Search Results - MACHINE learning

1

Academic Journal

Mitochondrial genome plasticity of mammalian species.

Authors: Biró, Bálint^1,2 (AUTHOR) biro.balint@uni-mate.hu, Gál, Zoltán¹ (AUTHOR), Fekete, Zsófia³ (AUTHOR), Klecska, Eszter⁴ (AUTHOR), Hoffmann, Orsolya Ivett¹ (AUTHOR) hoffmann.orsolya.ivett@uni-mate.hu

Superior Title: BMC Genomics. 3/14/2024, Vol. 25 Issue 1, p1-14. 14p.

Subject Terms: *MITOCHONDRIAL DNA, *MACHINE learning, *GENOMES

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2

Academic Journal

Multi-Omics integration can be used to rescue metabolic information for some of the dark region of the Pseudomonas putida proteome.

Authors: Tavis, Steven^1,2 (AUTHOR), Hettich, Robert L.² (AUTHOR) hettichrl@ornl.gov

Superior Title: BMC Genomics. 3/11/2024, Vol. 25 Issue 1, p1-15. 15p.

Subject Terms: *PSEUDOMONAS putida, *MACHINE learning, *MULTIOMICS, *MESSENGER RNA, *PROTEIN analysis, *PROTEIN expression

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3

Academic Journal

Bioinformatics analysis identifies a key gene HLA_DPA1 in severe influenza-associated immune infiltration.

Authors: Chen, Liang¹ (AUTHOR) Chenliang1995@sina.com, Hua, Jie² (AUTHOR), He, Xiaopu³ (AUTHOR)

Superior Title: BMC Genomics. 3/7/2024, Vol. 25 Issue 1, p1-12. 12p.

Subject Terms: *RECEIVER operating characteristic curves, *MACHINE learning, *POSITIVE pressure ventilation, *GENE expression, *GENE expression profiling

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4

Academic Journal

Glutamine metabolism-related genes and immunotherapy in nonspecific orbital inflammation were validated using bioinformatics and machine learning.

Authors: Wu, Zixuan¹ (AUTHOR), Li, Na² (AUTHOR), Gao, Yuan¹ (AUTHOR), Cao, Liyuan¹ (AUTHOR), Yao, Xiaolei³ (AUTHOR) yxlshh@126.com, Peng, Qinghua^1,3 (AUTHOR) pqh410007@126.com

Superior Title: BMC Genomics. 2/29/2024, Vol. 25 Issue 1, p1-16. 16p.

Subject Terms: *MACHINE learning, *METABOLIC reprogramming, *BIOINFORMATICS, *GENES, *INFLAMMATION, *GLUTAMINE

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5

Academic Journal

Unified mRNA Subcellular Localization Predictor based on machine learning techniques.

Authors: Musleh, Saleh¹ (AUTHOR), Arif, Muhammad¹ (AUTHOR), Alajez, Nehad M.^2,3 (AUTHOR), Alam, Tanvir¹ (AUTHOR) talam@hbku.edu.qa

Superior Title: BMC Genomics. 2/7/2024, Vol. 25 Issue 1, p1-18. 18p.

Subject Terms: *MACHINE learning, *MESSENGER RNA, *GENETIC regulation, *ENDOPLASMIC reticulum

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6

Academic Journal

A novel diabetic foot ulcer diagnostic model: identification and analysis of genes related to glutamine metabolism and immune infiltration.

Authors: Shi, Hongshuo¹ (AUTHOR), Yuan, Xin¹ (AUTHOR), Yang, Xiao¹ (AUTHOR), Huang, Renyan¹ (AUTHOR) drhuangrenyan@163.com, Fan, Weijing¹ (AUTHOR) fan18811023202@126.com, Liu, Guobin^1,2 (AUTHOR) 15800885533@163.com

Superior Title: BMC Genomics. 1/30/2024, Vol. 25 Issue 1, p1-15. 15p.

Subject Terms: *DIABETIC foot, *MACHINE learning, *GLUTAMINE, *MOLECULAR clusters, *GENE expression, *DIABETES complications, *IMMUNOCOMPUTERS, *IDENTIFICATION

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7

Academic Journal

Essential genes identification model based on sequence feature map and graph convolutional neural network.

