Journal articles on the topic 'Bioinformatic package'
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Theil, Sebastien, and Etienne Rifa. "rANOMALY: AmplicoN wOrkflow for Microbial community AnaLYsis." F1000Research 10 (January 7, 2021): 7. http://dx.doi.org/10.12688/f1000research.27268.1.
Full textLove, Michael I., Charlotte Soneson, and Rob Patro. "Swimming downstream: statistical analysis of differential transcript usage following Salmon quantification." F1000Research 7 (June 27, 2018): 952. http://dx.doi.org/10.12688/f1000research.15398.1.
Full textLove, Michael I., Charlotte Soneson, and Rob Patro. "Swimming downstream: statistical analysis of differential transcript usage following Salmon quantification." F1000Research 7 (September 14, 2018): 952. http://dx.doi.org/10.12688/f1000research.15398.2.
Full textLove, Michael I., Charlotte Soneson, and Rob Patro. "Swimming downstream: statistical analysis of differential transcript usage following Salmon quantification." F1000Research 7 (October 1, 2018): 952. http://dx.doi.org/10.12688/f1000research.15398.3.
Full textLi, Xiaoying, Xin Lin, Huiling Ren, and Jinjing Guo. "Ontological Organization and Bioinformatic Analysis of Adverse Drug Reactions From Package Inserts: Development and Usability Study." Journal of Medical Internet Research 22, no. 7 (July 20, 2020): e20443. http://dx.doi.org/10.2196/20443.
Full textZhbannikov, Ilya Y., Konstantin Arbeev, Svetlana Ukraintseva, and Anatoliy I. Yashin. "haploR: an R package for querying web-based annotation tools." F1000Research 6 (May 15, 2017): 97. http://dx.doi.org/10.12688/f1000research.10742.2.
Full textZhbannikov, Ilya Y., Konstantin Arbeev, and Anatoliy I. Yashin. "haploR: an R-package for querying web-based annotation tools." F1000Research 6 (February 1, 2017): 97. http://dx.doi.org/10.12688/f1000research.10742.1.
Full textRinchai, Darawan, Jessica Roelands, Mohammed Toufiq, Wouter Hendrickx, Matthew C. Altman, Davide Bedognetti, and Damien Chaussabel. "BloodGen3Module: blood transcriptional module repertoire analysis and visualization using R." Bioinformatics 37, no. 16 (February 24, 2021): 2382–89. http://dx.doi.org/10.1093/bioinformatics/btab121.
Full textFasterius, Erik, and Cristina Al-Khalili Szigyarto. "seqCAT: a Bioconductor R-package for variant analysis of high throughput sequencing data." F1000Research 7 (August 12, 2019): 1466. http://dx.doi.org/10.12688/f1000research.16083.2.
Full textDai, Fangfang, Jinglin Wu, Zhimin Deng, Hengxing Li, Wei Tan, Mengqin Yuan, Dongyong Yang, et al. "Integrated Bioinformatic Analysis of DNA Methylation and Immune Infiltration in Endometrial Cancer." BioMed Research International 2022 (June 20, 2022): 1–13. http://dx.doi.org/10.1155/2022/5119411.
Full textHillje, Roman, Pier Giuseppe Pelicci, and Lucilla Luzi. "Cerebro: interactive visualization of scRNA-seq data." Bioinformatics 36, no. 7 (November 25, 2019): 2311–13. http://dx.doi.org/10.1093/bioinformatics/btz877.
Full textGruenstaeudl, Michael. "annonex2embl: automatic preparation of annotated DNA sequences for bulk submissions to ENA." Bioinformatics 36, no. 12 (March 30, 2020): 3841–48. http://dx.doi.org/10.1093/bioinformatics/btaa209.
Full textFasterius, Erik, and Cristina Al-Khalili Szigyarto. "seqCAT: a Bioconductor R-package for variant analysis of high throughput sequencing data." F1000Research 7 (September 14, 2018): 1466. http://dx.doi.org/10.12688/f1000research.16083.1.
Full textJiang, Zhen-yu, Yi Zhou, Lu Zhou, Shao-wei Li, and Bang-mao Wang. "Identification of Key Genes and Immune Infiltrate in Nonalcoholic Steatohepatitis: A Bioinformatic Analysis." BioMed Research International 2021 (September 11, 2021): 1–15. http://dx.doi.org/10.1155/2021/7561645.
Full textStubbs, Benjamin J., Shweta Gopaulakrishnan, Kimberly Glass, Nathalie Pochet, Celine Everaert, Benjamin Raby, and Vincent Carey. "TFutils: Data structures for transcription factor bioinformatics." F1000Research 8 (February 5, 2019): 152. http://dx.doi.org/10.12688/f1000research.17976.1.
