Review
Oncology
Yuhua Hu, Feng Shen, Xi Yang, Tingting Han, Zhuowen Long, Jiale Wen, Junxing Huang, Jiangfeng Shen, Qing Guo
Summary: This paper provides a comprehensive review of the emerging analytical and experimental approaches of single-cell sequencing in various omics, focusing specifically on epigenomics. These approaches have the potential to capture and integrate multiple dimensions of individual cancer cells, thereby revealing tumor heterogeneity and epigenetic features. Additionally, this paper outlines the future trends of these technologies and their current technical limitations.
CLINICAL EPIGENETICS
(2023)
Review
Oncology
Philip Dujardin, Anna K. Baginska, Sebastian Urban, Barbara M. Gruener
Summary: Pancreatic cancer is characterized by high heterogeneity, which can hinder personalized treatment approaches. DNA barcoding technologies have emerged as a powerful tool to study tumor heterogeneity and develop new treatment strategies.
Article
Engineering, Biomedical
Miao-Ping Chien, Daan Brinks
Summary: FUNseq is a method that connects single-cell genomic, transcriptomic or proteomic profiles to time-varying phenotypic changes, providing a unique way to unravel mechanisms that drive cancer.
NATURE BIOMEDICAL ENGINEERING
(2022)
Review
Biochemistry & Molecular Biology
Deshen Pan, Deshui Jia
Summary: Tumor heterogeneity, a hallmark of cancer, can impair therapy efficacy and drive tumor progression. Recent advancements in single-cell technologies have provided unprecedented resolution in uncovering intra-tumoral heterogeneity, accelerating cancer research progress. Understanding molecular mechanisms driving cancer cell plasticity is crucial for developing precision therapies.
FRONTIERS IN MOLECULAR BIOSCIENCES
(2021)
Review
Genetics & Heredity
Siyuan Chen, Weibo Jiang, Yanhui Du, Manshi Yang, Yihan Pan, Huan Li, Mengying Cui
Summary: Single-cell sequencing technology is revolutionizing our understanding of cellular components, functions, and interactions by avoiding heterogeneity-related noise. It can characterize multiple cell types and uncover the mechanisms of gene regulatory networks, transcription dynamics, and proteomic profiling.
FRONTIERS IN GENETICS
(2023)
Article
Multidisciplinary Sciences
Bingjie Chen, Xianrui Wu, Yongsen Ruan, Yulin Zhang, Qichun Cai, Luis Zapata, Chung- Wu, Ping Lan, Haijun Wen
Summary: Within-tumor genetic diversity in tumors is limited by the kinship among cells, but multiple independent cell clones can exist in a single tumor, contributing to increased diversity. Understanding this phenomenon is important for studying drug resistance.
NATIONAL SCIENCE REVIEW
(2022)
Review
Biochemistry & Molecular Biology
Jiasheng Xu, Kaili Liao, Xi Yang, Chengfeng Wu, Wei Wu, Shuwen Han
Summary: Circulating tumor cells have high metastatic potential and single-cell sequencing provides a new perspective for understanding the biological process of tumors, avoiding interference from tumor heterogeneity.
Article
Chemistry, Multidisciplinary
Qi Pan, Daxiao Sun, Jianfeng Xue, Jie Hao, Hansen Zhao, Xijian Lin, Li Yu, Yan He
Summary: The study introduced a dark-field microscopy based single plasmonic nanoparticle tracking technique to monitor and characterize the spatial-temporal heterogeneity of protein LLPS condensates.
Article
Oncology
Jiahuai Wen, Liping Ren, Wenxia Li, Junhong Li, Lezhen Huang, Zhongyu Yuan, Qianjun Chen
Summary: This study aimed to explore the influence of different malignant lesions on subsequent treatment and to classify advanced breast cancer (ABC) patients for precise prognosis prediction. The results showed that ABC patients can be classified into homogeneous progression-disease (Hom-PD) group and heterogeneous progression-disease (Heter-PD) group based on the disease progression mode after first-line treatment. The classification model provides important information for predicting prognosis and making rational treatment decisions for ABC patients.
