PIT-1/SF-1-positive pituitary tumors in patients with acromegaly: transcriptomic perspective by Julia Rymuza, Qilin Zhang, Mateusz Bujko

“…Somatrotroph PitNETs co-expressing PIT-1 and SF-1 TFs were identified in each of the analyzed RNAseq dataset. Their transcriptomic profile and pituitary TF activity closely resembled those of other somatotroph tumors, while differing substantially from gonadotroph PitNETs, though they retained NR5A1 (SF-1) activity and expressed some SF-1-regulated genes (e.g., LHB and GNHRH). …”
Get full text

Cone Snail Broad-Transcriptomics Elucidate the Evolutionary Diversification and Anti-Microbial Potential of Conopeptides by José Morim, Yihe Zhao, Lei Huang, Agostinho Antunes

“…We aim to enlighten the understanding of the remarkable venom variability in cone snails while pushing to deliver novel peptides for biomedical applications through a broad transcriptomics approach. Here, we assessed 76 publicly available venom-related and unrelated transcriptomes from a total of 20 different <i>Conus</i> species. …”
Get full text

Transcriptomic Analysis of Biofilm Formation Inhibition by PDIA Iminosugar in <i>Staphylococcus aureus</i> by Anna Tomusiak-Plebanek, Łucja Kozień, Estelle Gallienne, Maciej Florczyk, Sławomir Ciesielski, Piotr Heczko, Magdalena Strus

“…</i> In a series of studies, we have demonstrated that one of the synthetic iminosugars, PDIA (beta-1-C-propyl-1,4-dideoxy-1,4-imino-L-arabinitol), possesses the ability to suppress biofilm production by different pathogenic bacteria without inhibiting their growth. …”
Get full text

Transcriptome and Metabolome Analyses of the Salt Stress Response Mechanism in <i>Lonicera caerulea</i> by Dandan Zang, Yadong Duan, Hengtian Zhao, Ning Wang, Yiming Zhang, Yanmin Wang, Huizi Liu

“…It also increases the activity of antioxidant enzymes and the content of soluble sugars. A comprehensive transcriptomic and metabolomic analysis of <i>L. caerulea</i> exposed to salt stress at four different (treatment) time intervals yielded a total of 99,574 unigenes and 1375 metabolites. …”
Get full text

Transcriptomic Modification in the Cerebral Cortex following Noninvasive Brain Stimulation: RNA-Sequencing Approach by Ben Holmes, Seung Ho Jung, Jing Lu, Jessica A. Wagner, Liudmilla Rubbi, Matteo Pellegrini, Ryan Jankord

Get full text

Comparative transcriptome analysis identified candidate genes associated with kernel row number in maize by Shukai Wang, Yancui Wang, Xitong Xu, Dusheng Lu, Baokun Li, Yuxin Zhao, Senan Cheng, Zhenhong Li, Cuixia Chen

“…Here, two maize inbred lines with contrasting KRN were used to perform transcriptome analysis at five early ear developmental stages. …”
Get full text

Unveiling alfalfa root rot resistance genes through an integrative GWAS and transcriptome study by Fei He, Ming Xu, Hao Liu, Yanchao Xu, Ruicai Long, Junmei Kang, Qingchuan Yang, Lin Chen

“…By integrating GWAS and transcriptome data, we identified four key DEGs significantly associated with root rot resistance, offering valuable insights for developing disease-resistant alfalfa varieties and enhancing overall crop resilience. …”
Get full text

Peripheral blood transcriptome profiling enables monitoring disease progression in dystrophic mice and patients by Mirko Signorelli, Mitra Ebrahimpoor, Olga Veth, Kristina Hettne, Nisha Verwey, Raquel García‐Rodríguez, Christa L Tanganyika‐deWinter, Luz B Lopez Hernandez, Rosa Escobar Cedillo, Benjamín Gómez Díaz, Olafur T Magnusson, Hailiang Mei, Roula Tsonaka, Annemieke Aartsma‐Rus, Pietro Spitali

Get full text

Expression regulation network in papillae of sea cucumbers: Whole-transcriptome and DNA methylation datasets by Wenhong Mai, Jingxian Sun, Bingyu Ning, Tanjun Zhao, Haochen Yang, Liyuan Ren, Zengdong Wang, Cao Cheng, Ange Zou, Yaoyao Zhan, Yaqing Chang

“…Abstract To elucidate the expression regulation network of papilla size of sea cucumbers (Apostichopus japonicus), the whole-transcriptome and DNA methylome datasets of different sizes of papillae in sea cucumbers were generated. …”
Get full text

Genomic and transcriptomic insights into vertebrate host-specific Lactobacillus johnsonii adaptation in the gastrointestinal tract by Keerthikka Ravi, Nicole R. Falkowski, Gary B. Huffnagle

“…We then utilized transcriptomics analysis to investigate the expression profile of identified rodent-specific genes in mouse isolate MR1 during in vitro and in vivo growth conditions. …”
Get full text

Transcriptome Analysis and Identification of Chemosensory Membrane Proteins in the Head of <i>Euplatypus parallelus</i> by Qi Wu, Xiang Zhou, Zheyuan Xu, Xufeng Zhang, Hongchao Yuan, Jixing Guo

