Genome-wide study and expression analysis of soybean ERF transcription factors and overexpression of GmERF205 enhances drought resistance in soybean by Nan Wu, Yongqi Feng, Tao Jiang, Zhaobo Li, Yulan Liu, Minghao Yuan

“…And the transcriptome results were validated by fluorescence qRT-PCR. …”
Get full text

Post-transcriptional regulation in early cell fate commitment of germ layers by Rubens Gomes-Júnior, Cintia Delai da Silva Horinouchi, Aruana Fagundes Fiuza Hansel-Fröse, Annanda Lyra Ribeiro, Isabela Tiemy Pereira, Lucia Spangenberg, Bruno Dallagiovanna

“…Abstract Background Cell differentiation during development is orchestrated by precisely coordinated gene expression programs. While some regulatory mechanisms are well understood, there is a significant room to explore unresolved aspects of lineage choice and cell-fate decisions, as many events in these processes are still not fully elucidated. …”
Get full text

Prediction of transcript isoforms and identification of tissue-specific genes in cucumber by Wenjiao Wang, Chengcheng Shen, Xinqiang Wen, Anqi Li, Qi Gao, Zhaoying Xu, Yuping Wei, Yushun Li, Dailu Guan, Bin Liu

“…Approximately 96.6% of these isoforms originated from known gene loci, while around 3.3% were derived from novel gene loci. …”
Get full text

RNA-seq analysis reveals key genes associated with downregulation of APE1 in esophageal squamous cell carcinoma by Alan Chu, Xiao Liu, Shijia Liu, Mengxi Li, Rui Song, Lanlan Gan, Yongtai Wang, Zongwen Liu, Chen Sun

“…APE1 can promote the transcriptional expressions of FN1 and IL6 genes while inhibiting the TNF gene. FN1, TNF, and IL-6 may be potential target genes regulated by APE1 in esophageal cancer.…”
Get full text

Sucrose Promotes Strawberry Fruit Ripening and Affects Ripening-Related Processes by Ya Luo, Yuanxiu Lin, Fan Mo, Cong Ge, Leiyu Jiang, Yong Zhang, Qing Chen, Bo Sun, Yan Wang, Xiaorong Wang, Haoru Tang

“…Sucrose has been recently proved as a signal molecule, participating in strawberry fruit ripening and related processes. While in the effects of sucrose application timing and concentration on ripening, fruit qualities remain unclear, as well as the transcriptome-wide details about the effects of sucrose on the gene expression involved in ripening-related processes. …”
Get full text

NAT10 mediates TLR2 to promote podocyte senescence in adriamycin-induced nephropathy by Mingyang Hu, Linxiao Lv, Yuqi Lei, Min Chen, Sijie Zhou, Zhangsuo Liu

“…NAT10 function was demonstrated using Remodelin or small interfering RNA (siRNA) interventions. Transcriptome sequencing was conducted to identify key downstream genes and pathways, while coimmunoprecipitation was performed to evaluate the relationship between NAT10 and toll-like receptor 2 (TLR2) expression. …”
Get full text

Cis-regulation analysis of RNA m6A methylation and gene expression in colorectal cancer by Zhen-Liang Lin, Pan-Pan Yu, Bei-Lei Ye

“…Although the regulation of individual genes by m6A methylation has been extensively studied, a systematic quantification of transcriptome-wide associations between RNA methylation and gene expression remains limited. …”
Get full text

Interspecific Hybridization Enhanced Tolerance to Salinity and Cadmium Stress Through Modifying Biochemical, Physiological, and Resistance Gene Levels, Especially in Polyploid Rice... by Lixia Sun, Fozia Ghouri, Jiacheng Jin, Minghui Zhong, Weicong Huang, Zijun Lu, Jinwen Wu, Xiangdong Liu, Muhammad Qasim Shahid

“…The results showed that diploid hybrids had fluctuating yields in early and late seasons, while tetraploid hybrids had consistent grain yield throughout. …”
Get full text

Understanding adaptation to fluconazole: comparative insights into tolerance and resistance in Saccharomyces cerevisiae and Candida albicans by Lijun Zheng, Yubo Dong, Jing Wang, Yonghui Jia, Weifang Wang, Yi Xu, Yi Xu, Liangsheng Guo

“…Chemical induction of petite formation led to an increase in resistance accompanied by a decrease in tolerance.ConclusionTranscriptome analysis indicated that petites up-regulated efflux mechanisms while down-regulating most ERG genes. …”
Get full text

Distinct transcriptional profiles of Leptospira borgpetersenii serovar Hardjo strains JB197 and HB203 cultured at different temperatures. by Ellie J Putz, Sathesh K Sivasankaran, Luis G V Fernandes, Brian Brunelle, John D Lippolis, David P Alt, Darrell O Bayles, Richard L Hornsby, Jarlath E Nally