ANNALS OF TRANSLATIONAL MEDICINE
(2022)
Article
Chemistry, Multidisciplinary
Yaqi Feng, Mi Li
Summary: Mechanical cues have a significant impact on physiological and pathological processes, and atomic force microscopy (AFM) has emerged as an essential tool for measuring the mechanical properties of individual cells. This study presents the integration of AFM and micropipette micromanipulation, enabling precise three-dimensional manipulations and nanomechanical measurements of living cells. The study demonstrates the potential of micropipette-assisted AFM for understanding the mechanical cues involved in cellular processes and advancing the field of mechanobiology.
Article
Multidisciplinary Sciences
Tobias F. Bartsch, Camila M. Villasante, Felicitas E. Hengel, Ahmed Toure, Daniel M. Firester, Aaron Oswald, A. J. Hudspeth
Summary: In high-speed single-molecule experiments, tethering proteins with force probes can avoid nonspecific interactions, but dissipate rapidly exerted forces through long linkers; due to the high frequency of mammalian hearing, short tethers are required for single-molecule experiments.
SCIENTIFIC REPORTS
(2021)
Article
Genetics & Heredity
Yong Xu, Yao Wang, Leilei Liang, Nan Song
Summary: In this study, the cell type heterogeneity of lung adenocarcinoma (LUAD) was investigated using single-cell RNA sequencing. A prognostic risk model consisting of 10 risk biomarker genes was established, which showed strong stability and could serve as a new therapeutic target for LUAD.
FRONTIERS IN GENETICS
(2022)
Article
Chemistry, Multidisciplinary
Yan Zhao, Zhi-Xuan Li, Yan-Jing Zhu, Jing Fu, Xiao-Fang Zhao, Ya-Ni Zhang, Shan Wang, Jian-Min Wu, Kai-Ting Wang, Rui Wu, Cheng-Jun Sui, Si-Yun Shen, Xuan Wu, Hong-Yang Wang, Dong Gao, Lei Chen
Summary: This study investigates the molecular heterogeneity and evolution of hepatobiliary tumors using single-cell RNA sequencing, revealing that certain tumor subpopulations exhibit broad-spectrum drug resistance. The CD44-positive population may play a key role in drug resistance. Shared metabolism advantage clusters across organoids and the combination of GAPDH and NDRG1 are proposed as independent predictors for patient survival.
Review
Oncology
Yingying Han, Dan Wang, Lushan Peng, Tao Huang, Xiaoyun He, Junpu Wang, Chunlin Ou
Summary: Single-cell sequencing is an emerging technology that allows for the study of genomics, transcriptomics, and epigenetics at a single cell level. It has widespread applications in the diagnosis, treatment, and research of tumor metastasis.
JOURNAL OF HEMATOLOGY & ONCOLOGY
(2022)
Review
Immunology
Rongbo Wen, Leqi Zhou, Zhiying Peng, Hao Fan, Tianshuai Zhang, Hang Jia, Xianhua Gao, Liqiang Hao, Zheng Lou, Fuao Cao, Guanyu Yu, Wei Zhang
Summary: Colorectal Cancer (CRC) is a common gastrointestinal tumor with high heterogeneity. Traditional sequencing methods cannot capture the heterogeneity of individual cancer cells. Single-cell sequencing technology can analyze the genetic and protein differences between cells, providing a more comprehensive understanding of colorectal cancer development and metastasis. This study reviews the application of single-cell sequencing in analyzing the tumor microenvironment of CRC and exploring the mechanisms involved in metastasis and progression, providing a reference for potential treatment options.
FRONTIERS IN IMMUNOLOGY
(2023)
Article
Biotechnology & Applied Microbiology
Tobias Lange, Ursula Valentiner, Daniel Wicklein, Hanna Maar, Vera Labitzky, Ann-Kristin Ahlers, Sarah Starzonek, Sandra Genduso, Lisa Staffeldt, Carolin Pahlow, Anna-Maria Dueck, Christine Stuerken, Anke Baranowsky, Alexander T. Bauer, Etmar Bulk, Albrecht Schwab, Kristoffer Riecken, Christian Boernchen, Rainer Kiefmann, Valsamma Abraham, Horace M. DeLisser, Timo Gemoll, Jens K. Habermann, Andreas Block, Klaus Pantel, Udo Schumacher
Summary: The proteasome inhibitor bortezomib has been found to impair endothelial adhesion and spontaneous lung metastasis by inhibiting the induction of E-selectin, which is critical for the extravasation of circulating tumor cells. However, the efficacy of bortezomib depends on the specific E-selectin ligands on tumor cells, as low-affinity ligands result in significantly diminished adhesion and lung metastasis. These findings suggest that bortezomib could be used as a drug to inhibit extravasation and distant metastasis in malignancies expressing low-affinity E-selectin ligands.
