Article
Immunology
Vanessa Kremer, Ophelie Godon, Pierre Bruhns, Friederike Jonsson, Luc de Chaisemartin
Summary: This study assessed the impact of five commonly used methods for neutrophil isolation on neutrophil yield, purity, activation status, and responsiveness. The results showed that neutrophils isolated by negative immunomagnetic selection and density gradient methods, without red blood cell lysis, closely resembled untouched neutrophils in whole blood. These neutrophils were less activated and more responsive to milder stimuli compared to those obtained using density gradients requiring red blood cell lysis. The study highlights the importance of selecting the appropriate method for studying neutrophils and standardizing isolation protocols.
FRONTIERS IN IMMUNOLOGY
(2023)
Article
Biochemical Research Methods
Christian Ponte-Fernandez, Jorge Gonzalez-Dominguez, Antonio Carvajal-Rodriguez, Maria Jose Martin
Summary: This study compared different epistasis detection methods in terms of runtime, detection power, and type I error rate, emphasizing the performance differences between exhaustive and non-exhaustive methods. Exhaustive methods showed better detection power but higher computational cost; non-exhaustive methods performed well in the presence of marginal effects.
IEEE-ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS
(2022)
Article
Acoustics
Arno Raes, Rajeshreddy Ninakanti, Lore van den Bergh, Rituraj Borah, Sabine Van Doorslaer, Sammy W. Verbruggen
Summary: In the field of photocatalysis, the fabrication of black titania is a popular topic. This study suggests that the darkening of white TiO2 powders during sonochemical treatment is due to erosion of the sonotrode tip rather than the synthesis of black TiO2 with defects. It also emphasizes the importance of considering probe erosion in sonochemical catalyst synthesis.
ULTRASONICS SONOCHEMISTRY
(2023)
Article
Public, Environmental & Occupational Health
Katie Truc Nhat H. Nguyen, Jennifer J. Stuart, Aarushi H. Shah, Iris A. Becene, Madeline G. West, Jane Berrill, Bizu Gelaye, Christina P. C. Borba, Janet W. Rich-Edwards
Summary: Qualitative research methods are not commonly used in public health research, but they have the potential to enhance insights gained from large questionnaires and cohort studies. However, methods for conducting qualitative research within large samples are underdeveloped.
AMERICAN JOURNAL OF EPIDEMIOLOGY
(2023)
Editorial Material
Biotechnology & Applied Microbiology
Joshua D. Jones, Daniel E. Eyler, Kristin S. Koutmou
Summary: This study introduces new methods for large-scale functional analyses of mRNA modifications, specifically N-6-methyladenosine and pseudouridine.
NATURE BIOTECHNOLOGY
(2023)
Article
Multidisciplinary Sciences
Ronaldo Celerino da Silva, Suelen Cristina de Lima, Wendell Paloma Maria dos Santos Reis, Jurandy Junior Ferraz de Magalhaes, Ronaldo Nascimento de Oliveira Magalhaes, Brijesh Rathi, Alain Kohl, Marcos Andre Cavalcanti Bezerra, Lindomar Pena
Summary: This study compared three DNA extraction methods for COVID-19 host genetic studies and found that Chelex (R) 100 resin is a cheap, simple, fast, and high-quality method for extracting DNA from nasopharyngeal samples of COVID-19 patients.
Article
Multidisciplinary Sciences
Valentina Bettio, Eleonora Mazzucco, Annamaria Antona, Silvia Cracas, Marco Varalda, Jacopo Venetucci, Stefania Bruno, Giulia Chiabotto, Chiara Venegoni, Alessandra Vasile, Annalisa Chiocchetti, Marco Quaglia, Giovanni Camussi, Vincenzo Cantaluppi, Massimiliano Panella, Roberta Rolla, Marcello Manfredi, Daniela Capello
Summary: Extracellular vesicles (EVs) isolated from plasma are promising biomarkers for disease discovery and drug delivery. The impact of pre-analytical variables, such as plasma anticoagulants and isolation methods, needs to be carefully considered.
Article
Engineering, Civil
Furkan Cakmak, Fatmir Menkulasi, Mehmet Dogu
Summary: An experimental database of 64 nonprestressed ultra high performance fiber reinforced concrete (UHPFRC) flat plates was generated and investigated. Several parameters were analyzed to understand the relationship with shear stress at failure. Various prediction methodologies were evaluated for their accuracy in estimating punching shear capacity. The need for more accurate prediction methods and guidelines for casting methods were highlighted.