“…The data indicate that the chemosensory membrane protein gene families in <i>E. parallelus</i> exhibit different expression levels in male and female heads, with some genes showing significant differences and displaying sex-biased expression. …”
Get full text

Effects of 1-MCP on the genes related to wax anabolism in pear peel based on transcriptomics by YU Wanting, ZHANG Xinnan, SUN Xiaonan, WANG Wenhui, JIA Xiaohui

“…RNA was extracted from frozen peel samples every 7 days for transcriptome sequencing and data analysis, and RT-qPCR technology was used to verify the significant difference genes. …”
Get full text

Molecular Mechanisms Underlying Salt Tolerance in Maize: A Combined Transcriptome and Metabolome Analysis by Shaoqi Ren, Tianhang Bai, Yaqi Ma, Yingjie Zhao, Jiabin Ci, Xuejiao Ren, Zhenyuan Zang, Chengqian Ma, Ruyi Xiong, Xinyao Song, Wei Yang, Weiguang Yang

“…In this study, we conducted comparative transcriptome, metabolome, and physiological analyses of a salt-tolerant maize inbred line (J1285) subjected to different NaCl concentrations during the seedling stage. …”
Get full text

Dichotomous intronic polyadenylation profiles reveal multifaceted gene functions in the pan-cancer transcriptome by Jiao Sun, Jin-Young Kim, Semo Jun, Meeyeon Park, Ebbing de Jong, Jae-Woong Chang, Sze Cheng, Deliang Fan, Yue Chen, Timothy J. Griffin, Jung-Hee Lee, Ho Jin You, Wei Zhang, Jeongsik Yong

“…Focusing on conserved intronic APA events across 10 different cancer types highlighted the prevalence of the latter cases in cancer transcriptomes, whereas the former cases were relatively enriched in normal tissue transcriptomes. …”
Get full text

Metabolomics and Transcriptomics Jointly Explore the Mechanism of Pod Color Variation in Purple Pod Pea by Xiaojuan Zhong, Mei Yang, Xiaoyan Zhang, Yuanfang Fan, Xianshu Wang, Chao Xiang

“…This study systemically analyzed the difference between two pea accessions with green pods (GPs) and purple pods (PPs) at two pod developmental stages from the metabolome and transcriptome levels, aiming to preliminarily explore the mechanism and of color variation in PPs and screen out the candidate genes. …”
Get full text

Proteomic and transcriptomic analysis of the action mechanism of spermidine in mitigating the aging of Allium mongolicum seeds by Yan Men, Pengchao Wei, Xiumei Huang, Lu Yang, Zhenyu Cao, Jianting Wei, Xiaoyan Zhang, Fenglan Zhang, Zhongren Yang

“…Allium mongolicum seeds stored for different years were used to obtain germination indicators, physiological indicators, and proteomic and transcriptomic sequencing in seeds treated with spermidine (Spd). …”
Get full text

Identification of novel biomarkers and prognostic model for neuroblastoma using Mendelian randomization and transcriptomic analysis by Yongcheng Fu, Nan Zhang, Jian Cheng, Xiaohan Qin, Xing Zhou, Xiaoran Du, Yuanyuan Wang, Jingyue Wang, Da Zhang

Get full text

Single Cell and Transcriptomic Analysis of Regulatory Mechanisms of Key Genes in Systemic Lupus Erythematosus by Zhou Y, Wu Y, Yang B, Zhu Q, Long H, Yuan L, Cao W, Deng D

“…Memory B cells exhibited consistent differences between SLE and controls in both datasets. …”
Get full text

Molecular insights into floral scent biosynthesis in Rosa laevigata through transcriptomic and metabolomic analyses by Jian Ru, Jian Ru, Wen-Bin Ju, Wen-Bin Ju, Liang-Ying Li, Heng-Ning Deng, Heng-Ning Deng, Zhen-Long Liang, Zhen-Long Liang, Zhong-Yu Tang, Zhong-Yu Tang, Jia Miao, Cheng Zhang, Xin-Fen Gao, Xin-Fen Gao

“…In this study, we conducted metabolomic and transcriptomic analyses to investigate the composition and abundance changes of VOCs in R. laevigata flowers at three developmental stages. …”
Get full text

Single-cell transcriptomics reveals the heterogeneity and function of mast cells in human ccRCC by Xiyu Song, Xiyu Song, Xiyu Song, Jianhua Jiao, Jianhua Jiao, Jiayang Qin, Wei Zhang, Weijun Qin, Weijun Qin, Shuaijun Ma, Shuaijun Ma

“…IntroductionThe role of mast cells (MCs) in clear cell renal carcinoma (ccRCC) is unclear, and comprehensive single-cell studies of ccRCC MCs have not yet been performed.MethodsTo investigate the heterogeneity and effects of MCs in ccRCC, we studied single-cell transcriptomes from four ccRCC patients, integrating both single-cell sequencing and bulk tissue sequencing data from online sequencing databases, followed by validation via spatial transcriptomics and multiplex immunohistochemistry (mIHC).ResultsWe identified four MC signature genes (TPSB2, TPSAB1, CPA3, and HPGDS). …”
Get full text