PARN Maintains RNA Stability to Regulate Insulin Maturation and GSIS in Pancreatic β Cells by Xiaomei Xie, Xuexue Chen, Chaofan Wang, Longjie Sun, Weiru Yu, Zheng Lv, Shuang Tian, Xiaohong Yao, Fengchao Wang, Deqiang Ding, Juan Chen, Jiali Liu

“…The observed outcomes are corroborated in NIT‐1 cells. Furthermore, transcriptomic analyses reveal aberrant mRNA expression of genes crucial for insulin secretion in PARN‐deficient β cells. …”
Get full text

Integrative identification of key genes governing Verticillium wilt resistance in Gossypium hirsutum using machine learning and WGCNA by Yufeng Lei, Jing Zhao, Siyuan Hou, Fufeng Xu, Chongbo Zhang, Dongchen Cai, Xiaolei Cao, Zhaoqun Yao, Sifeng Zhao

“…In this study, we aimed to dissect the temporal transcriptional dynamics and regulatory mechanisms underlying Gossypium hirsutum response to V. dahliae infection.MethodsWe employed a time-course RNA-Seq approach using the susceptible upland cotton cultivar Jimian 11 to profile transcriptomic responses in root and leaf tissues post-V. dahliae inoculation. …”
Get full text

THBS2 + cancer-associated fibroblasts promote EMT leading to oxaliplatin resistance via COL8A1-mediated PI3K/AKT activation in colorectal cancer by Xing Zhou, Jiashu Han, Anning Zuo, Yuhao Ba, Shutong Liu, Hui Xu, Yuyuan Zhang, Siyuan Weng, Zhaokai Zhou, Long Liu, Peng Luo, Quan Cheng, Chuhan Zhang, Yukang Chen, Dan Shan, Benyu Liu, Shuaixi Yang, Xinwei Han, Jinhai Deng, Zaoqu Liu

“…Collectively, these results highlight the crucial role of THBS2 + CAFs in promoting oxaliplatin resistance of CRC by activating EMT and provide a rationale for a novel strategy to overcome oxaliplatin resistance in CRC.…”
Get full text

Molecular analysis highlights TREM2 as a discriminating biomarker for patients suffering from pancreatic ductal adenocarcinoma by Dimitrios Papakonstantinou, Haiding Wang, Mohamed-Amine Bani, Kevin Mulder, Garett Dunsmore, Alice Boilève, Gérôme Jules-Clément, Leonardo Panunzi, Leslie Robert de Sousa, Carlos de la Calle Fabregat, Marc Deloger, Nicolas Signolle, Grégoire Gessain, Sergey I Nikolaev, Michel Ducreux, Antoine Hollebecque, Florent Ginhoux, Camille Blériot

“…In this study, we applied established molecular signatures to our in-house transcriptomic data from a cohort of pancreatic cancer patients. …”
Get full text

SIRT5-modified human umbilical cord mesenchymal stem cells loaded with antioxidant polydopamine nanozyme enhance parpi resistance in ovarian cancer via fatty acid metabolism reprog... by Jin Zhang, Xiuluan Du, Xin Dai, Yanxiang Liu, Kai Guo, Donghua Gu

“…We employed multi-omics approaches, including transcriptomics, metabolomics, and proteomics, to identify key molecular pathways associated with resistance mechanisms. …”
Get full text

Melatonin alleviates ferroptosis triggered by cadmium via regulating ferritinophagy and iron metabolism in spermatogonia by Didi Jia, Wei Huang, Qizi Yin, Han Wang, Ziyue Wang, Mingming Zhang, Wenjing Gong, Rong Wang, Yan Zhu, Yanli Ji

“…Exposure to Cd resulted in a reduction of the mitochondrial membrane potential of the cells. The transcriptomics analysis revealed significant differences in gene expression associated with ferroptosis and autophagy. …”
Get full text

Single-Cell Landscape of the Cochlea Revealed Cell-Type-Specific Diversification in <i>Hipposideros armiger</i> Based on PacBio Long-Read Sequencing by Mingyue Bao, Xue Wang, Xintong Li, Ruyi Sun, Zhiqiang Wang, Tinglei Jiang, Hui Wang, Jiang Feng

