Integrated transcriptomic and metabolomic analyses reveal the molecular mechanism of flower color differentiation in Orychophragmus violaceus by Yubin Shi, Zixuan Wang, Zhuangzhuang Yan, Jianfeng Liu, Jun Zhang, Guixia Liu

“…Subsequent transcriptomic analysis revealed 5,918 differentially expressed genes among the three groups of flowers, 87 of which encoded 13 key enzymes in the anthocyanin biosynthetic pathway. …”
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Metagenomic analysis revealing links between age, gut microbiota and bone loss in Chinese adults by Yufeng Li, Zhun Shi, Xiuying Zhang, Huahui Ren, Hongyi Ji, Fangming Yang, Zuodi Fu, Xiangshuang Kong, Xiaoguang Cheng, Junhua Li, Kui Wu, Yiyi Zhong, Huanzi Zhong, Linong Ji

“…We employed quantitative computed tomography to measure lumbar bone mass density (BMD) and analyzed shotgun metagenomic data in 684 Chinese adults. Our analyses revealed significant positive associations between BMD and abundances of multiple Lachnospiraceae species, including Lachnospira eligens, Blautia wexlerae, and Roseburia hominis, as well as pathways involved in L-arginine biosynthesis and butyrate production—independent of age, diet habits, and lifestyles. …”
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Comprehensive multi-omics analysis reveals the prognostic and immune regulatory characteristics of the PTPN family in osteosarcoma by Changhai Long, Biao Ma, Xingshun Zhong, Mingzhi Zou, Kai Li, Sijing Liu

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Multi-omics and experimental validation studies reveal key biomarkers of cellular senescence in diabetic retinopathy by Jinju Li, Hao Yang, Yixuan Lin, Zhaohui Fang

“…Further analysis using machine learning, expression analysis, and Receiver Operating Characteristic (ROC) analysis revealed MYC and LOX as key biomarkers of DR-CS. The expression characteristics of MYC and LOX in various cells were examined using single-cell RNA sequencing. …”
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Structure of MltG from Mycobacterium abscessus reveals structural plasticity between composed domains by Gwan Hee Lee, Subin Kim, Do Yeon Kim, Ju Hee Han, So Yeon Lee, Jun Hyuck Lee, Chang Sup Lee, Hyun Ho Park

“…Our structural and biochemical analyses revealed that MltG has a flexible peptidoglycan-binding domain and exists as a monomer in solution. …”
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New imaging tools reveal live cellular collagen secretion, fibril dynamics and network organisation by Olivia Kent, Eleanor R. Casey, Max Brown, Steven Bell, Matthew C. Ehrman, Michael J. Flagler, Arto Määttä, Adam M. Benham, Timothy J. Hawkins

“…To understand the dynamics of live cell collagen deposition and fibril organisation, we generated a bright photostable mNGCol1α2 fusion protein and employed a range of microscopy techniques to follow its intracellular transport and elucidate extracellular fibril formation. Our findings reveal the dynamics of fibril growth and the dynamic nature of collagen network interactions at the cellular level. …”
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Digoxin reveals a functional connection between HIV-1 integration preference and T-cell activation. by Alexander Zhyvoloup, Anat Melamed, Ian Anderson, Delphine Planas, Chen-Hsuin Lee, Janos Kriston-Vizi, Robin Ketteler, Andy Merritt, Jean-Pierre Routy, Petronela Ancuta, Charles R M Bangham, Ariberto Fassati

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Network pharmacology and molecular dynamics simulation reveal antineoplastic potential of Antarctic sponge-derived suberitenones by Prasenjit Bhowmik, Rahul Mallick, Asim K. Duttaroy

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Single-cell RNA sequencing reveals tumor heterogeneity in small cell neuroendocrine cervical carcinoma by Xuesong Xiang, Xiang Tao, Keqin Hua, Hua Jiang, Jingxin Ding

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Transcriptomic reveals key genes and regulatory pathways in galactomannan biosynthesis in Gleditsia sinensis polysaccharide gum by Yanyan Zhang, Tingting Yang, Xiangpei Wang, Feng Xu, Linlin Du, Hongmei Wu

