# Unravelling approaches to study macrophages: from classical to novel biophysical methodologies

**Authors:** Polina Vishnyakova, Andrey Elchaninov, Timur Fatkhudinov, Dmitry Kolesov

PMC · DOI: 10.7717/peerj.19039 · 2025-02-20

## TL;DR

This review explores traditional and modern methods for studying macrophages, highlighting how new technologies improve our understanding of these immune cells.

## Contribution

The paper provides a comprehensive overview of both classical and novel biophysical methods for studying macrophages.

## Key findings

- Single-cell sequencing and mass spectrometry offer detailed insights into macrophage heterogeneity.
- Droplet microfluidics and atomic force spectroscopy enable high-resolution analysis of macrophage behavior.
- The review serves as a valuable resource for researchers in biological and physical sciences.

## Abstract

Macrophages play crucial roles in immune responses and tissue homeostasis. Despite the fact that macrophages were described more than a century ago, they continue to be the cells of intensive interest. Advanced understanding of phenotypic diversity in macrophages holds great promise for development of cell-based therapeutic strategies. The introduction of innovative approaches in cell biology greatly enhances our ability to investigate the unique characteristics of macrophages. The review considers both classical methods to study macrophages and high-tech approaches, including single-cell sequencing, single-cell mass spectrometry, droplet microfluidics, scanning probe microscopy and atomic force spectroscopy. This review will be valuable both to specialists beginning their study of macrophages and to experienced scientists seeking to deepen their understanding of methods at the intersection of biological and physical sciences.

