Protein & Cell.2021;12(3):159-161. doi:10.1007/s13238-019-0620-5
Protein & Cell
2010 (1, 1) to Present ISSN: 1674-800X
Year of publication
Sort by
DISPLAY OPTIONS
Format:
Per page:
Protein & Cell.2020;11(11):825-845. doi:10.1007/s13238-020-00701-1
This study was designed to evaluate ERK5 expression in lung cancer and malignant melanoma progression and to ascertain the involvement of ERK5 signaling in lung cancer and melanoma. We show that ERK5 expression is abundant in human lung cancer samples, and elevated ERK5 expression in lung cancer was linked to the acquisition of increased metastatic and invasive potential. Importantly, we observed a significant correlation between ERK5 activity and FAK expression and its phosphorylation at the Ser
A549 Cells ; Animals ; Cell Movement ; Epithelial-Mesenchymal Transition/genetics* ; Focal Adhesion Kinase 1/metabolism* ; Humans ; Lung Neoplasms/pathology* ; MAP Kinase Signaling System ; Mice ; Mitogen-Activated Protein Kinase 7/metabolism* ; Neoplasm Invasiveness ; Neoplasm Metastasis ; Neoplasm Proteins/metabolism*
A549 Cells ; Animals ; Cell Movement ; Epithelial-Mesenchymal Transition/genetics* ; Focal Adhesion Kinase 1/metabolism* ; Humans ; Lung Neoplasms/pathology* ; MAP Kinase Signaling System ; Mice ; Mitogen-Activated Protein Kinase 7/metabolism* ; Neoplasm Invasiveness ; Neoplasm Metastasis ; Neoplasm Proteins/metabolism*
Recent advances in CRISPR research.
Protein & Cell.2020;11(11):786-791. doi:10.1007/s13238-020-00704-y
Protein & Cell.2020;11(11):783-785. doi:10.1007/s13238-020-00719-5
A practical guide to amplicon and metagenomic analysis of microbiome data.
Protein & Cell.2021;12(5):315-330. doi:10.1007/s13238-020-00724-8
Advances in high-throughput sequencing (HTS) have fostered rapid developments in the field of microbiome research, and massive microbiome datasets are now being generated. However, the diversity of software tools and the complexity of analysis pipelines make it difficult to access this field. Here, we systematically summarize the advantages and limitations of microbiome methods. Then, we recommend specific pipelines for amplicon and metagenomic analyses, and describe commonly-used software and databases, to help researchers select the appropriate tools. Furthermore, we introduce statistical and visualization methods suitable for microbiome analysis, including alpha- and beta-diversity, taxonomic composition, difference comparisons, correlation, networks, machine learning, evolution, source tracing, and common visualization styles to help researchers make informed choices. Finally, a step-by-step reproducible analysis guide is introduced. We hope this review will allow researchers to carry out data analysis more effectively and to quickly select the appropriate tools in order to efficiently mine the biological significance behind the data.
Ethacrynic acid targets GSTM1 to ameliorate obesity by promoting browning of white adipocytes.
Protein & Cell.2021;12(6):493-501. doi:10.1007/s13238-020-00717-7
SIRT5 is important for bacterial infection by regulating insulin secretion and glucose homeostasis.
Protein & Cell.2020;11(11):846-851. doi:10.1007/s13238-020-00709-7
Protein & Cell.2020;11(12):866-880. doi:10.1007/s13238-020-00727-5
For multicellular organisms, cell-cell communication is essential to numerous biological processes. Drawing upon the latest development of single-cell RNA-sequencing (scRNA-seq), high-resolution transcriptomic data have deepened our understanding of cellular phenotype heterogeneity and composition of complex tissues, which enables systematic cell-cell communication studies at a single-cell level. We first summarize a common workflow of cell-cell communication study using scRNA-seq data, which often includes data preparation, construction of communication networks, and result validation. Two common strategies taken to uncover cell-cell communications are reviewed, e.g., physically vicinal structure-based and ligand-receptor interaction-based one. To conclude, challenges and current applications of cell-cell communication studies at a single-cell resolution are discussed in details and future perspectives are proposed.
Animals ; Cell Communication ; Humans ; RNA-Seq ; Single-Cell Analysis ; Transcriptome
Animals ; Cell Communication ; Humans ; RNA-Seq ; Single-Cell Analysis ; Transcriptome
Mapping the epigenetic modifications of DNA and RNA.
Protein & Cell.2020;11(11):792-808. doi:10.1007/s13238-020-00733-7
Over 17 and 160 types of chemical modifications have been identified in DNA and RNA, respectively. The interest in understanding the various biological functions of DNA and RNA modifications has lead to the cutting-edged fields of epigenomics and epitranscriptomics. Developing chemical and biological tools to detect specific modifications in the genome or transcriptome has greatly facilitated their study. Here, we review the recent technological advances in this rapidly evolving field. We focus on high-throughput detection methods and biological findings for these modifications, and discuss questions to be addressed as well. We also summarize third-generation sequencing methods, which enable long-read and single-molecule sequencing of DNA and RNA modification.
Animals ; DNA/metabolism* ; DNA Methylation ; Epigenesis, Genetic ; Epigenomics ; Humans ; RNA/metabolism* ; Transcriptome
Animals ; DNA/metabolism* ; DNA Methylation ; Epigenesis, Genetic ; Epigenomics ; Humans ; RNA/metabolism* ; Transcriptome
Loss of 4.1N in epithelial ovarian cancer results in EMT and matrix-detached cell death resistance.
Protein & Cell.2021;12(2):107-127. doi:10.1007/s13238-020-00723-9
Epithelial ovarian cancer (EOC) is one of the leading causes of death from gynecologic cancers and peritoneal dissemination is the major cause of death in patients with EOC. Although the loss of 4.1N is associated with increased risk of malignancy, its association with EOC remains unclear. To explore the underlying mechanism of the loss of 4.1N in constitutive activation of epithelial-mesenchymal transition (EMT) and matrix-detached cell death resistance, we investigated samples from 268 formalin-fixed EOC tissues and performed various in vitro and in vivo assays. We report that the loss of 4.1N correlated with progress in clinical stage, as well as poor survival in EOC patients. The loss of 4.1N induces EMT in adherent EOC cells and its expression inhibits anoikis resistance and EMT by directly binding and accelerating the degradation of 14-3-3 in suspension EOC cells. Furthermore, the loss of 4.1N could increase the rate of entosis, which aggravates cell death resistance in suspension EOC cells. Moreover, xenograft tumors in nude mice also show that the loss of 4.1N can aggravate peritoneal dissemination of EOC cells. Single-agent and combination therapy with a ROCK inhibitor and a 14-3-3 antagonist can reduce tumor spread to varying degrees. Our results not only define the vital role of 4.1N loss in inducing EMT, anoikis resistance, and entosis-induced cell death resistance in EOC, but also suggest that individual or combined application of 4.1N, 14-3-3 antagonists, and entosis inhibitors may be a promising therapeutic approach for the treatment of EOC.
Country
China
Publisher
Institute of Biophysics, Chinese Academy of Sciences
ElectronicLinks
http://www.protein-cell.net/Editor-in-chief
Zihe Rao
protein_cell@biols.ac.cn
Abbreviation
Vernacular Journal Title
ISSN
1674-800X
EISSN
1674-8018
Year Approved
2013
Current Indexing Status
Currently Indexed
Start Year
2010
Description
Powered by IMICAMS(
备案号: 11010502037788, 京ICP备10218182号-8)