Full textStubbs, Benjamin J., Shweta Gopaulakrishnan, Kimberly Glass, Nathalie Pochet, Celine Everaert, Benjamin Raby, and Vincent Carey. "TFutils: Data structures for transcription factor bioinformatics." F1000Research 8 (May 17, 2019): 152. http://dx.doi.org/10.12688/f1000research.17976.2.
Full textFancello, Laura, Alessandro Guida, Gianmaria Frige, Arnaud Gerard Michel Ceol, Gabriele Babini, Giovanni Luca Scaglione, Mario Zanfardino, et al. "TMBleR: a bioinformatic tool to optimize TMB estimation and predictive power." Bioinformatics 38, no. 6 (December 20, 2021): 1724–26. http://dx.doi.org/10.1093/bioinformatics/btab836.
Full textRosolowski, M., H. Berger, C. Schwaenen, S. Wessendorf, M. Loeffler, D. Hasenclever, and M. Kreuz. "Development and Implementation of an Analysis Tool for Array-based Comparative Genomic Hybridization." Methods of Information in Medicine 46, no. 05 (2007): 608–13. http://dx.doi.org/10.1160/me9064.
Full textEriksson, Pontus, Nour-al-dain Marzouka, Gottfrid Sjödahl, Carina Bernardo, Fredrik Liedberg, and Mattias Höglund. "A comparison of rule-based and centroid single-sample multiclass predictors for transcriptomic classification." Bioinformatics 38, no. 4 (November 12, 2021): 1022–29. http://dx.doi.org/10.1093/bioinformatics/btab763.
Full textMora-Márquez, Fernando, José Luis Vázquez-Poletti, and Unai López de Heredia. "NGScloud2: optimized bioinformatic analysis using Amazon Web Services." PeerJ 9 (April 16, 2021): e11237. http://dx.doi.org/10.7717/peerj.11237.
Full textWang, Yi, Huan Luo, Jing Cao, and Chao Ma. "Bioinformatic Identification of Neuroblastoma Microenvironment-Associated Biomarkers with Prognostic Value." Journal of Oncology 2020 (September 10, 2020): 1–13. http://dx.doi.org/10.1155/2020/5943014.
Full textMacrander, Jason, Jyothirmayi Panda, Daniel Janies, Marymegan Daly, and Adam M. Reitzel. "Venomix: a simple bioinformatic pipeline for identifying and characterizing toxin gene candidates from transcriptomic data." PeerJ 6 (July 31, 2018): e5361. http://dx.doi.org/10.7717/peerj.5361.
Full textZhu, Zhengya, Zhongyuan He, Tao Tang, Fuan Wang, Hongkun Chen, Baoliang Li, Guoliang Chen, et al. "Integrative Bioinformatics Analysis Revealed Mitochondrial Dysfunction-Related Genes Underlying Intervertebral Disc Degeneration." Oxidative Medicine and Cellular Longevity 2022 (October 11, 2022): 1–35. http://dx.doi.org/10.1155/2022/1372483.
Full textKotlyarov, Stanislav, and Anna Kotlyarova. "Bioinformatic Analysis of ABCA1 Gene Expression in Smoking and Chronic Obstructive Pulmonary Disease." Membranes 11, no. 9 (August 31, 2021): 674. http://dx.doi.org/10.3390/membranes11090674.
Full textWang, C., S. X. Zhang, S. Song, J. Qiao, R. Zhao, M. J. Chang, Y. Zhang, G. Y. Liu, P. F. He, and X. Li. "POS0743 GENE EXPRESSION MICROARRAY IN LUPUS NEPHRITIS BY BIOINFORMATIC ANALYSIS." Annals of the Rheumatic Diseases 80, Suppl 1 (May 19, 2021): 623.1–623. http://dx.doi.org/10.1136/annrheumdis-2021-eular.2062.
Full textLi, Yan-zhen, Hao-jie Xu, Jia-min Hu, Shi-zhu Lin, Na Zhang, Hong-da Cai, Kai Zeng, et al. "Bioinformatic Analysis of Gene Expression Profile in Plasma of Hypertensive Patients." American Journal of Hypertension 33, no. 6 (May 21, 2020): 581. http://dx.doi.org/10.1093/ajh/hpaa040.
