldiek, S Heinemann, F Müller, Gmn Behrens, F Klawonn, A Dopfer-Jablonka, S Steffens
The long-term symptoms of COVID-19 are the subject of public and scientific discussions. Understanding how those long COVID symptoms co-occur in clusters of syndromes may indicate the pathogenic mechanisms of long COVID. Our study objective was to cluster the different long COVID symptoms. We included persons who had a COVID-19 and assessed long-term symptoms (at least 4 weeks after first symptoms). Hierarchical clustering was applied to the symptoms as well as to the participants based on the Euclidean distance h of the log-values of the answers on symptom severity...
April 16, 2024: Immunologic Research
#10
JOURNAL ARTICLE
Peter C Britton, Kipling M Bohnert, Lauren M Denneson, Dara Ganoczy, Mark A Ilgen
Crisis line responders initiate emergency dispatches by activating 911 or other local emergency services when individuals are determined to be at imminent risk for undesired outcomes. This study examined the association of characteristics, psychiatric diagnoses, and somatic symptoms with emergency dispatches in a national sample. Veterans Crisis Line data were used to identify contacts (i.e., calls, texts, chats, emails) that were linked with medical records and had a medical encounter in the year prior to contact...
April 10, 2024: Journal of Psychiatric Research
#11
JOURNAL ARTICLE
Benjamin J Murdock, Bangyao Zhao, Kristen D Pawlowski, Joshua P Famie, Caroline E Piecuch, Ian F Webber-Davis, Samuel J Teener, Eva L Feldman, Lili Zhao, Stephen A Goutman
BACKGROUND AND OBJECTIVES: Amyotrophic lateral sclerosis (ALS) is a fatal neurodegenerative disease whose pathobiology associates with peripheral blood immune cell levels and activation patterns in an age and sex-dependent manner. This study's objective was to identify immune profile associations with ALS progression, whether the associations are age and sex-specific, and whether immune profiles can predict a future disease course. METHODS: Flow cytometry immune profiles (a combination of 22 peripheral blood immune markers) were generated for 241 participants with ALS and linked to ALS progression, using progression-free survival, which is a composite combining the revised ALS Functional Rating Scale and survival...
May 2024: Neurology® Neuroimmunology & Neuroinflammation
#12
JOURNAL ARTICLE
Yonghui Li, Yingying Tian, Xiaojun Zhou, Xiangmeng Guo, Huiyuan Ya, Shipeng Li, Xiangli Yu, Congying Yuan, Kai Gao
INTRODUCTION: Paeonia lactiflora contains diverse active constituents and exhibits various pharmacological activities. However, only partial identification of biologically active substances from P. lactiflora has been achieved using low-throughput techniques. Here, the roots of P. lactiflora, namely, Fenyunu (CK), Dafugui (DFG), and Red Charm (HSML), were studied. The primary and secondary metabolites were investigated using ultrahigh-performance liquid chromatography-electrospray ionization-tandem mass spectrometry (UPLC-ESIMS/MS)...
2024: PloS One
#13
JOURNAL ARTICLE
Nachshon Korem, Or Duek, Tobias Spiller, Ziv Ben-Zion, Ifat Levy, Ilan Harpaz-Rotem
IMPORTANCE: Posttraumatic stress disorder (PTSD) is marked by the contrasting symptoms of hyperemotional reactivity and emotional numbing (ie, reduced emotional reactivity). Comprehending the mechanism that governs the transition between neutral and negative emotional states is crucial for developing targeted therapeutic strategies. OBJECTIVES: To explore whether individuals with PTSD experience a more pronounced shift between neutral and negative emotional states and how the intensity of emotional numbing symptoms impacts this shift...
April 1, 2024: JAMA Network Open
#14
JOURNAL ARTICLE
Karolis Matikonis, Matthew Gobey
UNLABELLED: We investigate the productivity spillovers from the UK government's decision to use extensive property tax reductions as a key instrument to stimulate innovation in smaller businesses and drive local growth. To capture the complex interaction and clustering of hierarchical effects, we apply non-parametric Random Effects Expectation Maximisation algorithm that complements more standard econometric estimators, namely matching to control for endogeneity and control functions to estimate total factor productivity...
