Integrated omics reveals the regulatory role of PKCα in Sertoli cell proliferation and apoptosis through the MAPK/ERK signaling pathway in goose testis by Yupu Song, Qiuyuan Liu, Jingyun Ma, Ichraf Mabrouk, Yuxuan Zhou, Xinyue Li, Guizhen Xue, Xiaoming Ma, Jing Xu, Jingbo Wang, Hongxiao Pan, Guoqing Hua, Heng Cao, Jingtao Hu, Yongfeng Sun

“…This study employed integrative transcriptomic and proteomic analysis methods to identify critical regulators of testicular development in geese across three reproductive periods. …”
Get full text

Multi-omics insights into antioxidant and immune responses in Penaeus monodon under ammonia-N, low salinity, and combined stress by Yundong Li, Sheng Huang, Song Jiang, Lishi Yang, Jianhua Huang, Qibin Yang, Ziyi Jiang, Jianzhi Shi, Zhenhua Ma, Erchao Li, Falin Zhou

“…This study utilized a comprehensive multi-omics approach, encompassing transcriptomics, metabolomics, and gut microbiome analysis, to systematically examine the biological responses of shrimp subjected to low salinity, ammonia nitrogen stress, and their combined conditions. …”
Get full text

Differential gene expression mediates physiological responses to perceived predation risk in a developmentally plastic vertebrate, the northern leopard frog (Lithobates pipiens) by Tucker W. Cambridge, Michael E. Donaldson, Leslie R. Kerr, David Lesbarrères, Jessica N. Longhi, Jeffrey R. Row, Barry J. Saville, Dennis L. Murray

“…PPR broadly influenced pathways across tissues and metamorphosis, including developmental, endocrine, and immune system pathways. This study provides an important step in understanding transcriptomic responses during predator induced morphological change, and demonstrates that gene expression, as induced by perceived predation risk, is a prominent mechanism of developmental plasticity.…”
Get full text

Genomes of two indigenous clams Anomalocardia flexuosa (Linnaeus, 1767) and Meretrix petechialis (Lamarck, 1818) by Sean Tsz Sum Law, Wenyan Nong, Ming Fung Franco Au, Leni Hiu Tong Cheung, Cheryl Wood Yee Shum, Shing Yip Lee, Siu Gin Cheung, Jerome Ho Lam Hui

“…Population genomics is useful to unravel the connectivity of clams at different geographical locations and to provide necessary conservation measures; and yet, only limited number of clams in Hong Kong have genomic resources. …”
Get full text

The role and application of bioinformatics techniques and tools in drug discovery by Shujun Zhang, Kaijie Liu, Yafeng Liu, Xinjun Hu, Xinjun Hu, Xinyu Gu

“…High-throughput data from genomics, transcriptomics, proteomics, and metabolomics make significant contributions to mechanics-based drug discovery and drug reuse. …”
Get full text

Studies on the antibacterial activity of the antimicrobial peptide Mastoparan X against methicillin-resistant Staphylococcus aureus by Zhangping Lu, Xiaofang Liang, Wenbo Deng, Qianqian Liu, Yulin Wang, Meng Liu, Fugui Lin, Zhihong Liu, Yu Zhang, Wenjie Wang, Yingying Sun, Yaozhou Wu, Lianhua Wei

“…In addition, Mastoparan X inhibited the formation of MRSA biofilm while destroying the mature bioepithelia already formed. Transcriptomic analysis showed that 851 genes were significantly altered and ABC transport protein, amino acid biosynthesis, glycolysis and tricarboxylic acid (TCA) cycle were inhibited after 16μg/mL Mastoparan X treatment.ConclusionOur study demonstrated that Mastoparan X has potent bactericidal activity against MRSA and is expected to provide new potential peptides for the clinical treatment of MRSA.…”
Get full text

Deep exploration of logical models of cell differentiation in human preimplantation embryos by Mathieu Bolteau, Célia Messaoudi, Laurent David, Jérémie Bourdon, Carito Guziolowski

“…Abstract The advent of single-cell transcriptomics (scRNA-seq) has provided unprecedented access to specific cell type signatures, including during transient developmental stages. …”
Get full text

Effect of Dietary Cholesterol, Phytosterol, and Docosahexaenoic Acid on Astaxanthin Absorption and Retention in Rainbow Trout by Yang Jin, Keshuai Li, Jon Olav Vik, Marie Hillestad, Rolf Erik Olsen

“…By comparing intestinal transcriptomes, a low density lipoprotein receptor (ldlr) gene was significantly downregulated in fish fed the CH diet as compared to the control diet. …”
Get full text

Target of Rapamycin is involved in root hair development in Phaseolus vulgaris by Hugo Alberto Monreal Contreras, Manoj-Kumar Arthikala, Miguel Lara, Kalpana Nanjareddy

“…Transcriptomic analysis revealed differential expression of 148 P. vulgaris homologs of Arabidopsis thaliana root hair-related genes, with 63 genes downregulated and 85 upregulated. …”
Get full text