Full textXie, Liangzhen, GuanShen Huang, Mingjian Gao, Jianming Huang, Hai Li, Hao Xia, Xiuting Xiang, Saizhu Wu, and Yunjun Ruan. "Identification of Atrial Fibrillation-Related lncRNA Based on Bioinformatic Analysis." Disease Markers 2022 (February 4, 2022): 1–11. http://dx.doi.org/10.1155/2022/8307975.
Full textSong, Chao, Shixiong Wei, Yunlong Fan, and Shengli Jiang. "Bioinformatic-based Identification of Genes Associated with Aortic Valve Stenosis." Heart Surgery Forum 25, no. 1 (January 24, 2022): E069—E078. http://dx.doi.org/10.1532/hsf.4263.
Full textKotlyarov, Stanislav, and Anna Kotlyarova. "Analysis of ABC Transporter Gene Expression in Atherosclerosis." Cardiogenetics 11, no. 4 (November 4, 2021): 204–20. http://dx.doi.org/10.3390/cardiogenetics11040021.
Full textUrrutia, Eugene, Li Chen, Haibo Zhou, and Yuchao Jiang. "Destin: toolkit for single-cell analysis of chromatin accessibility." Bioinformatics 35, no. 19 (March 1, 2019): 3818–20. http://dx.doi.org/10.1093/bioinformatics/btz141.
Full textShan, Qingqing, Yifan Zhang, Xu Zhang, Wei Wang, and Zongan Liang. "The Effect of Coumestrol on Hub Genes in Lung Squamous Cell Carcinoma Based on Bioinformatic Strategy." Natural Product Communications 17, no. 10 (October 2022): 1934578X2211279. http://dx.doi.org/10.1177/1934578x221127960.
Full textJia, Yanfei, Wentao Wu, Youchao Xiao, Kefan Cai, Songbai Gui, Qiang Li, and Tian Li. "Integrin α6 Indicates a Poor Prognosis of Craniopharyngioma through Bioinformatic Analysis and Experimental Validation." Journal of Oncology 2022 (October 11, 2022): 1–11. http://dx.doi.org/10.1155/2022/6891655.
Full textKancherla, Jayaram, Alexander Zhang, Brian Gottfried, and Hector Corrada Bravo. "Epiviz Web Components: reusable and extensible component library to visualize functional genomic datasets." F1000Research 7 (July 17, 2018): 1096. http://dx.doi.org/10.12688/f1000research.15433.1.
Full textWei, Rui-Qi, Wen-Mei Zhang, Zhe Liang, Chunmei Piao, and Guangfa Zhu. "Identification of Signal Pathways and Hub Genes of Pulmonary Arterial Hypertension by Bioinformatic Analysis." Canadian Respiratory Journal 2022 (August 29, 2022): 1–12. http://dx.doi.org/10.1155/2022/1394088.
Full textLiu, Zhendong, Ruotian Zhang, Zhenying Sun, Jiawei Yao, Penglei Yao, Xin Chen, Xinzhuang Wang, et al. "Identification of hub genes and small-molecule compounds in medulloblastoma by integrated bioinformatic analyses." PeerJ 8 (April 14, 2020): e8670. http://dx.doi.org/10.7717/peerj.8670.
Full textDong, Shu, Zhimin Ding, Hao Zhang, and Qiwen Chen. "Identification of Prognostic Biomarkers and Drugs Targeting Them in Colon Adenocarcinoma: A Bioinformatic Analysis." Integrative Cancer Therapies 18 (January 2019): 153473541986443. http://dx.doi.org/10.1177/1534735419864434.
Full textWen, Zhifeng, Fangxi Liu, Xinyu Lin, Shanshan Zhong, Xiuchun Zhang, Zhike Zhou, Jukka Jolkkonen, Chang Liu, and Chuansheng Zhao. "Prognostic Signature for Human Umbilical Cord Mesenchymal Stem Cell Treatment of Ischemic Cerebral Infarction by Integrated Bioinformatic Analysis." BioMed Research International 2022 (December 13, 2022): 1–11. http://dx.doi.org/10.1155/2022/9973232.
Full textLi, Wei Vivian, and Jingyi Jessica Li. "A statistical simulator scDesign for rational scRNA-seq experimental design." Bioinformatics 35, no. 14 (July 2019): i41—i50. http://dx.doi.org/10.1093/bioinformatics/btz321.
Full textXiang, Mengmeng, Qian Chen, Yang Feng, Yilun Wang, Jie Wang, Jun Liang, and Jinhua Xu. "Bioinformatic analysis of key biomarkers and immune filtration of skin biopsy in discoid lupus erythematosus." Lupus 30, no. 5 (February 2, 2021): 807–17. http://dx.doi.org/10.1177/0961203321992434.