## Full-text entities

- **Genes:** Cd68 (CD68 antigen) [NCBI Gene 12514] {aka Lamp4, Scard1, gp110}, Clec4f (C-type lectin domain family 4, member f) [NCBI Gene 51811] {aka Clecsf13, KUCR_MOUSE, Kclr}, CD14 (CD14 molecule) [NCBI Gene 929], STAB1 (stabilin 1) [NCBI Gene 23166] {aka CLEVER-1, FEEL-1, FEEL1, FELE-1, FEX1, HRFT}, CD19 (CD19 molecule) [NCBI Gene 930] {aka B4, CVID3}, Ly6g (lymphocyte antigen 6 family member G) [NCBI Gene 546644] {aka Gr-1, Gr1, Ly-6G}, Fn1 (fibronectin 1) [NCBI Gene 14268] {aka E330027I09, Fn, Fn-1}, FN1 (fibronectin 1) [NCBI Gene 2335] {aka CIG, ED-B, FINC, FN, FNZ, GFND}, Angpt2 (angiopoietin 2) [NCBI Gene 11601] {aka Agpt2, Ang-2, Ang2}, Il10 (interleukin 10) [NCBI Gene 16153] {aka CSIF, If2a, Il-10}, CD163 (CD163 molecule) [NCBI Gene 9332] {aka M130, MM130, SCARI1}, Mmp7 (matrix metallopeptidase 7) [NCBI Gene 17393] {aka MAT, MMP-7}, Spic (Spi-C transcription factor (Spi-1/PU.1 related)) [NCBI Gene 20728] {aka Prf, Spi-C}, Snx17 (sorting nexin 17) [NCBI Gene 266781] {aka 5830447M19Rik, D5Ertd260e, b2b1625.1Clo, mKIAA0064}, Adgre1 (adhesion G protein-coupled receptor E1) [NCBI Gene 13733] {aka DD7A5-7, EGF-TM7, Emr1, F4/80, Gpf480, Ly71}, CXCL11 (C-X-C motif chemokine ligand 11) [NCBI Gene 6373] {aka H174, I-TAC, IP-9, IP9, SCYB11, SCYB9B}, Cd86 (CD86 antigen) [NCBI Gene 12524] {aka B7, B7-2, B7.2, B70, CLS1, Cd28l2}, Il6 (interleukin 6) [NCBI Gene 16193] {aka Il-6}, TNF (tumor necrosis factor) [NCBI Gene 7124] {aka DIF, IMD127, TNF-alpha, TNFA, TNFSF2, TNLG1F}, Ptprc (protein tyrosine phosphatase receptor type C) [NCBI Gene 19264] {aka B220, CD45R, Cd45, L-CA, Ly-5, Lyt-4}, CSF1 (colony stimulating factor 1) [NCBI Gene 1435] {aka CSF-1, MCSF, PG-M-CSF}, MRC1 (mannose receptor C-type 1) [NCBI Gene 4360] {aka CD206, CLEC13D, CLEC13DL, MMR, MRC1L1, bA541I19.1}, Cd163 (CD163 antigen) [NCBI Gene 93671] {aka CD163v2, CD163v3}, Il1b (interleukin 1 beta) [NCBI Gene 16176] {aka IL-1beta, Il-1b}, CD80 (CD80 molecule) [NCBI Gene 941] {aka B7, B7-1, B7.1, BB1, CD28LG, CD28LG1}, Cxcl10 (C-X-C motif chemokine ligand 10) [NCBI Gene 15945] {aka C7, CRG-2, INP10, IP-10, IP10, Ifi10}, Spi1 (Spi-1 proto-oncogene) [NCBI Gene 20375] {aka Dis-1, Dis1, PU.1, Sfpi-1, Sfpi1, Spi-1}, Il12a (interleukin 12a) [NCBI Gene 16159] {aka IL-12p35, Il-12a, Ll12a, p35}, CXCL9 (C-X-C motif chemokine ligand 9) [NCBI Gene 4283] {aka CMK, Humig, MIG, SCYB9, crg-10}, Mrc1 (mannose receptor, C type 1) [NCBI Gene 17533] {aka CD206, MR}, Itgam (integrin alpha M) [NCBI Gene 16409] {aka CD11b/CD18, CR3, CR3A, Cd11b, F730045J24Rik, Ly-40}, CCL3 (C-C motif chemokine ligand 3) [NCBI Gene 6348] {aka G0S19-1, LD78, LD78ALPHA, MIP-1-alpha, MIP1A, SCI}
- **Diseases:** atherosclerosis (MESH:D050197), COVID-19 (MESH:D000086382), leukemia (MESH:D007938), reticular sarcoma (MESH:C538361), pancreatic ductal adenocarcinoma (MESH:D021441), breast cancer (MESH:D001943), cancer (MESH:D009369), diastolic dysfunction (MESH:D018487), infections (MESH:D007239), autoimmune diseases (MESH:D001327), gut inflammation (MESH:D007249), histiocytic lymphoma (MESH:D016403), fibrosis (MESH:D005355), colorectal cancer (MESH:D015179), bacterial infection (MESH:D001424), histiocytic sarcoma (MESH:D054747), toxicity (MESH:D064420), glioma (MESH:D005910), acute kidney injury (MESH:D058186), acute monocytic leukemia (MESH:D007948)
- **Chemicals:** nitric oxide (MESH:D009569), FAD (MESH:D005182), cytochalasin D (MESH:D015638), L-proline (MESH:D011392), fluorocarbon (MESH:D005466), NO (MESH:D009614), ROS (MESH:D017382), nitrogen (MESH:D009584), dexamethasone (MESH:D003907), 1,25-dihydroxyvitamin D3 (MESH:D002117), ATP (MESH:D000255), mineral oil (MESH:D008899), lipid (MESH:D008055), Alexa-488 succinimidyl ester (-), 12-O-tetradecanoylphorbol-13-acetate (MESH:D013755), dextran (MESH:D003911), amine (MESH:D000588), magnetite (MESH:D052203), GSH (MESH:D005978), arginine (MESH:D001120), retinoic acids (MESH:D014212), thimerosal (MESH:D013849), quercetin (MESH:D011794), cyclic GMP (MESH:D006152), Hg (MESH:D008628), LPS (MESH:D008070), ornithine (MESH:D009952), fatty acid (MESH:D005227)
- **Species:** Mus musculus (house mouse, species) [taxon 10090], Magnetospirillum gryphiswaldense (species) [taxon 55518], Escherichia coli DH5[alpha] (strain) [taxon 668369], Bacteria Latreille et al. 1825 (Bacteria stick insect, genus) [taxon 629395], Mycobacterium tuberculosis H37Rv (strain) [taxon 83332], Homo sapiens (human, species) [taxon 9606], Saccharomyces cerevisiae (baker's yeast, species) [taxon 4932], Danio rerio (leopard danio, species) [taxon 7955], Mycolicibacterium smegmatis MC2 155 (strain) [taxon 246196], Candida albicans (species) [taxon 5476]
- **Cell lines:** RAW264.7 — Mus musculus (Mouse), Mouse leukemia, Cancer cell line (CVCL_0493), THP-1 — Homo sapiens (Human), Childhood acute monocytic leukemia, Cancer cell line (CVCL_0006), MCF-7 — Homo sapiens (Human), Invasive breast carcinoma of no special type, Cancer cell line (CVCL_0031), J774 — Mus musculus (Mouse), Mouse reticulum cell sarcoma, Cancer cell line (CVCL_4692), J774.1 — Mus musculus (Mouse), Mouse reticulum cell sarcoma, Cancer cell line (CVCL_0358), U-937 — Homo sapiens (Human), Adult acute monocytic leukemia, Cancer cell line (CVCL_0007)

## Figures

6 figures with captions in the complete paper: https://tomesphere.com/paper/PMC11847493/full.md

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Source: https://tomesphere.com/paper/PMC11847493