Filtering cells with high mitochondrial content depletes viable metabolically altered malignant cell populations in cancer single-cell studies by Josephine Yates, Agnieszka Kraft, Valentina Boeva

“…Abstract Background Single-cell transcriptomics has transformed our understanding of cellular diversity, yet noise from technical artifacts and low-quality cells can obscure key biological signals. …”
Get full text

Effects of exogenous sucrose on root nitrogen uptake in apple at sub-low root-zone temperature by Xiaoping Zhao, Hanyu Liu, Lijie Li, Deguo Lyu

“…Collectively, these results provided new insights into the role of sucrose in modulating apple root N uptake under sub-low temperature. …”
Get full text

Succinylation-related molecular activities in cancer: metabolic adaptations, immune landscape, and prognostic significance in colorectal cancer by Zhihang Jiang, Zhihang Jiang, Xiaoqing Li, Xiaoqing Li, Long Hu, Zheng Jiang

“…A systematic pan-cancer analysis of succinylation-related molecular activities is needed.MethodsBulk transcriptomic, single-cell RNA sequencing, and spatial transcriptomic data across pan-cancer from TCGA, GEO, TISCH, and multiple other databases were analyzed. …”
Get full text

Single-cell RNA sequencing in diffuse large B-cell lymphoma: tumor heterogeneity, microenvironment, resistance, and prognostic markers by Linwei Li, Linwei Li, Qiwei Li, Rui Niu, Wei Sun, Wei Sun, Hua Liang

“…Single-cell RNA sequencing (scRNA-seq) has provided important insights into tumor heterogeneity, microenvironment interactions, resistance mechanisms, and prognostic biomarkers. …”
Get full text

Study on physiological changes and response mechanism of Cerasus humilis under alkali stress by Meitong Pan, Shan Jiang, Lengleng Ma, Junbai Ma, Chenzhuo Yue, Lingyang Kong, Danli Wang, Wei Ma, Xiubo Liu, Weichao Ren

“…ChWRKY29 and ChWRKY34, which are likely to respond to alkali stress, were screened based on transcriptomic data and phylogenetic relationship, and their direct regulation on downstream ChMSD2 and ChCSD2 genes were verified by yeast single hybridization experiment. …”
Get full text

State of the art and new directions using DNA and other molecular markers in forensic entomology by David Haymer

“…Beginning with the use of single mitochondrial genes, the range of DNA-based markers available to forensic entomologists has grown to include a wide variety of individual mitochondrial and nuclear genes, and has further expanded to include the analysis of whole genomes and transcriptomes. The use of these new sets of markers has significantly enhanced the ability of forensic entomologists to identify insects associated with human cadavers and to provide improved estimates of the time elapsed since death, commonly referred to as the postmortem interval (PMI), along with other valuable information for crime scene investigations. …”
Get full text

OMICS Approaches Evaluating Keloid and Hypertrophic Scars by Nazihah Bakhtyar, Saeid Amini-Nik, Marc G. Jeschke

“…In this review paper, we delve into the world of “omics” approaches to study abnormal scars and provide examples of genomics, transcriptomics, proteomics, epigenomics, and metabolomics. …”
Get full text

Functional studies of plant transcription factors and their relevance in the plant root-knot nematode interaction by Jose Domínguez-Figueroa, Jose Domínguez-Figueroa, Almudena Gómez-Rojas, Carolina Escobar

“…Yet, the plant-nematode interaction is normally accompanied to dramatic transcriptomic changes within the galls and giant cells. …”
Get full text

Cancer‐Associated Fibroblasts: Heterogeneity, Cancer Pathogenesis, and Therapeutic Targets by Yutao Li, Qingyun Liu, Xilin Jing, Yuqi Wang, Xiaohua Jia, Xing Yang, Kezhong Chen

“…Key concepts include spatial transcriptomics, stromal reprogramming, and tumor‐stroma coevolution, offering actionable insights for both mechanistic research and clinical innovation.…”
Get full text

Comprehensive machine learning analysis of PANoptosis signatures in multiple myeloma identifies prognostic and immunotherapy biomarkers by Yashu Feng, Shuoting Wang, Jingwen Zhang, Chengcheng Liu, Ling Zhang, Jiajun Liu

“…This PANoptosis-based prognostic model provides a valuable tool for predicting MM prognosis and guiding personalized treatment.…”
Get full text

Multi-omics analysis and experiments uncover the function of cancer stemness in ovarian cancer and establish a machine learning-based model for predicting immunotherapy responses by Zhibing Liu, Zhibing Liu, Lei Han, Xiaoyu Ji, Xiaole Wang, Jinbo Jian, Yujie Zhai, Yingjiang Xu, Feng Wang, Xiuwen Wang, Fangling Ning

“…Thirteen publicly accessible OV transcriptomic datasets, seven pan-cancer ICI transcriptomic cohorts, and one single-cell RNA dataset from melanoma patients treated with PD-1 were utilized to scale a novel cancer stemness index (CSI). …”
Get full text