Article
Immunology
Kerri Hagemann, Kristoffer Riecken, Johannes M. Jung, Heike Hildebrandt, Stephan Menzel, Madeleine J. Bunders, Boris Fehse, Friedrich Koch-Nolte, Fabian Heinrich, Sven Peine, Julian Schulze zur Wiesch, Thomas T. Brehm, Marylyn M. Addo, Marc Luetgehetmann, Marcus Altfeld
Summary: In the context of COVID-19, the role of NK cells in the immune response has not been well understood. This study demonstrates that antibodies induced by SARS-CoV-2 infection and anti-SARS-CoV-2 vaccines can activate NK cells, leading to significant immune responses. These findings contribute to a better understanding of the role of NK cells in COVID-19.
EUROPEAN JOURNAL OF IMMUNOLOGY
(2022)
Article
Oncology
Maria-Luisa Schubert, Carolina Berger, Alexander Kunz, Anita Schmitt, Anita Badbaran, Brigitte Neuber, Silke Zeschke, Lei Wang, Kristoffer Riecken, Angela Hueckelhoven-Krauss, Ingo Mueller, Carsten Mueller-Tidow, Peter Dreger, Nicolaus Kroeger, Francis A. Ayuk, Michael Schmitt, Boris Fehse
Summary: The study compared a qPCR assay established at Heidelberg University Hospital in Germany and a digital droplet PCR assay established at University Medical Center Hamburg-Eppendorf in Germany, showing that both independently developed methods enable accurate assessment of CAR T cell frequencies and are useful in the clinical setting.
INTERNATIONAL JOURNAL OF ONCOLOGY
(2022)
Article
Oncology
Mohamed Moustafa, Katarzyna-Krystyna Daehling, Armin Guenther, Leonie Riebandt, Daniel J. Smit, Kristoffer Riecken, Carina Schroeder, Ruimeng Zhuang, Till Krech, Malte Kriegs, Boris Fehse, Jakob R. Izbicki, Lutz Fischer, Bjorn Nashan, Jun Li, Manfred Juecker
Summary: This study verifies the impact of targeting CD90 and EpCAM markers in HCC cells with a combination therapy of AKT and mTOR inhibitors. The results demonstrate that combined targeting of AKT and mTOR effectively reduces the proliferation of CD90 and EpCAM positive HCC cells in vitro, but resistance to the treatment occurs in vivo.
Article
Biochemistry & Molecular Biology
Lena-Marie Martin, Anne Kruchen, Boris Fehse, Ingo Mueller
Summary: Persistence of fetal cells in the mother's circulation has a beneficial effect on children with leukemia undergoing haploidentical hematopoietic stem cell transplantation. Maternal genetic factors and NK cells play important roles, but cytotoxicity is not solely determined by these factors.
Article
Medicine, Research & Experimental
Maria Kuzikov, Jannis Woens, Andrea Zaliani, Julia Hambach, Thomas Eden, Boris Fehse, Bernhard Ellinger, Kristoffer Riecken
Summary: The study reveals that different SARS-CoV-2 variants of concern (VOCs) have distinct preferences for cell entry, and antagonists of G-protein coupled receptors, such as Chlorpromazine, may exhibit higher activity in inhibiting specific VOCs.
