Titin gene mutations enhance radiotherapy efficacy via modulation of tumour immune microenvironment in rectum adenocarcinoma by Hengchang Liu, Jialiang Liu, Xu Guan, Zhixun Zhao, Pu Cheng, Haipeng Chen, Zheng Jiang, Xishan Wang

“…Methods Data on gene expression and mutations in READ were obtained from The Cancer Genome Atlas (TCGA) and International Cancer Genome Consortium (ICGC) databases. …”
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Global biogeography of N₂-fixing microbes: <i>nifH</i> amplicon database and analytics workflow by M. Morando, J. D. Magasin, S. Cheung, S. Cheung, M. M. Mills, J. P. Zehr, K. A. Turk-Kubo

“…For each sample, the database includes physical and chemical metadata obtained from the Simons Collaborative Marine Atlas Project (CMAP). Here we demonstrate the utility of this database for revealing global biogeographical patterns of prominent diazotroph groups and highlight the influence of sea surface temperature. …”
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Les eaux d’irrigation du Haouz de Marrakech : un siècle de confrontations des modèles de gestion publics, privés et communautaires by Thierry Ruf, Mina Kleiche-Dray

“…Dans le monde de l’irrigation, la région de Marrakech est connue pour l’ancienneté et la complexité de réseaux de canaux de surface, les seguias, alimentés par les oueds du Haut Atlas et de réseaux de galeries drainantes, les khettaras, qui ramènent en surface les eaux de la nappe phréatique. …”
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Spatially resolved transcriptomics reveals gene expression characteristics in uveal melanoma by Jing-Ying Xiu, Yu-Ning Chen, Ya-Li Mao, Jing-Ting Luo, Hao-Wen Li, Yang Li, Wen-Bin Wei

“…Differentially expressed genes (DEGs) and survival analysis based on datasets from The Cancer Genome Atlas (TCGA) and Gene Expression Omnibus (GEO) database further confirmed the correlation between cellular distribution and clinical prognosis. …”
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Dual Clinical Practice (DCP) policy to improve the retention of human resources for health in Rwanda: a mid-term review using a cross-sectional and retrospective study design by Kizito Kayumba, Corneille Ntihabose, Sabine Musange Furere, Bernard Ngabo, Piero Irakiza, Felix K. Rubuga, Nathalie Umutoni, Ina Rukundo Kalisa, Pascal Birindabagabo, Emile Rwamasirabo, Emmanuel Kayibanda, Patience Mukundirukuri, Gashaija Absolomon, Sumana Dhanani, Jeanine Condo

“…Qualitative data were analyzed using Atlas.ti software, while quantitative data were analyzed using Microsoft Excel. …”
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Fhl1, a new spatially specific protein, regulates vein graft neointimal hyperplasia by Chaoqun Wang, Jiantao Chen, Zicong Feng, Bohao Jian, Suiqing Huang, Kangni Feng, Haoliang Liu, Zhuoming Zhou, Ziyin Ye, Jing Lu, Mengya Liang, Zhongkai Wu

“…Key points This study firstly used spatial transcriptomics technique to analyse the neointima and generated a specific neointimal transcriptomic atlas. Fhl1 exhibits specific and stable expression in the spatial region of the neointima. …”
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Mechanism study of KCMF1 promoting proliferation and NF-κB signaling transduction in colorectal cancer cells by WU Zhibai, XU Guiqin, ZHANG Li, YANG Zhaojuan, LIU Yun, JIAO Kun, CHEN Zehong, XU Chen, ZUO You, ZHENG Ningqian, YE Zhiqian, LIU Yongzhong

“…Methods: The The Cancer Genome Atlas (TCGA) and Genotype-Tissue Expression (GTEx) databases were used to analyze the expression level of KCMF1 in CRC tissues and adjacent tissues and the association between the KCMF1 expression and the prognosis of CRC patients. …”
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Designing an entrepreneurial ecosystem model in a university with a knowledge-based approach by Nahid Mir, Amin Rahimi Kia, Mehry Daraei

