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Methods and Protocols, Volume 8, Issue 4

August 2025 - 30 articles

Cover Story: Developing new methods to combat cancer cell adhesion-related therapy resistance is essential. Cancer cells typically express multiple redundant integrins; one hypothesis for the lack of efficacy of current antagonists is their high selectivity for a single integrin. Elsharif et al. report a functional dual-β3-expressing cell model to investigate the effects of combined αIIbβ3/αvβ3 antagonism using K562 chronic myeloid leukemia cells treated with PMA to upregulate functional αIIbβ3 and αvβ3 integrin protein levels. This optimized method provides a reliable platform for adhesion and detachment assays, establishing a reproducible approach for studying dual β3 integrin targeting. View this paper 
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Articles (30)

  • Article
  • Open Access
1,213 Views
15 Pages

Development of an Ex Vivo Platform to Model Urethral Healing

  • Christopher Foster,
  • Ryan Tran,
  • Khushi Grover,
  • Abdullah Salama and
  • Courtney K. Rowe

Background: Urethral strictures impact millions, causing significant morbidity and millions in healthcare costs. Testing new interventions is limited by the lack of inexpensive urethral healing models. We developed an ex vivo model of early urethral...

  • Review
  • Open Access
2,934 Views
29 Pages

Functional Methods for Studying Sperm–Zona Pellucida Interaction in Mammals

  • Natalie Zelenkova,
  • Veronika Kraus,
  • Alexandra Maresova,
  • Zuzana Pilsova,
  • Aneta Pilsova,
  • Barbora Klusackova,
  • Eva Chmelikova,
  • Katerina Komrskova and
  • Pavla Postlerova

The initial molecular events mediating mammalian sperm binding to the zona pellucida (ZP) of the oocyte are highly complex and still not fully elucidated. Recent advances have identified multiple candidate sperm surface proteins, often functioning as...

  • Article
  • Open Access
1,454 Views
17 Pages

Data on the genetic and environmental factors underlying the co-occurrence of Cognitive Disengagement Syndrome (CDS), Attention Deficit Hyperactivity Disorder (ADHD), and Emotional Dysregulation (ED) are limited. This study aimed to explore the natur...

  • Article
  • Open Access
3 Citations
4,617 Views
19 Pages

Optimizing Cell Density and Unveiling Cytotoxic Profiles of DMSO and Ethanol in Six Cancer Cell Lines: Experimental and In Silico Insights

  • Abutaleb Asiri,
  • Munazzah Tasleem,
  • Muwadah Al Said,
  • Abdulaziz Asiri,
  • Ali Ahmed Al Qarni and
  • Ahmed Bakillah

Background: Accurate assessment of drug cytotoxicity in vitro is essential for preclinical evaluation of anticancer agents. Methodological parameters such as cell density and solvent concentrations can significantly influence the reproducibility and...

  • Protocol
  • Open Access
1,278 Views
18 Pages

1H Nuclear Magnetic Resonance (NMR) Metabolomics in Rodent Plasma: A Reproducible Framework for Preclinical Biomarker Discovery

  • Mohd Naeem Mohd Nawi,
  • Ranina Radzi,
  • Azizan Ali,
  • Siti Zubaidah Che Lem,
  • Azlina Zulkapli,
  • Ezarul Faradianna Lokman,
  • Mansor Fazliana,
  • Sreelakshmi Sankara Narayanan,
  • Karuthan Chinna and
  • Mohd Fairulnizal Md Noh
  • + 2 authors

This protocol paper outlines a robust and reproducible framework for a 1H nuclear magnetic resonance (NMR) metabolomics analysis of rodent plasma, designed to facilitate preclinical biomarker discovery. The protocol details optimised steps for plasma...

  • Article
  • Open Access
807 Views
12 Pages

In vitro cartilage explant culture has been used to assess nutraceuticals on cartilage responses to inflammatory stimuli. However, applying extracts of nutraceuticals directly to cartilage explants does not account for effects of digestion and hepati...

  • Technical Note
  • Open Access
828 Views
7 Pages

An Optimized Protocol for SBEM-Based Ultrastructural Analysis of Cultured Human Cells

  • Natalia Diak,
  • Łukasz Chajec,
  • Agnieszka Fus-Kujawa and
  • Karolina Bajdak-Rusinek

Serial block-face scanning electron microscopy (SBEM) is a powerful technique for three-dimensional ultrastructural analysis of biological samples, though its application to in vitro cultured human cells remains underutilized. In this study, we prese...

  • Article
  • Open Access
2 Citations
1,556 Views
15 Pages

Expression of Recombinant Hirudin in Bacteria and Yeast: A Comparative Approach

  • Zhongjie Wang,
  • Dominique Böttcher,
  • Uwe T. Bornscheuer and
  • Christian Müller

The expression of recombinant proteins in heterologous hosts is a common strategy to obtain larger quantities of the “protein of interest” (POI) for scientific, therapeutic or commercial purposes. However, the experimental success of such...

  • Review
  • Open Access
1 Citations
9,010 Views
27 Pages

The Allium cepa Model: A Review of Its Application as a Cytogenetic Tool for Evaluating the Biosafety Potential of Plant Extracts

  • Daniela Nicuță,
  • Luminița Grosu,
  • Oana-Irina Patriciu,
  • Roxana-Elena Voicu and
  • Irina-Claudia Alexa

In establishing the safety or tolerability profile of bioactive plant extracts, it is important to perform toxicity studies using appropriate, accessible, and sustainable methods. The Allium cepa model is well known and frequently used for accurate e...

  • Protocol
  • Open Access
1,350 Views
9 Pages

Protocol for the Systematic Quantitative Ultrastructural Analysis of Mitochondria in Cardiac Tissue

  • Rebecca Schönmehl,
  • Lina Winter,
  • Daniel H. Mendelsohn,
  • Wing-Hoi Cheung,
  • Ronald Man Yeung Wong,
  • Steffen Pabel,
  • Samuel Sossalla and
  • Christoph Brochhausen

Mitochondria play a crucial role in adapting to fluctuating energy demands, particularly in various heart diseases. In addition to functional analyses such as the measurement of ROS or ATP, analysis of mitochondrial ultrastructure can be used to draw...

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Methods Protoc. - ISSN 2409-9279