BIOMEDICINE & PHARMACOTHERAPY
(2022)
Article
Hematology
Susanna Carolina Berger, Boris Fehse, Nuray Akyuz, Maria Geffken, Christine Wolschke, Dietlinde Janson, Nico Gagelmann, Marlene Luther, Dominic Wichmann, Christian Frenzel, Guenther Thayssen, Anna Alegiani, Anita Badbaran, Silke Zeschke, Judith Dierlamm, Nicolaus Kroger, Francis A. Ayuk
Summary: CD19-CAR T cell therapy can effectively treat B-cell malignancies, but may cause severe ICANS. The mechanisms of ICANS are not fully understood, and resistance to current therapies has been observed. In this study, we used digital PCR assays to monitor CD19-CAR T cell kinetics in CSF and blood of ICANS patients. We observed CAR T cell enrichment in CSF, even with intense corticosteroid-containing therapies. Longitudinal analysis showed a profound skewing of the T cell repertoire, with expansion of both CAR and non-CAR T cell clones. These findings suggest a role of therapy-refractory T cell clones in severe ICANS and prompt further research on CAR T cells.
Correction
Biochemistry & Molecular Biology
Lea Isabell Schwarze, Dawid Glow, Tanja Sonntag, Almut Uhde, Boris Fehse
Article
Immunology
Anastasios D. Giannou, Jan Kempski, Ahmad Mustafa Shiri, Joran Luecke, Tao Zhang, Lilan Zhao, Dimitra E. Zazara, Filippo Cortesi, Kristoffer Riecken, Maria Carolina Amezcua Vesely, Jun Siong Low, Hao Xu, Eleanna Kaffe, Laura Garcia-Perez, Theodora Agalioti, Yoshito Yamada, Wolfgang Jungraithmayr, Ehud Zigmond, Karl-Frederick Karstens, Babett Steglich, Jonas Wagner, Leonie Konczalla, Antonella Carambia, Kornelius Schulze, Johann von Felden, Peter May, Daria Briukhovetska, Tanja Bedke, Leonie Brockmann, Sarah Starzonek, Tobias Lange, Claudia Koch, Sabine Riethdorf, Penelope Pelczar, Marius Boettcher, Morsal Sabihi, Francis J. Huber, Matthias Reeh, Julia Kristin Grass, Ramez Wahib, Hannes Seese, Bjorn-Ole Stueben, Mohammad Fard-Aghaie, Anna Dupree, Pasquale Scognamiglio, Gabriel Plitzko, Jan Meiners, Shiwa Soukou, Agnes Wittek, Caroline Manthey, Ioannis C. Maroulis, Petra C. Arck, Daniel Perez, Bin Gao, Sotirios G. Zarogiannis, Till Strowig, Renata Pasqualini, Wadih Arap, Javier Suarez Gosalvez, Sebastian Kobold, Immo Prinz, Andreas H. Guse, Michael Tachezy, Tarik Ghadban, Asmus Heumann, Jun Li, Nathaniel Melling, Oliver Mann, Jakob R. Izbicki, Klaus Pantel, Udo Schumacher, Ansgar W. Lohse, Richard A. Flavell, Nicola Gagliani, Samuel Huber
Summary: During metastasis, cancer cells go through a series of steps including invasion, intravasation, circulation, extravasation, and colonization of target organs. This study investigated the role of interleukin (IL)-22 in metastasis and found that IL-22 promotes metastasis through its action on endothelial cells and induction of endothelial aminopeptidase N. IL-22-producing iNKT cells were identified as a source of IL-22 and were shown to be tissue resident. Thus, IL-22 may be a potential therapeutic target for preventing metastasis.
Article
Biophysics
Marlene Luther, Frank Oliver Henes, Tatjana Zabelina, Radwan Massoud, Dietlinde Janson, Christine Wolschke, Evgeny Klyuchnikov, Nico Gagelmann, Boris Fehse, Gerhard Adam, Nicolaus Kroeger, Francis Ayuk
Summary: Splenomegaly is a characteristic of myelofibrosis, and the impact of spleen size on allo-HSCT outcome has been inconsistent due to different assessment methods. A retrospective analysis was conducted on 93 patients, revealing a strong correlation between spleen volume and length. Larger spleen size was associated with slower engraftment and higher risk of disease relapse. In the era of JAK inhibitors, larger spleen size reflects advanced disease and increased risk of relapse, but has no impact on non-relapse mortality and overall survival after allo-HSCT.