“…Comparison of JB197 cultured at 29°C and 37°C identified 135 DE genes while 41 genes were DE in HB203 with those same culture conditions. …”
Get full text

Fibro-adipogenic progenitor cells in skeletal muscle unloading: metabolic and functional impairments by Margarita Sorokina, Danila Bobkov, Natalia Khromova, Natalia Vilchinskaya, Boris Shenkman, Anna Kostareva, Renata Dmitrieva

“…Furthermore, C2C12 cultures treated with medium conditioned by FAPs showed diverse alterations: while the HS7 FAPs-derived paracrine factors supported the myoblasts fusion, the HS14-derived medium stimulated proliferation of C2C12 myoblasts; these observations were supported by increased expression of cytokines detected by transcriptome analysis. …”
Get full text

Upregulation of IL-12 Signaling Genes Mediated by STAT4 Predicts a Complete Clinical Response in Patients with Squamous Cell Carcinoma of the Esophagus who Undergo Concurrent Chemo... by Nattida Sapsamarn, Asada Methasate, Pariyada Tanjak, Thanawat Suwatthanarak, Onchira Acharayothin, Kullanist Thanormjit, Jirawat Swangsri, Thammawat Parakonthun, Tetsuya Taga, Vitoon Chinswangwatanakul

“…Results: Of the 36 patients, 20 achieved cCR, while 16 had nonc-CR. Significant differences in immune transcriptomes were observed, particularly in IL-12 signaling mediated by STAT4. …”
Get full text

Overexpression of MMP14 is associated with poor prognosis and immune cell infiltration in colon cancer by Na Li, Nan Zhang, Guanghui Wang

“…Single-cell transcriptome data were analyzed to explore MMP14 expression and immune microenvironment changes. mRNA expression profiles and clinical data were retrieved from public databases (TCGA and GEO). …”
Get full text

Exploring the longitudinal expression dynamics of midguts in adult female Amblyomma americanum ticks by Stephen Lu, Lucas C. de Sousa-Paula, Jose M. C. Ribeiro, Lucas Tirloni

“…Despite this, our overall understanding of tick midgut biology is limited. Results Our transcriptome analysis identified 15,599 putative DNA coding sequences (CDS), which were classified into 26 functional groups. …”
Get full text

The Lyme disease bacterium, Borrelia burgdorferi, stimulates an inflammatory response in human choroid plexus epithelial cells. by Derick Thompson, Jordyn Sorenson, Jacob Greenmyer, Catherine A Brissette, John A Watt

“…Secreted proteins in the supernatant were analyzed via ELISA. Transcriptome analysis based on RNA sequencing determined a total of 160 upregulated genes and 98 downregulated genes. …”
Get full text

The Cold Atmospheric Plasma Inhibits Cancer Proliferation Through Reducing Glutathione Synthesis by Qiyu Yang, Wei Zhao, Lingling Yang, Yongqin Fan, Changsheng Shao, Tao Wang, Fengqiu Zhang

“…While based on in vitro assays, these findings guide the development of novel CAP therapies for currently incurable cancers.…”
Get full text

Knockdown of human-specific lncRNA MEK6-AS1 improves osteogenic differentiation of senescent mesenchymal stem cells by CHEN Yunhua, LI Di, ZHAO Xiaoyan, CHEN Ming, LI Hongling, ZHAO Chunhua

“…Results With aging process, the osteogenic differentiation ability of hMSCs decreased significantly while the expression level of MEK6-AS1 was enhanced(P＜0.000 1). …”
Get full text

Lactylation Modification as a Promoter of Bladder Cancer: Insights from Multi-Omics Analysis by Yipeng He, Lingyan Xiang, Jingping Yuan, Honglin Yan

“…The high-risk group was more sensitive to most first-line chemotherapy drugs, while the low-risk group had a better response to immunotherapy. …”
Get full text

Gene ontology defines pre-post- hatch energy dynamics in the complexus muscle of broiler chickens by Jonathan Dayan, Zehava Uni

“…The study provides a bioenergetic and transcriptomic analyses during the pre-post-hatching period. …”
Get full text

Integrative omics analysis reveals the genetic basis of fatty acid composition in Brassica napus seeds by Yuting Zhang, Yunhao Liu, Zhanxiang Zong, Liang Guo, Wenhao Shen, Hu Zhao

“…Experimental validation reveals that four genes (BnaA09.PYRD, BnaA08.PSK1, BnaA08.SWI3, and BnaC02.LTP15) positively modulate oleic acid content while negatively impact erucic acid content. Comparative analysis of transcriptome profiles suggests that BnaA09.PYRD may influence fatty acid composition by regulating energy metabolism during seed development. …”
Get full text