Immune inflammatory regulation in Anti-NMDAR encephalitis: insights from transcriptome analysis by Shan Qiao, Shan Qiao, Jia Wang, Shan-chao Zhang, Ai-hua Wang, Hai-yun Li, Tao Xin, Tao Xin

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Systematic identification of post-transcriptional regulatory modules by Matvei Khoroshkin, Andrey Buyan, Martin Dodel, Albertas Navickas, Johnny Yu, Fathima Trejo, Anthony Doty, Rithvik Baratam, Shaopu Zhou, Sean B. Lee, Tanvi Joshi, Kristle Garcia, Benedict Choi, Sohit Miglani, Vishvak Subramanyam, Hailey Modi, Christopher Carpenter, Daniel Markett, M. Ryan Corces, Faraz K. Mardakheh, Ivan V. Kulakovskiy, Hani Goodarzi

“…Abstract In our cells, a limited number of RNA binding proteins (RBPs) are responsible for all aspects of RNA metabolism across the entire transcriptome. …”
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Time‐series transcriptomics and proteomics reveal alternative modes to decode p53 oscillations by Alba Jiménez, Dan Lu, Marian Kalocsay, Matthew J Berberich, Petra Balbi, Ashwini Jambhekar, Galit Lahav

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Distinct platelet transcriptomic heterogeneity in respiratory illnesses and modulation by corticosteroids and immune antibody treatments by Wenjun Song, Kaifeng Jin, Qingqing Wang

“…Post-tocilizumab treatment, the instructive interaction from platelets to IFN-activated CD8+ T cells is reduced, while communications from memory B cells, CD4+ T cells, plasmacytoid dendritic cells, and natural killer cells to platelets are enhanced. …”
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Integrated analysis of transcriptome, small RNA, and degradome sequencing provides insights into mango anthracnose resistance by Zongling Liu, Qiufei Ouyang, Sangui Yi, Yuting Zhou, Xiaona Xie, Zhengjie Zhu

“…The transcriptome sequencing of 12 samples from a mango anthracnose resistant genotype under control and stress conditions on the 3rd and 5th day post inoculation identified 3,462 and 8,341 differentially expressed genes (DEGs), respectively, which were mainly involved in transcription factor activity, defense response, an obsolete oxidation − reduction process, and flavonoid biosynthetic processes. …”
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De novo transcriptome assembly and analysis during agarwood induction in Gyrinops versteegii Gilg. seedling by Dina Hermawaty, Titis Setyobudi, Husna Nugrahapraja, Maman Turjaman, Ahmad Faizal

“…On a molecular level, a de novo transcriptome reconstruction and analysis highlighted biological processes related to the plant-type hypersensitive response and DNA damage 2 days post-fungal inoculation. …”
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Transcriptome Insights into Resistance Mechanisms Against Soybean Mosaic Virus Strain SC4 in Soybean by Muhammad Muzzafar Raza, Huiying Jia, Shengyu Gu, Junyi Gai, Kai Li

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Transcriptomic Analyses Reveal Light-Induced Anthocyanin Accumulation in <i>Lycium ruthenicum</i> Murray by Shengrong Chen, Tao He, Wenyi Gu, Ruimin Li, Yinyan Qi

“…This study explores the molecular mechanisms that drive light-regulated anthocyanin accumulation in <i>L. ruthenicum</i> berries by conducting shading treatments and analyzing the transcriptomic data. Results indicated that shading from 5 to 25 days post-flowering greatly impedes the synthesis of anthocyanin, even if light exposure is increased afterward. …”
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A dataset of transcriptomic effects of camptothecin treatment on early zebrafish embryosGene Expression Omnibus by Sergey V. Prykhozhij, Kevin Ban, Zane L. Brown, Kim Kobar, Gabriel Wajnberg, Charlotte Fuller, Simi Chacko, Jacynthe Lacroix, Nicolas Crapoulet, Craig Midgen, Adam Shlien, David Malkin, Jason N. Berman

“…We treated wild-type and miR-34a deletion mutant zebrafish embryos at 24 h post-fertilization with 1 µM of the topoisomerase I inhibitor, camptothecin (CPT), for 4 h to catalogue gene expression changes induced by this DNA damage treatment and to understand if these changes are influenced by loss of miR-34a. …”
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Sequence-based analysis uncovers an abundance of non-coding RNA in the total transcriptome of Mycobacterium tuberculosis. by Kristine B Arnvig, Iñaki Comas, Nicholas R Thomson, Joanna Houghton, Helena I Boshoff, Nicholas J Croucher, Graham Rose, Timothy T Perkins, Julian Parkhill, Gordon Dougan, Douglas B Young