BONE MARROW TRANSPLANTATION
(2023)
Article
Oncology
Sandra Genduso, Vera Freytag, Daniela Schetler, Lennart Kirchner, Alina Schiecke, Hanna Maar, Daniel Wicklein, Florian Gebauer, Katharina Broeker, Christine Stuerken, Karin Milde-Langosch, Leticia Oliveira-Ferrer, Franz L. Ricklefs, Florian Ewald, Gerrit Wolters-Eisfeld, Kristoffer Riecken, Ludmilla Unrau, Linda Krause, Hanibal Bohnenberger, Anne Offermann, Sven Perner, Susanne Sebens, Katrin Lamszus, Linda Diehl, Stefan Linder, Manfred Juecker, Udo Schumacher, Tobias Lange
Summary: This study analyzed the cooperative effects of ITGB4 and E-/P-selectin in the tumor microenvironment. The results showed that the interaction between ITGB4 and E-/P-selectin promotes tumor growth and attracts MDSCs into the tumor tissue. These findings have important clinical implications for tumor therapy.
JOURNAL OF HEMATOLOGY & ONCOLOGY
(2023)
Article
Multidisciplinary Sciences
Joseph Tintelnot, Yang Xu, Till R. Lesker, Martin Schoenlein, Leonie Konczalla, Anastasios D. Giannou, Penelope Pelczar, Dominik Kylies, Victor G. G. Puelles, Agata A. A. Bielecka, Manuela Peschka, Filippo Cortesi, Kristoffer Riecken, Maximilian Jung, Lena Amend, Tobias S. S. Broering, Marija Trajkovic-Arsic, Jens T. T. Siveke, Thomas Renne, Danmei Zhang, Stefan Boeck, Till Strowig, Faik G. G. Uzunoglu, Cenap Gungoer, Alexander Stein, Jakob R. R. Izbicki, Carsten Bokemeyer, Marianne Sinn, Alec C. C. Kimmelman, Samuel Huber, Nicola Gagliani
Summary: Pancreatic ductal adenocarcinoma (PDAC) is a deadly cancer with limited response to chemotherapy. Researchers have found that the microbiota-derived metabolite, indole-3-acetic acid (3-IAA), is enriched in patients who respond to treatment. Using a combination of 3-IAA and chemotherapy can improve the efficacy of treatment, providing motivation for considering nutritional interventions in cancer patients.
Article
Virology
Daniela Iaconis, Francesca Caccuri, Candida Manelfi, Carmine Talarico, Antonella Bugatti, Federica Filippini, Alberto Zani, Rubina Novelli, Maria Kuzikov, Bernhard Ellinger, Philip Gribbon, Kristoffer Riecken, Francesca Esposito, Angela Corona, Enzo Tramontano, Andrea Rosario Beccari, Arnaldo Caruso, Marcello Allegretti
Summary: During the COVID-19 pandemic, drug repurposing was an effective strategy in quickly addressing medical emergencies. The anti-viral activity of DHFR inhibitors, including methotrexate, against SARS-CoV-2 was evaluated using cell lines. Results showed that these inhibitors not only had intrinsic anti-metabolic activity but also specific anti-viral functions, making them potential candidates for managing SARS-CoV-2 infection.
Article
Cell Biology
Liam Barry-Carroll, Philip Greulich, Abigail R. Marshall, Kristoffer Riecken, Boris Fehse, Katharine E. Askew, Kaizhen Li, Olga Garaschuk, David A. Menassa, Diego Gomez-Nicola
Summary: Microglia are derived from the yolk sac and migrate into the brain during early embryonic development. They undergo in situ proliferation and ultimately colonize the entire brain by the third postnatal week in mice. This study reveals that their colonization is facilitated by clonal expansion of highly proliferative microglial progenitors distributed throughout the brain. Additionally, the spatial distribution of microglia changes from clustered to random during development.
Article
Biochemistry & Molecular Biology
Max Wichmann, Cecile L. Maire, Niklas Nuppenau, Moataz Habiballa, Almut Uhde, Katharina Kolbe, Tanja Schroeder, Katrin Lamszus, Boris Fehse, Dawid Glow
Summary: The CRISPR/Cas system has potential medical applications, but its clinical translation is hindered by the lack of safe and efficient vector systems. Virus-like particles (VLPs) have been introduced as promising vectors for CRISPR/Cas delivery. In this study, three types of retrovirus-based VLPs were compared, with enhanced egRVLPs showing the most efficient editing and minimal off-target activity.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)