May 9, 2023: Small Bus Econ (Dordr)
#15
JOURNAL ARTICLE
Seong Jun Hong, Jin-Ju Cho, Hyangyeon Jeong, Sojeong Yoon, Seong Min Jo, Moon Yeon Youn, Eui-Cheol Shin
This research investigated volatiles and odor active compounds in Osmanthus fragrans var. aurantiacus . Heterocyclics were mainly extracted from hexane and dichloromethane extracts. Ketones were mainly detected from butanol fraction, and alcohols were mainly extracted from the ethanol fraction. GC-O analysis investigated the contents and intensities of three major odor active compounds increasing by ramping up polarity Multivariate analysis, which includes principal component analysis (PCA) and hierarchical cluster analysis (HCA), by E-nose data showed 45...
June 2024: Food Science and Biotechnology
#16
JOURNAL ARTICLE
Marc Ghanem, Camilo Espinosa, Philip Chung, Momsen Reincke, Natasha Harrison, Thanaphong Phongpreecha, Sayane Shome, Geetha Saarunya, Eloise Berson, Tomin James, Feng Xie, Chi-Hung Shu, Debapriya Hazra, Samson Mataraso, Yeasul Kim, David Seong, Dipro Chakraborty, Manuel Studer, Lei Xue, Ivana Marić, Alan L Chang, Erico Tjoa, Brice Gaudillière, Vivianne L Tawfik, Sean Mackey, Nima Aghaeepour
BACKGROUND: Anesthesiology plays a crucial role in perioperative care, critical care, and pain management, impacting patient experiences and clinical outcomes. However, our understanding of the anesthesiology research landscape is limited. Accordingly, we initiated a data-driven analysis through topic modeling to uncover research trends, enabling informed decision-making and fostering progress within the field. METHODS: The easyPubMed R package was used to collect 32,300 PubMed abstracts spanning from 2000 to 2022...
April 15, 2024: Heliyon
#17
JOURNAL ARTICLE
Huayan Ma, Yuxian Zhang, Jing Li, Tiantian Xie, Zhi Zhao
Osteosarcoma is a highly aggressive cancer prevalent among adolescents and young adults, notorious for its tendency to metastasize to the lungs. This research delves into the molecular foundations of osteosarcoma by examining the role of the Hippo signaling pathway and its interaction with the tumor immune microenvironment (TME). Through analysis of transcriptomic data from the TARGET-OS dataset and control samples from GTEx, we identified a set of 131 genes that link high expression profiles in osteosarcoma with the Hippo pathway...
April 15, 2024: Environmental Toxicology
#18
JOURNAL ARTICLE
Chun Geun Lim, Hui Joong Lee
PURPOSE: Metabolic abnormalities in hepatic encephalopathy (HE) cause brain edema or demyelinating disease, resulting in symmetric regional cerebral edema (SRCE) on MRI. This study aimed to investigate the usefulness of the clustering analysis of SRCE in predicting the development of brain failure. MATERIALS AND METHODS: MR findings and clinical data of 98 consecutive patients with HE were retrospectively analyzed. The correlation between the 12 regions of SRCE was calculated using the phi (Φ) coefficient, and the pattern was classified using hierarchical clustering using the φ2 distance measure and Ward's method...
March 2024: J Korean Soc Radiol
#19
JOURNAL ARTICLE
Xiao-Fei Li, Xing-Tao Qie, Bao-Tong Mo, Cai-Feng Wang, Zeng-Hua Xing, Jin-Yu Zhao, Chen-Zhu Wang, Chi Hao, Li Ma, Xi-Zhong Yan
Sex pheromones, which consist of multiple components in specific ratios promote intraspecific sexual communications of insects. Plutella xylostella (L.) is a worldwide pest of cruciferous vegetables, the mating behavior of which is highly dependent on its olfactory system. Long trichoid sensilla on male antennae are the main olfactory sensilla that can sense sex pheromones. However, the underlying mechanisms remain unclear. In this study, 3 sex pheromone components from sex pheromone gland secretions of P. xylostella female adults were identified as Z11-16:Ald, Z11-16:Ac, and Z11-16:OH in a ratio of 9...
April 14, 2024: Insect Science
#20
JOURNAL ARTICLE
Laura Brandt, Gabriel J Odom, Mei-Chen Hu, Clinton Castro, Raymond R Balise
BACKGROUND AND AIMS: A lack of consensus on the optimal outcome measures to assess opioid use disorder (OUD) treatment efficacy and their precise definition and computation has hampered the pooling of research data for evidence synthesis and meta-analyses. This study aimed to empirically contrast multiple clinical trial definitions of treatment success by applying them to the same dataset. METHODS: Data analysis used a suite of functions, developed as a software package for the R language, to operationalize 61 treatment outcome definitions based on urine drug screening (UDS) results...
April 14, 2024: Addiction
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