“…Herein, we constructed the first single-cell transcriptomic landscape of the cochlea in <i>Hipposideros armiger</i>, a CF-FM bat, using a PacBio-optimized genome and compared it with the results obtained from unoptimized original genomes. …”
Get full text

An injectable multifunctional nanocomposite hydrogel promotes vascularized bone regeneration by regulating macrophages by Huaiyuan Zhang, Yu Wang, Wenyu Qiao, Xueneng Hu, Huifen Qiang, Kuo Xia, Longhai Du, Luling Yang, Yi Bao, Jie Gao, Tinglin Zhang, Zuochong Yu

“…In addition, reprogrammed M2 macrophages stimulate the generation of anti-inflammatory and pro-healing growth factors, which provide additional support for angiogenesis and bone regeneration. …”
Get full text

Inhibition of neuronal necroptosis via disruption of RIPK1-RIPK3 Interactions: The role of neural stem cell-derived exosomes in spinal cord injury recovery by Shiming Li, Guoliang Chen, Kuileung Tong, Yunshu Che, Yifan Xie, Wenxiao Shi, Anquan Huang, Yefeng Wang, Jianfeng Li, Genlong Jiao, Dacheng He, Jun Shen, Fuxin Wei, Ningning Chen

“…Furthermore, comprehensive transcriptomic analysis reveals that the ubiquitin-mediated proteolysis (UPS) pathway plays a crucial role in this process, a finding supported by experimental inhibition of ubiquitination. …”
Get full text

scSMD: a deep learning method for accurate clustering of single cells based on auto-encoder by Xiaoxu Cui, Renkai Wu, Yinghao Liu, Peizhan Chen, Qing Chang, Pengchen Liang, Changyu He

“…By integrating innovative computational techniques, the SMD model provides a powerful framework for unraveling cellular complexities, enhancing our understanding of biological processes, and elucidating disease mechanisms. …”
Get full text

A strategy for identification and characterization of genic mutations using a temperature‐sensitive chlorotic soybean mutant as an example by C. Nathan Hancock, Tetandianocee Germany, Priscilla Redd, Jack Timmons, Jeffery Lipford, Samantha Burns, Sergio Alan Cervantes‐Perez, Marc Libault, Wenhao Shen, Yong‐qiang Charles An, Lisa Kanizay, Melinda Yerka, Wayne A. Parrott

“…The variant analysis strategy used to identify the genes underlying this phenotype provides a template for the study of other soybean mutants.…”
Get full text

KRAS mutations promote the intratumoral colonization of enterotoxigenic bacteroides fragilis in colorectal cancer through the regulation of the miRNA3655/SURF6/IRF7/IFNβ axis by Yizhen Chen, Shaolin Liu, Song Tan, Yuanyuan Zheng, Yifan Chen, Changshun Yang, Shengtao Lin, Yulong Mi, Weihua Li

“…These data indicate that KRAS mutations affect the intratumoral colonization of ETBF in CRC through the miR3655/SURF6/IRF7/IFNβ axis. This provides new potential strategies for treating CRC associated with KRAS mutations or high levels of ETBF.…”
Get full text

Identification of pyroptosis related genes and subtypes in atherosclerosis using multiomic and single cell analysis by Kaisheng Jiang, Yang He, Bingjie Hu, Li Quan, Longyun Peng, Juntao Tian, Nan Zhou, Erwen Huang, Qianhao Zhao

“…A multi-omics framework integrating transcriptomics, single-cell RNA sequencing, and machine learning to identify and prioritize pyroptosis-related genes (PRGs) in AS. …”
Get full text

Endothelial sensitivity to pro-fibrotic signals links systemic exposure to pulmonary fibrosis by Lena Möbus, Laura Ylä-Outinen, Luca Mannino, Giorgia Migliaccio, Karoliina Kosunen, Nicoletta D’Alessandro, Angela Serra, Dario Greco

“…Here, we investigate early transcriptomic and secretory responses of human umbilical vein endothelial cells (HUVEC) to subtoxic doses of bleomycin, a known pro-fibrotic agent, and TGF-beta, a key cytokine in fibrosis. …”
Get full text

