Article
Chemistry, Analytical
Sisi Zhang, Bo Zhao, Stephanie Adaniya, Hui Xiao, Ning Li
Summary: This study demonstrates a novel strategy to reliably quantify trace amounts of host cell proteins (HCPs) in biotherapeutic drugs, achieving detection limits as low as 0.06 ppm and good accuracy and precision. The results show that certain HCPs can affect the stability of drug products, while others can be safely present. Accurate quantification of lipases/esterases in drug products, combined with lipase activity analysis, provides a better understanding of enzymatic degradation from endogenous proteins.
ANALYTICAL CHEMISTRY
(2023)
Article
Multidisciplinary Sciences
Hakan Wieslander, Ankit Gupta, Ebba Bergman, Erik Hallstrom, Philip John Harrison
Summary: Fluorescence microscopy is an invaluable method in image cytometry for visualizing cellular components, but it has downsides such as being time-consuming, expensive, labour intensive, and toxic to cells. To address this, deep learning models were explored to learn the mapping between bright-field and fluorescence images for adipocyte cell images, with tailored solutions for each imaging channel to extract cell-level features with high fidelity. Utilizing privileged information for the nuclear channel and using image gradient information and adversarial training for the lipids channel resulted in better morphological and count features as well as more faithfully captured defects in the lipids, which are key features required for downstream analysis of these channels.
Article
Biochemistry & Molecular Biology
Magdalena Surman, Sylwia Kedracka-Krok, Urszula Jankowska, Anna Drozdz, Ewa Stepien, Malgorzata Przybylo
Summary: The study focused on identifying biologically relevant proteins in UBC-derived ectosomes, showing that T-24 ectosomes contained more unique proteins and promoted proliferation and motility of recipient cells by transferring cancer-promoting molecules. The findings confirm the role of UBC-derived ectosomes in cancer development and progression, suggesting their potential as diagnostic and prognostic biomarkers in bladder cancer management.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Neurosciences
Robert Soler, Erica Voss
Summary: Innovations in LED lighting technology have significantly improved adoption rates and evaluation metrics. However, traditional electric lighting environments fail to address the biological impact of light, leading to circadian dysfunction. The lighting industry's solution to create bluer days and yellower nights caters mainly to cones, overlooking the impact on biological responses to light.
FRONTIERS IN NEUROSCIENCE
(2021)
Article
Biochemical Research Methods
Nikolai Slavov
Summary: Current single-cell mass spectrometry methods can quantify thousands of peptides per single cell and potentially support quantification of even more peptides through innovation in data acquisition and interpretation. Improvements in instrumentation, sample preparation, and peptide separation are expected to further enhance the capabilities of MS-based single-cell protein analysis.
JOURNAL OF PROTEOME RESEARCH
(2021)
Article
Chemistry, Multidisciplinary
Chong Wang, Zhuohao Zhang, Qiao Wang, Jiali Wang, Luoran Shang
Summary: Aqueous two-phase systems (ATPSs) are formed by the phase separation of immiscible aqueous solutions with above-critical concentrations. ATPS emulsions have shown great potential in various biomedical applications due to their remarkable permeability, affinity partitioning, and biocompatibility. This review provides comprehensive insights into ATPS emulsion droplets, including their unique properties, fabrication methods, and their applications in protocells and microparticles. It is believed that this review will highlight the distinctive characteristics of ATPS droplets for broader application.
TRENDS IN CHEMISTRY
(2023)
Article
Chemistry, Multidisciplinary
Yongzheng Cong, Khatereh Motamedchaboki, Santosh A. Misal, Yiran Liang, Amanda J. Guise, Thy Truong, Romain Huguet, Edward D. Plowey, Ying Zhu, Daniel Lopez-Ferrer, Ryan T. Kelly
Summary: The combination of nanodroplet sample preparation, ultra-low-flow nanoLC, high-field asymmetric ion mobility spectrometry (FAIMS), and the latest-generation Orbitrap Eclipse Tribrid mass spectrometer led to greatly improved single-cell proteome profiling. FAIMS effectively filtered out singly charged ions, allowing for more effective MS analysis of multiply charged peptides, resulting in a significantly higher number of protein groups identified from single HeLa cells compared to traditional methods. Differential analysis also showed similar proteome coverage for single microdissected motor neurons and interneurons from human spinal tissue, with the ability to differentiate between the two subpopulations based on label-free quantification.