Full textChen, Dongdong, Zhijun Feng, Mingzhen Zhou, Zhijian Ren, Fan Zhang, and Yumin Li. "Bioinformatic Evidence Reveals that Cell Cycle Correlated Genes Drive the Communication between Tumor Cells and the Tumor Microenvironment and Impact the Outcomes of Hepatocellular Carcinoma." BioMed Research International 2021 (October 26, 2021): 1–25. http://dx.doi.org/10.1155/2021/4092635.
Full textYi, Jing, Zhili Wen, and Youwen Hu. "Bioinformatic Deconstruction of Differentially Expressed Sequence Tags in Hepatocellular Carcinoma Based on Artificial Neural Network." Contrast Media & Molecular Imaging 2022 (October 10, 2022): 1–12. http://dx.doi.org/10.1155/2022/6716324.
Full textZhang, Fengjun, Cheng Yu, Wenchang Xu, Xiao Li, Junchen Feng, Hongshuo Shi, Jingrong Yang, et al. "Identification of critical genes and molecular pathways in COVID-19 myocarditis and constructing gene regulatory networks by bioinformatic analysis." PLOS ONE 17, no. 6 (June 24, 2022): e0269386. http://dx.doi.org/10.1371/journal.pone.0269386.
Full textSalihov, Sergey, Dmitriy Maltsov, Maria Samsonova, and Konstantin Kozlov. "Solution of Mixed-Integer Optimization Problems in Bioinformatics with Differential Evolution Method." Mathematics 9, no. 24 (December 20, 2021): 3329. http://dx.doi.org/10.3390/math9243329.
Full textWang, Qi, Xufeng Huang, Shujing Zhou, Yuntao Ding, Huizhi Wang, Weiye Jiang, and Min Xu. "IL1RN and PRRX1 as a Prognostic Biomarker Correlated with Immune Infiltrates in Colorectal Cancer: Evidence from Bioinformatic Analysis." International Journal of Genomics 2022 (November 29, 2022): 1–24. http://dx.doi.org/10.1155/2022/2723264.
Full textZhang, Xiuzhi, Chunyan Kang, Ningning Li, Xiaoli Liu, Jinzhong Zhang, Fenglan Gao, and Liping Dai. "Identification of special key genes for alcohol-related hepatocellular carcinoma through bioinformatic analysis." PeerJ 7 (February 6, 2019): e6375. http://dx.doi.org/10.7717/peerj.6375.
Full textDanger, Richard, Quentin Moiteaux, Yodit Feseha, Estelle Geffard, Gérard Ramstein, and Sophie Brouard. "FaDA: A web application for regular laboratory data analyses." PLOS ONE 16, no. 12 (December 20, 2021): e0261083. http://dx.doi.org/10.1371/journal.pone.0261083.
Full textCastellano-Escuder, Pol, Raúl González-Domínguez, Francesc Carmona-Pontaque, Cristina Andrés-Lacueva, and Alex Sánchez-Pla. "POMAShiny: A user-friendly web-based workflow for metabolomics and proteomics data analysis." PLOS Computational Biology 17, no. 7 (July 1, 2021): e1009148. http://dx.doi.org/10.1371/journal.pcbi.1009148.
Full textMarchand-Austin, Alex, Raymond S. W. Tsang, Jennifer L. Guthrie, Jennifer H. Ma, Gillian H. Lim, Natasha S. Crowcroft, Shelley L. Deeks, David J. Farrell, and Frances B. Jamieson. "Short-Read Whole-Genome Sequencing for Laboratory-Based Surveillance of Bordetella pertussis." Journal of Clinical Microbiology 55, no. 5 (February 22, 2017): 1446–53. http://dx.doi.org/10.1128/jcm.02436-16.
Full textOlson, Nathan D., Nidhi Shah, Jayaram Kancherla, Justin Wagner, Joseph N. Paulson, and Hector Corrada Bravo. "metagenomeFeatures: an R package for working with 16S rRNA reference databases and marker-gene survey feature data." Bioinformatics 35, no. 19 (March 1, 2019): 3870–72. http://dx.doi.org/10.1093/bioinformatics/btz136.
Full textHasan, Fuad, Armyn Hakim Daulay, Ferdy Saputra, and Isyana Khaerunnisa. "Indonesian River Buffalo Molecular Phylogeny Compared to Other Mammals Based on STAT1 Sequence." Jurnal Agripet 22, no. 1 (April 1, 2022): 57–61. http://dx.doi.org/10.17969/agripet.v22i1.20889.
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