ENGINEERING STRUCTURES
(2023)
Article
Cell Biology
Emmalee J. Northrop-Albrecht, William R. Taylor, Bing Q. Huang, John B. Kisiel, Fabrice Lucien
Summary: This study evaluated five methods for isolating extracellular vesicles from stool, and found that ultrafiltration and size exclusion chromatography had better performance. The findings provide a foundation for further research on stool-derived extracellular vesicles as novel biomarkers for early colorectal cancer detection.
JOURNAL OF EXTRACELLULAR VESICLES
(2022)
Article
Multidisciplinary Sciences
Gavin J. Sutton, Daniel Poppe, Rebecca K. Simmons, Kieran Walsh, Urwah Nawaz, Ryan Lister, Johann A. Gagnon-Bartsch, Irina Voineagu
Summary: Transcriptome deconvolution methods for human brain transcriptome were evaluated and the authors concluded that partial deconvolution algorithms work best, but appropriate cell-type signatures are also important.
NATURE COMMUNICATIONS
(2022)
Article
Cell & Tissue Engineering
Liem Thanh Nguyen, Nghia Trung Tran, Uyen Thi Trang Than, Minh Quang Nguyen, Anh Minh Tran, Phuong Thi Xuan Do, Thao Thi Chu, Tu Dac Nguyen, Anh Viet Bui, Tien Anh Ngo, Van Thanh Hoang, Nhung Thi My Hoang
Summary: This study evaluated the efficiency of UCB-MSC isolation and expansion using different commercially available media kits and found that StemMACS(TM) MSC Expansion Media is more appropriate. Autologous serum coating and plasma supplement enhanced cell proliferation. UCB-MSCs exhibited functions in promoting angiogenesis and inhibiting cancer cell growth.
STEM CELL RESEARCH & THERAPY
(2022)
Article
Cell Biology
Aisha Naeem, Nikita Gupta, Natasha Arzoo, Usra Naeem, Muhammad Jawad Khan, Muhammad Umer Choudhry, Wanxing Cui, Chris Albanese
Summary: This article critically evaluates the methods used for isolation, expansion, and cryopreservation of human amniotic epithelial cells (hAECs) and discusses the progress and challenges in optimizing clinically suitable culture conditions for ex-vivo expansion and storage of these cells. The review emphasizes the importance of overcoming limitations in maintaining the stemness of hAECs in both xenogeneic and xenofree culture conditions.
Review
Biochemical Research Methods
Tania Soares Martins, Margarida Vaz, Ana Gabriela Henriques
Summary: Exosomes are valuable sources of disease biomarkers and therapeutic tools. However, isolating extracellular vesicles with exosome-like characteristics from certain biofluids is still challenging due to the complexity and specific properties of each biofluid. This review summarizes and discusses comparative studies on different exosome isolation methods from human biofluids, including challenges, physical properties, and potential variation sources.
ANALYTICAL AND BIOANALYTICAL CHEMISTRY
(2023)
Article
Multidisciplinary Sciences
Yingchao Meng, Yanan Zhang, Marcel Buhler, Shuchen Wang, Mohammad Asghari, Alessandra Sturchler, Bogdan Mateescu, Tobias Weiss, Stavros Stavrakis, Andrew J. deMello
Summary: A simple viscoelastic-based microfluidic platform is presented for label-free isolation of small extracellular vesicles (sEVs) from human blood, with high purity, recovery rates, and increased yield compared to conventional methods. The clinical utility of the approach is demonstrated by isolating sEVs from blood samples of cancer patients and healthy donors, showing elevated sEV concentrations in the blood of cancer patients.
Article
Biochemistry & Molecular Biology
Yanru Xing, Xi Yang, Haixiao Chen, Sujun Zhu, Jinjin Xu, Yuan Chen, Juan Zeng, Fang Chen, Mark Richard Johnson, Hui Jiang, Wen-Jing Wang
Summary: The study found that different cell isolation methods have an impact on gene detection sensitivity, transcriptome, and microbial diversity in peripheral blood. Buffy coat extraction method showed similar transcriptome profiles with whole blood, while RBC lysis and PBMC isolation effectively removed red blood cells. Blood cell isolations could largely influence the sensitivity of detection of human genes and transcriptome profile.
MOLECULAR BIOLOGY REPORTS
(2021)
Review
Immunology
Shane Prenzler, Santosh Rudrawar, Mario Waespy, Sorge Kelm, Shailendra Anoopkumar-Dukie, Thomas Haselhorst
Summary: Siglec-1, also known as Sialoadhesin (Sn) and CD169, is a large member of the Siglec family expressed mainly on dendritic cells, macrophages, and interferon induced monocytes. It has a unique structure and function, allowing it to internalize antigens and pass them on to lymphocytes. It plays a key role in multiple human disease states, particularly bacterial and viral infections.