“…Data analysis was done using ATLAS TI software in the qualitative part, and partial least squares method in the SPSS and PLS software in the quantitative part, and factor analysis method was also used in data analysis. …”
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Risk Communication and Community Engagement (RCCE) implementations to control cholera outbreak in Oromia region, Ethiopia by Dabesa Gobena, Esayas Kebede Gudina, Getahun Fetensa, Tizta Tilahun Degfie, Tessema Debela, Afework Tamiru, Zenebu Begna Bayissa, Dereje Diriba, Tarekegn Sarbessa, Daniel Bekele, Natinel Teferi, Achalu Layesa, Abate Zewdie, Dawit Worku Ayele, Meron Debebe Mersha, Chala Bafikadu, Senahara Korsa Wake, Lemi Abebe, Tesfaye Kebebew, Tefera Goshu, Birhanu Kenate, Yadeta Dessie, Zeleke Mekonnen

“…The quantitative data were analyzed using Stata, version 14.0, and ATLAS.ti9 software was used for qualitative data analysis. …”
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Upper Oligocene to Pleistocene planktonic foraminifera stratigraphy at North Atlantic DSDP Site 407, Reykjanes Ridge: diversity trends and biozonation using modern Neogene taxonomi... by T. M. Weitkamp, T. M. Weitkamp, M. J. Razmjooei, M. J. Razmjooei, P. N. Pearson, H. K. Coxall, H. K. Coxall

“…These findings are expected to contribute to the Neogene–Quaternary Middle Atlas of planktonic foraminifera and potentially improve the use of neogloboquadrinids in palaeoceanography and biostratigraphy.…”
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Système de production de fruits rouges dans la région de Souss-Massa au Maroc by Redouan Qessaoui, Salahddine Chafiki, Mohamed Alouani, Said Bahoch, Abdelhadi Ajerrar, Abdelghani Tahiri, Naima Ait Aabd, Ahmed Wifaya, Rachid Bouharroud

“…Les variétés de myrtilles les plus couramment cultivées comprennent Atlas, Dupree, Ventura, Jupiter, Sekoya et la prédominante Corrina (62 %). …”
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Comprehensive Cellular Senescence Evaluation to Aid Targeted Therapies by Xiaolan Zhou, Xiaofeng Zhu, Weixu Wang, Jing Wang, Haimei Wen, Yuqi Zhao, Jiayu Zhang, Qiushi Xu, Zhaozhao Zhao, Ting Ni

“…We quantified the cellular senescence states of ~10,000 tumor samples from The Cancer Genome Atlas and examined their associations with targeted drug responses. …”
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Genome sequences of four Ixodes species expands understanding of tick evolution by Alexandra Cerqueira de Araujo, Benjamin Noel, Anthony Bretaudeau, Karine Labadie, Matéo Boudet, Nachida Tadrent, Benjamin Istace, Salima Kritli, Corinne Cruaud, Robert Olaso, Jean-François Deleuze, Maarten J. Voordouw, Caroline Hervet, Olivier Plantard, Aya Zamoto-Niikura, Thomas Chertemps, Martine Maïbèche, Frédérique Hilliou, Gaëlle Le Goff, Jindřich Chmelař, Vilém Mazák, Mohamed Amine Jmel, Michalis Kotsyfakis, José María Medina, Michael Hackenberg, Ladislav Šimo, Fotini A. Koutroumpa, Patrick Wincker, Petr Kopáček, Jan Perner, Jean-Marc Aury, Claude Rispe

“…We have determined gene families that have undergone major amplifications during the evolution of ticks, while an expression atlas obtained for I. ricinus reveals striking patterns of specialization both between and within gene families. …”
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Barriers and Facilitators to Adherence to a Healthy Diet Across the Spectrum of Chronic Kidney Disease by Trigueros-Flores XB, Luna-Hernández G, Santos-Lopez MF, Pérez-Galván L, Flores-Camacho KJ, Díaz-Canchola LM, Cueto-Manzano AM, Chávez-Chávez HE, Cerrillos-Gutiérrez JI, Rojas-Campos E, Martín-del-Campo F

“…A second analysis was performed with the ATLAS.ti software.Results: Frequency of malnutrition was 50% in people receiving dialysis. …”
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Targeting NANOS1 in triple-negative breast cancer: synergistic effects of digoxin and PD-1 inhibitors in modulating the tumor immune microenvironment by Tangyi Wang, Yadian Lei, Jingwei Sun, Li Wang, Yuxin Lin, Zhijing Wu, Shoude Zhang, Chengzhu Cao, Chengzhu Cao, Chengzhu Cao, Haiyan Wang, Haiyan Wang, Haiyan Wang