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Revealing students' numeracy ability: A case study on word problems in junior high school by E. Epran, Jarnawi Afghani Dahlan, Yaya Sukjaya Kusumah

“…Data collection techniques included a numeracy test to measure students' ability to solve mathematical word problems and interviews to validate the test results and further investigate students' thought processes. The findings revealed a variation in students' numeracy ability. …”
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eDNA Metabarcoding Reveals Homogenization of Fish in Fujiang Segments Isolated by Cascading Hydroelectric Stations by Chao Deng, Shixia Huang, Bolin Chen, Rong Huang, Jiaqi Zhang, Zhihui Xiao, Chengcheng Ma, Zhijian Wang, Xiaohong Liu

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Comprehensive Multiomic Analysis Reveals Metabolic Reprogramming Underlying Human Fontan‐Associated Liver Disease by Rasheed Sule, Po Hu, Clarissa Shoffler, Christopher Petucci, Benjamin J. Wilkins, Jack Rychik, Liming Pei

“…We aimed to present a comprehensive multiomic analysis of human FALD, revealing the fundamental biology and pathogenesis of FALD. …”
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Single-cell transcriptomics reveals metabolic remodeling and functional specialization in the immune microenvironment of bone tumors by Jun Chen, Na Cui, Shao-Hui He, Chun-Yan Xia, Wei-Qing Li

“…Intercellular signaling analysis revealed FN1 as a central regulator of immune coordination, governing cell adhesion, migration, and homeostasis within the TME. …”
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Comparative Genomics Analyses Reveal Extensive Chromosome Colinearity and Novel Quantitative Trait Loci in Eucalyptus. by Fagen Li, Changpin Zhou, Qijie Weng, Mei Li, Xiaoli Yu, Yong Guo, Yu Wang, Xiaohong Zhang, Siming Gan

“…Fifty-three QTLs for growth (10-56 months of age) and wood density (56 months) were identified in 22 discrete regions on both maps, in which only one colocalizaiton was found between growth and wood density. Novel QTLs were revealed as compared with those previously detected on DArT-based maps for similar ages in Eucalyptus. …”
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Live imaging of cysteine-cathepsin activity reveals dynamics of focal inflammation, angiogenesis, and polyp growth. by Elias Gounaris, Ching H Tung, Clifford Restaino, René Maehr, Rainer Kohler, Johanna A Joyce, Hidde L Ploegh, Terrence A Barrett, Ralph Weissleder, Khashayarsha Khazaie

“…Thus, in vivo NIR imaging of focal cathepsin activity reveals inflammatory reactions etiologically linked with cancer progression and is a suitable approach for monitoring response to therapy.…”
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Genomic re-sequencing reveals mutational divergence across genetically engineered strains of model archaea by Andrew L. Soborowski, Rylee K. Hackley, Sungmin Hwang, Guangyin Zhou, Keely A. Dulmage, Peter Schönheit, Charles Daniels, Alexandre W. Bisson-Filho, Anita Marchfelder, Julie A. Maupin-Furlow, Thorsten Allers, Amy K. Schmid

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Integrative Omics reveals changes in the cellular landscape of peroxisome-deficient pex3 yeast cells by Tjasa Kosir, Hirak Das, Marc Pilegaard Pedersen, Ann-Kathrin Richard, Marco Anteghini, Vitor Martins dos Santos, Silke Oeljeklaus, Ida J van der Klei, Bettina Warscheid

“…Our integrative omics analysis reveals that the absence of peroxisomes induces distinct responses at the level of the transcriptome and proteome. …”
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Activity-based protein profiling reveals both canonical and novel ubiquitin pathway enzymes in Plasmodium. by Cameron Smith, Mohsen Hajisadeghian, Gerbrand J van der Heden van Noort, Michael J Deery, Adán Pinto-Fernández, Benedikt M Kessler, Katerina Artavanis-Tsakonas

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BASSA: New software tool reveals hidden details in visualisation of low‐frequency animal sounds by Benjamin A. Jancovich, Tracey L. Rogers

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