INTERNATIONAL REVIEWS OF IMMUNOLOGY
(2023)
Editorial Material
Cell Biology
Amin Ardestani, Kathrin Maedler
Summary: The study identifies olfactory receptor Olfr109 in beta cells with increased expression in islets from mouse models of obesity and type 1 and type 2 diabetes. Binding of a small insulin fragment to Olfr109 fosters islet inflammation, beta cell failure, and diabetes progression.
Article
Psychiatry
Luca Kleineidam, Melina Stark, Steffi G. Riedel-Heller, Alexander Pabst, Florian Schmiedek, Fabian Streit, Marcella Rietschel, Johanna Klinger-Koenig, Hans J. Grabe, Angelika Erhardt, Goetz Gelbrich, Boerge Schmidt, Klaus Berger, Michael Wagner
Summary: This study described the cognitive test battery of the German National Cohort (NAKO) and examined its associations with demographic variables and selected psychiatric and neurological conditions. The results showed that lower cognitive function was associated with increasing age and male sex, while higher education and absence of childhood trauma were associated with better cognitive function.
WORLD JOURNAL OF BIOLOGICAL PSYCHIATRY
(2022)
Article
Psychiatry
Florian Schmiedek, Ulf Kroehne, Frank Goldhammer, John J. Prindle, Ulman Lindenberger, Johanna Klinger-Koenig, Hans J. Grabe, Steffi G. Riedel-Heller, Alexander Pabst, Fabian Streit, Lea Zillich, Luca Kleineidam, Michael Wagner, Marcella Rietschel, Dan Rujescu, Boerge Schmidt, Klaus Berger
Summary: This study evaluates the block-adaptive number series task of reasoning as a time-efficient proxy for general cognitive ability in the Level-2 sample of the German National Cohort. The results show that the task provides a valid proxy for general cognitive ability based on the distribution of performance scores and their correlations with other cognitive tasks.
WORLD JOURNAL OF BIOLOGICAL PSYCHIATRY
(2022)
Article
Endocrinology & Metabolism
Amin Ardestani, Kathrin Maedler
Summary: MST1, an integral component of the Hippo pathway, plays a key role in regulating organ size, stress response, and tissue homeostasis. Its deletion can improve glucose tolerance and insulin secretion, restore pancreatic beta-cell mass, and enhance beta-cell survival and proliferation in response to diabetes-induced injury.
NUTRITION & DIABETES
(2022)
Article
Infectious Diseases
Mario Waespy, Thaddeus Termulun Gbem, Nilima A. Dinesh Kumar, Shanmugam Solaiyappan Mani, Jana A. Rosenau, Frank Dietz, Sorge A. Kelm
Summary: This study investigates the influence of TconTS3-LD on the enzyme activity of TconTS1a-CD by swapping domains, and finds that TconTS3-LD can modulate the enzyme activity of TconTS1a-CD and increase transfer efficiency.
PLOS NEGLECTED TROPICAL DISEASES
(2022)
Review
Biochemistry & Molecular Biology
Li Yuan, Samuel Muli, Inge Huybrechts, Ute Noethlings, Wolfgang Ahrens, Augustin Scalbert, Anna Floegel
Summary: There is a lack of research on biomarkers of fruit and vegetable intake in children and adolescents, but potential biomarkers have been identified with distinct characteristics compared to adults. Further studies are needed to validate these biomarkers and apply them in epidemiological studies.
Article
Cell Biology
Blaz Lupse, Nick Heise, Kathrin Maedler, Amin Ardestani
Summary: PHLPPs play a role in restoring beta-cell function and survival in diabetes. Their upregulation and activation are associated with beta-cell dysfunction, affecting the cell's ability to survive through control mechanisms.
CELL DEATH DISCOVERY
(2022)
Article
Genetics & Heredity
Fabio Lauria, Giuseppe Iacomino, Paola Russo, Antonella Venezia, Pasquale Marena, Wolfgang Ahrens, Stefaan De Henauw, Gabriele Eiben, Ronja Foraita, Antje Hebestreit, Yiannis Kourides, Denes Molnar, Luis A. Moreno, Toomas Veidebaum, Alfonso Siani
Summary: Increasing evidence suggests that obesity caused by overnutrition can trigger an inflammatory response and affect the innate immune system. miRNAs, as important regulators in immune cell development, immune responses, autoimmunity, and inflammation, have been found to be involved in the inflammatory process. This study aimed to investigate the association between candidate miRNAs and inflammation-related biomarkers in overweight and obese European children. The findings suggest sex differences in the association of circulating miRNAs with inflammatory response biomarkers, indicating a possible role of miRNAs in the process of low-grade inflammation in childhood obesity.