Review
Biochemical Research Methods
Martin Schirmer, Christian Dusny
Summary: Single-cell analysis reveals the phenotypic differences and individual physiological states of cells in a population, from genome to phenome. Spectrometric observation allows label-free analysis of individual cell metabolome and proteome, mainly limited to mammalian single cells. Recent progress in mass spectrometry approaches enables the analysis of microbial single cells by miniaturizing cell handling, incubation, and improving chip-coupling concepts.
CURRENT OPINION IN BIOTECHNOLOGY
(2023)
Article
Chemistry, Medicinal
Jose-Manuel Gally, Axel Pahl, Paul Czodrowski, Herbert Waldmann
Summary: This study introduces a new methodology for classifying fragment combinations and characterizing pseudonatural products using Python package. By analyzing the pairwise relative position of fragments within molecules, 18 different possible fragment combination categories were identified. Comparison with natural product references revealed that approximately 23% of biologically relevant compounds in the database comply with the PNP definition.
JOURNAL OF CHEMICAL INFORMATION AND MODELING
(2021)
Article
Biochemical Research Methods
Tommy K. Cheung, Chien-Yun Lee, Florian P. Bayer, Atticus McCoy, Bernhard Kuster, Christopher M. Rose
Summary: Single-cell proteomics by mass spectrometry (SCoPE-MS) is a novel method to quantify multiplexed single-cell proteomes, but it faces technical limitations related to isobaric labeling and mass spectrometry. Increasing carrier proteome levels requires a corresponding increase in the number of ions sampled to maintain quantitative accuracy. The introduction of SCPCompanion software assists in rapid evaluation of single-cell proteomic data and recommends parameters for improved data quality.
Review
Engineering, Environmental
Ajeet Kumar, Satish Kumar
Summary: This review focuses on the design strategies, substituent effects, and sensing mechanisms of anions reported recently in the literature using sensors based on photochromic molecules. It is hoped that this review can accelerate the development of improved anion sensors for monitoring their concentration in biological and environmental applications.
CHEMICAL ENGINEERING JOURNAL
(2023)
Article
Biochemical Research Methods
Elisabeth Coudert, Sebastien Gehant, Edouard de Castro, Monica Pozzato, Delphine Baratin, Teresa Neto, Christian J. A. Sigrist, Nicole Redaschi, Alan Bridge
Summary: This study aims to provide high-quality annotations of binding sites for biologically relevant ligands in UniProtKB using the ChEBI chemical ontology. The researchers developed improved search and query facilities for these binding sites and used stable unique identifiers from ChEBI as reference vocabulary for the annotations. The annotations are freely available for querying and downloading through the UniProt website, REST API, SPARQL endpoint, and FTP site.
Article
Biochemical Research Methods
Hannah Boekweg, Daisha Van Der Watt, Thy Truong, S. Madisyn Johnston, Amanda J. Guise, Edward D. Plowey, Ryan T. Kelly, Samuel H. Payne
Summary: The field of single-cell proteomics aims to identify and quantify proteins at the individual cell level, but the differences in spectral features between single-cell and bulk samples require adjustments in algorithms to compensate for these losses.
JOURNAL OF PROTEOME RESEARCH
(2022)
Article
Chemistry, Physical
Miguel A. Ramos-Docampo, Pablo Hurtado, Ana B. Davila-Ibanez, Roberto Pineiro, Monica L. Fanarraga, Veronica Salgueirino
Summary: This study explores the magnetic actuation of magnetically propelled chained nanocomposites and demonstrates precise control of their performance in different media. The findings provide new possibilities for drug delivery, magnetic separation, and microfluidic technologies.
JOURNAL OF COLLOID AND INTERFACE SCIENCE
(2023)
Article
Chemistry, Physical
Yong Guan, Tadas A. Buivydas, Remy F. Lalisse, Jonathan W. Attard, Rameez Ali, Charlotte Stern, Christopher M. Hadad, Anita E. Mattson
Summary: A robust and catalytic enantioselective method has been developed to construct challenging tertiary ether stereocenters, achieving up to 99% enantiomeric excesses with a broad substrate scope. The origin of enantiocontrol was attributed to additional noncovalent interactions observed in the transition state, such as π-stacking. The resulting substrates have direct applications in the synthesis of naturally occurring bioactive compounds.