“…Bioinformatics tools, including bc-GenExMiner v4.8, the Human Protein Atlas, and the TIMER database, were utilized for target identification. …”
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Association of genetic variations in the NOS1 gene with insomnia, sleep duration and obstructive sleep apnea-related clinical quantitative traits by YUAN Haolin, LI Niannian, HU Junhui, SHEN Jinhong, GAO Zhenfei, GUAN Jian, LIU Feng, YIN Shankai

“…Objective·To explore the correlation between the genetic variations rs7305526 and rs11615756 of nitric oxide synthase 1 (NOS1) and the human sleep traits, including insomnia, sleep duration, and clinical quantitative traits related to obstructive sleep apnea (OSA).Methods·The NOS1 gene expression pattern at the whole-brain level using the Allen Human Brain Atlas dataset was analyzed. Subsequently, we performed expression quantitative trait locus (eQTL) analysis to investigate the impact of rs7305526 and rs11615756 on NOS1 gene expression. …”
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Multiplex immunohistochemistry to explore the tumor immune microenvironment in HCC patients with different GPC3 expression by Mingzhen Zhou, Ziyan Zhou, Lina Hu, Sidong Chen, Fanyan Meng, Jun Chen, Jie Shen

“…Cell expression levels and spatial distribution were determined by fluorescence staining and subsequent analysis of fluorescence intensity using the Panoramic Pathology Workstation (Pano ATLAS). This approach facilitated a detailed examination of cell characteristics and spatial information within the samples. …”
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Mapping naturally presented T cell antigens in medulloblastoma based on integrative multi-omics by Julia Velz, Lena K. Freudenmann, Gioele Medici, Marissa Dubbelaar, Malte Mohme, David R. Ghasemi, Jonas Scheid, Daniel J. Kowalewski, Angelica B. Patterson, Anna M. Zeitlberger, Katrin Lamszus, Manfred Westphal, Matthias Eyrich, Martina Messing-Jünger, Andreas Röhrig, Harald Reinhard, Kévin Beccaria, Rogeiro B. Craveiro, Beat M. Frey, Martin Sill, Sven Nahnsen, Marie Gauder, Konstantina Kapolou, Manuela Silginer, Tobias Weiss, Hans-Georg Wirsching, Patrick Roth, Michael Grotzer, Niklaus Krayenbühl, Oliver Bozinov, Luca Regli, Hans-Georg Rammensee, Elisabeth J. Rushing, Felix Sahm, Juliane S. Walz, Michael Weller, Marian C. Neidert

“…Despite recent advances in integrated genomics, the prognosis in children with high-risk medulloblastoma remains devastating, and new tumor-specific therapeutic approaches are needed. Here, we present an atlas of naturally presented T cell antigens in medulloblastoma. …”
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Investigating POU3F4 in cancer: Expression patterns, prognostic implications, and functional roles in tumor immunity by Weiwei Chen, Yaya Ji, Rui Wang, Ruijie Ji, Yujian Lin, Yuhang Wu, Lehan Liu, Tianle Sha, Wen Li, Lei Zhang, Longfei Yang, Xinhua Zhang, Jianxiang Song

“…Based on data from The Cancer Genome Atlas (TCGA), Cancer Cell Line Encyclopedia (CCLE), Genotype-Tissue Expression (GTE), and Gene Set Cancer Analysis (GSCA), we employed various bioinformatics approaches to investigate the potential carcinogenic effects of POU3F4. …”
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An anoikis-related signature predicts prognosis and immunotherapy response in gastrointestinal cancers by Ruyi Liu, Ruyi Liu, Ruyi Liu, Ruyi Liu, Ruyi Liu, Yuchen Liu, Yuchen Liu, Yuchen Liu, Yuchen Liu, Yuchen Liu, Weicheng Huang, Weicheng Huang, Weicheng Huang, Weicheng Huang, Weicheng Huang, Pengxiang Chen, Pengxiang Chen, Pengxiang Chen, Pengxiang Chen, Pengxiang Chen, Yufeng Cheng, Yufeng Cheng, Yufeng Cheng, Yufeng Cheng, Yufeng Cheng

“…We aimed to explore the roles of anoikis-related genes (ARGs) in the GI cancer prognosis.MethodsWe extracted RNA sequencing and clinical data from The Cancer Genome Atlas and Gene Expression Omnibu databases for patients with esophageal cancer, gastric cancer, colon cancer and rectal cancer and identified ARGs from GeneCards and Harmonizome. …”
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