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The rat mammary gland undergoes dynamic transcriptomic and lipidomic modifications from pre-puberty to adulthood by David Tovar-Parra, Alec McDermott, Melany N. Juarez, Jysiane Cardot, Mame Sokhna Sylla, Line Berthiaume, Géraldine Delbès, Martin Pelletier, Étienne Audet-Walsh, Isabelle Plante

“…To address this gap, this study employed histology, lipidomic, and transcriptomic analyses to investigate molecular and cellular dynamics in the mammary gland during pre-puberty (Post Natal Day (PND21)), peri-puberty (PND46), and adulthood (PND90) in rats. …”
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Transcriptomics combined with physiological analysis provides insights into the mechanism of resistance to Coleosporium bletiae in Bletilla striata by Qiao Liu, Xi Lu, Qiaofen Wu, Zhibiao Lu, Renjun Qin, Kui Huang, Xun Zou, Ke Xia, Yanni Yang, Shuo Qiu

“…Integrated transcriptomic and physiological analyses revealed that the rust-resistant material of B. striata accessions exhibited faster and stronger defense responses to pathogen infection compared to susceptible plants. …”
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Temporal dynamics of the bat wing transcriptome: Insight into gene-expression changes that enable protection against pathogen by Aoqiang Li, Haixia Leng, Zhongle Li, Longru Jin, Keping Sun, Jiang Feng

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Unraveling dynamic transcriptomic changes in sheep's lactating mammary gland following Escherichia coli lipopolysaccharide exposure by R. Pelayo, B. Gutiérrez-Gil, H. Marina, P.A.S. Fonseca, M. Alonso-García, J.J. Arranz, A. Suárez-Vega

“…This study aimed to characterize the transcriptomic response of sheep mammary glands to an intramammary inflammation induced with an Escherichia coli LPS inoculation based on RNA-Seq samples generated from milk somatic cells collected at 3 time points: pre-inoculation (0 h), and 6 h and 24 h post-LPS inoculation. …”
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Transcriptome Analysis of Resistant and Susceptible Sorghum Lines to the Sorghum Aphid (<i>Melanaphis sacchari</i> (Zehntner)) by Minghui Guan, Junli Du, Jieqin Li, Tonghan Wang, Lu Sun, Yongfei Wang, Degong Wu

“…Moench) cultivars, revealing that HX133 significantly suppressed aphid proliferation through repellent and antibiotic effects, while aphid populations increased continuously in HX37. Transcriptome analysis identified 2802 differentially expressed genes (DEGs, 45.9% upregulated) in HX133 at 24 h post-infestation, in contrast with only 732 DEGs (21% upregulated) in HX37. …”
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Repair of Retrorsine-Induced DNA Damage in Rat Livers: Insights Gained from Transcriptomic and Proteomic Studies by Yun Long, Yiwei Wang, Zijing Song, Xin He, Yisheng He, Ge Lin

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Transcriptomics-based investigation of resistance differences to swine fever between large white pigs and min pigs by Jia Li, Deming Ren, Xiangxu Meng, Yiyun He, Lixian Wang, Xihui Sheng, Ligang Wang

“…In this study, whole blood samples were collected from pre- and post- swine fever vaccinated Min and Large White pigs for transcriptome sequencing. …”
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Microplastic and Copper Exposure Effects on Intestinal Gene Expression in Eriocheir sinensis: A Transcriptomics-Based Investigation by Jian XU, Guangpeng FENG, Yunzhi YAN, Jinhui CHEN, Jianhui WU, Zuchang YANG

“…Post-quality filtering yielded clean reads across the four groups, with 94.71%–95.48% Q30 scores. …”
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Transcriptome Analysis Reveals Key Pathways and Candidate Genes for Resistance to <i>Plasmodiophora brassicae</i> in Radish by Yinbo Ma, Xinyuan Li, Feng Cui, Qian Yu, Baoyang Liu, Xinyi Guo, Liwang Liu

“…RNA-Seq was performed at 10, 20, and 30 days post inoculation (DPI) to elucidate transcriptional responses. …”
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A combination of transcriptomics and epigenomics identifies genes and regulatory elements involved in embryonic tail development in the mouse by Yong-Xuan Chen, Xiu-Ping Zhang, David N. Cooper, Dong-Dong Wu, Wan-Dong Bao

“…Abstract Background The post-anal tail is a common physical feature of vertebrates including mammals. …”
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