Advanced biotechnological tools towards achieving United Nations Sustainable Development Goals (UNSDGs) for mitigation of microplastics from environments: a review by Mukesh Kumar, Veena Chaudhary, Ravi Kumar, Manoj Kumar Yadav, Chetan Chauhan, Satya Prakash, Devanshu Shukla, Rishubh Motla, Krishna Kaushik, Virendra Pal, Mahesh Kumar, Rajat Singh, Arul Lal Srivastav

“…The background to recognize new species of microorganisms, gene pools, interaction networks, and pathways of reaction from different microbial consortiums is provided by techniques like metagenomics, meta-transcriptomics, meta-proteomics, metabolomics, microbiomics, etc. …”
Get full text

Elevated TIM3 expression on bone marrow T cells drives immune dysfunction in early relapsed blood cancer after allogeneic hematopoietic stem cell transplantation by Thi Thuy Duong Pham, Su-Young Choi, Jeong Suk Koh, Bu-Yeon Heo, Sang-Woo Lee, Myung-Won Lee, Wonhyoung Seo, Yunseon Jang, Jung-Hyun Park, Deog-Yeon Jo, Seungyeul Yoo, Jaeyul Kwon, Ik-Chan Song

“…These findings highlight TIM3 as a critical regulator of T cell exhaustion and immune suppression in patients with ER and provide a rationale for the therapeutic use of TIM3 blockade in preventing and treating relapses after allo-HSCT.…”
Get full text

Sesamin protects against Acetaminophen-induced nephrotoxicity by suppressing HMOX1-mediated apoptosis and ferroptosis by Siqi Zhu, Jingyi Ren, Yadong Zhang, Xiaoya Sun, Huanting Pei, Bowen Yin, Ziyi Wang, Zhenao Zhang, Shenghe Li, Ruonan Zhang, Ziqian Zeng, Yuxia Ma

“…HMOX1 inhibitor Zinc Protoporphyrin significantly eliminated the protective effect of Ses.Conclusion Ses alleviates APAP-induced renal injury by mediating the inhibition of ferroptosis and apoptosis via HMOX1. This study provides a new strategy for the prevention and treatment of drug-induced renal injury.…”
Get full text

Bat-specific adaptations in interferon signaling and GBP1 contribute to enhanced antiviral capacity by Victoria Gonzalez, Briallen Lobb, Jacob Côté, Arkadeb Bhuinya, Adriana G. Tubb, Stephen S. Nuthalapati, Akarin Asavajaru, Yan Zhou, Vikram Misra, Darryl Falzarano, Trevor R. Sweeney, Sophie M. C. Gobeil, Linfa Wang, Andrew C. Doxey, Arinjay Banerjee

“…Ultimately, our work provides important insights into the evolution of enhanced interferon-mediated antiviral responses in bats, contributing to their ability to resist viral diseases.…”
Get full text

Cholesterol metabolism and neuroinflammatory changes in a non-human primate spinal nerve ligation model by Hiroshi Yamane, Suguru Koyama, Takayuki Komatsu, Tomoya Tanaka, Riyu Koguchi, Haruhisa Watanabe, Mai Nishiura, Satoru Yoshikawa, Tadahiro Iimura

“…Additionally, several upregulated genes observed here were previously reported uniquely in clinical studies, but not in rodent models. This study provides a potentially useful model that can aid our understanding of pathophysiological mechanism of neuropathic pain and the development of pain relief therapies by inducing a robust behavioral phenotype and changes in gene expression resembling those in patients.…”
Get full text

Tracking the genome-wide occupancy of Arabidopsis LEAFY COTYLEDON1 in endosperm development by Jingpu Song, Xin Xie, Ioannis Mavraganis, Bianyun Yu, Wenyun Shen, Hui Yang, Daoquan Xiang, Yangdou Wei, Yuhai Cui, Jitao Zou

“…Integrating ChIP-seq with transcriptomic analyses, we uncover a critical role for LEC1 in regulating diverse biological pathways. …”
Get full text