Review
Oncology
Jantje Goerdten, Li Yuan, Inge Huybrechts, Vanessa Neveu, Ute Nothlings, Wolfgang Ahrens, Augustin Scalbert, Anna Floegel
Summary: Endogenous and exogenous metabolite concentrations can vary over time, leading to misclassification of exposure levels and biased results. The intraclass correlation coefficient (ICC) is used to assess the reproducibility of metabolites. This review includes 192 studies, with 31 studies included in the meta-analysis, reporting ICCs for 359 single metabolites and meta-analyzing ICCs for 10 metabolites. The reproducibility of single metabolites varies widely and is compound-dependent.
CANCER EPIDEMIOLOGY BIOMARKERS & PREVENTION
(2022)
Article
Cardiac & Cardiovascular Systems
Harm Wienbergen, Daniel Boakye, Kathrin Guenther, Johannes Schmucker, Luis Alberto Mata Marin, Hatim Kerniss, Rajini Nagrani, Luise Struss, Tina Retzlaff, Andreas Fach, Rico Osteresch, Rainer Hambrecht, Wolfgang Ahrens
Summary: This study finds a strong association between smoking and metabolic risk factors with the occurrence of early-onset myocardial infarction (EOMI). Drinking alcohol more frequently is associated with a decreased risk of EOMI. Individuals with multiple risk factors, regardless of family history, have substantially higher odds of EOMI.
EUROPEAN JOURNAL OF PREVENTIVE CARDIOLOGY
(2022)
Article
Oncology
Roberta Pastorino, Michele Sassano, Francesco Danilo Tiziano, Luca Giraldi, Rosarita Amore, Dario Arzani, Emanuela Abiusi, Wolfgang Ahrens, Laia Alemany Vilches, Cristina Canova, Claire Mary Healy, Ivana Holcatova, Pagona Lagiou, Jerry Polesel, Maja Popovic, Stale Nygard, Gabriella Cadoni, Ariana Znaor, Paolo Boffetta, Keitaro Matsuo, Isao Oze, Paul Brennan, Stefania Boccia
Summary: The study identified miR-151-3p as an early marker of HNC, independent of smoking status. This discovery has the potential to facilitate early tumor detection and improve prognosis for patients with HNC.
CANCER EPIDEMIOLOGY BIOMARKERS & PREVENTION
(2022)
Article
Biochemistry & Molecular Biology
Jana Rosenau, Isabell Louise Grothaus, Yikun Yang, Nilima Dinesh Kumar, Lucio Colombi Ciacchi, Sorge Kelm, Mario Waespy
Summary: This study reveals how N-glycans affect the enzymatic activity and structural stability of recombinant TS enzyme TconTS1 in Trypanosoma congolense. The removal of N-glycans decreases substrate affinity but has no impact on the conversion rate. Interactions between N-glycans and amino acids in the catalytic site may lead to conformational changes, enhancing substrate accessibility and enzyme-substrate complex stability.
JOURNAL OF BIOLOGICAL CHEMISTRY
(2022)
Article
Environmental Sciences
Justine Tanoey, Christina Baechle, Hermann Brenner, Andreas Deckert, Julia Fricke, Kathrin Guenther, Andre Karch, Thomas Keil, Alexander Kluttig, Michael Leitzmann, Rafael Mikolajczyk, Nadia Obi, Tobias Pischon, Tamara Schikowski, Sabine M. Schipf, Matthias B. Schulze, Anja Sedlmeier, Ilais Moreno Velasquez, Katharina S. Weber, Henry Voelzke, Wolfgang Ahrens, Sylvia Gastell, Bernd Holleczek, Karl-Heinz Joeckel, Verena Katzke, Wolfgang Lieb, Karin B. Michels, Boerge Schmidt, Henning Teismann, Heiko Becher
Summary: This study examined the association between birth order, delivery mode, daycare attendance and the risk of type 1 diabetes (T1D) in a population-based cohort. The findings suggest that being a later-born child is associated with a reduced risk of T1D, regardless of parental diabetes, migration background, birth year, and perinatal factors.
INTERNATIONAL JOURNAL OF ENVIRONMENTAL RESEARCH AND PUBLIC HEALTH
(2022)
Article
Medicine, General & Internal
Stefan Rach, Lisa Kuehne, Hajo Zeeb, Wolfgang Ahrens, Ulrike Haug, Hermann Pohlabeln
Summary: This study found that even a mild case of COVID-19 can lead to post-COVID-19 condition, characterized by symptoms such as fatigue, breathing difficulties, and cognitive problems. Females and individuals with initial symptoms including fatigue, breathing difficulties, and cognitive problems are more likely to experience post-COVID-19 symptoms.
ANNALS OF MEDICINE
(2023)