Authors: Hu, Wenxing¹ (AUTHOR), Li, Mengshan¹ (AUTHOR) msli@gnnu.edu.cn, Xiao, Haiyang¹ (AUTHOR), Guan, Lixin¹ (AUTHOR)

Superior Title: BMC Genomics. 1/10/2024, Vol. 25 Issue 1, p1-14. 14p.

Subject Terms: *CONVOLUTIONAL neural networks, *MACHINE learning, *GENES, *FEATURE extraction, *ARTIFICIAL neural networks

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8

Academic Journal

A machine learning one-class logistic regression model to predict stemness for single cell transcriptomics and spatial omics.

Authors: Dezem, Felipe Segato^1,2,3 (AUTHOR), Marção, Maycon^2,3 (AUTHOR), Ben-Cheikh, Bassem⁴ (AUTHOR), Nikulina, Nadya⁴ (AUTHOR), Omotoso, Ayodele^5,6 (AUTHOR), Burnett, Destiny^5,6 (AUTHOR), Coelho, Priscila^5,6 (AUTHOR), Hurley, Judith^5,6 (AUTHOR), Gomez, Carmen^5,6 (AUTHOR), Phan-Everson, Tien⁷ (AUTHOR), Ong, Giang⁷ (AUTHOR), Martelotto, Luciano⁸ (AUTHOR), Lewis, Zachary R.⁷ (AUTHOR), George, Sophia^5,6 (AUTHOR), Braubach, Oliver⁴ (AUTHOR), Malta, Tathiane M.³ (AUTHOR), Plummer, Jasmine^1,2,9,10 (AUTHOR) jasmine.plummer@stjude.org

Superior Title: BMC Genomics. 11/28/2023, Vol. 24 Issue 1, p1-12. 12p.

Subject Terms: *MACHINE learning, *LOGISTIC regression analysis, *REGRESSION analysis, *CELL populations, *CELL analysis, *TUMOR microenvironment

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9

Academic Journal

Using published pathway figures in enrichment analysis and machine learning.

Authors: Shin, Min-Gyoung¹ (AUTHOR), Pico, Alexander R.¹ (AUTHOR) alex.pico@gladstone.ucsf.edu

Superior Title: BMC Genomics. 11/25/2023, Vol. 24 Issue 1, p1-13. 13p.

Subject Terms: *MACHINE learning, *DATABASES, *GENE ontology

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10

Academic Journal

Cellular clarity: a logistic regression approach to identify root epidermal regulators of iron deficiency response.

Authors: Schmittling, Selene R.¹ (AUTHOR), Muhammad, DurreShahwar² (AUTHOR), Haque, Samiul³ (AUTHOR), Long, Terri A.⁴ (AUTHOR), Williams, Cranos M.¹ (AUTHOR) cmwilli5@ncsu.edu

Superior Title: BMC Genomics. 10/18/2023, Vol. 24 Issue 1, p1-15. 15p.

Subject Terms: *MACHINE learning, *IRON deficiency, *LOGISTIC regression analysis, *IRON in the body, *GENE regulatory networks, *ROOT development

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11

Academic Journal

Harmonization of supervised machine learning practices for efficient source attribution of Listeria monocytogenes based on genomic data.

Authors: Castelli, Pierluigi¹ (AUTHOR), De Ruvo, Andrea¹ (AUTHOR), Bucciacchio, Andrea¹ (AUTHOR), D'Alterio, Nicola¹ (AUTHOR), Cammà, Cesare¹ (AUTHOR), Di Pasquale, Adriano¹ (AUTHOR), Radomski, Nicolas¹ (AUTHOR) n.radomski@izs.it

Superior Title: BMC Genomics. 9/22/2023, Vol. 24 Issue 1, p1-19. 19p.

Subject Terms: *SUPERVISED learning, *MACHINE learning, *COHEN'S kappa coefficient (Statistics), *RECEIVER operating characteristic curves, *LISTERIA monocytogenes

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12

Academic Journal

Network embedding framework for driver gene discovery by combining functional and structural information.

Authors: Chu, Xin¹ (AUTHOR), Guan, Boxin¹ (AUTHOR), Dai, Lingyun¹ (AUTHOR), Liu, Jin-xing¹ (AUTHOR), Li, Feng¹ (AUTHOR) lifeng_10_28@163.com, Shang, Junliang¹ (AUTHOR) jlshang@qfnu.edu.cn

Superior Title: BMC Genomics. 7/29/2023, Vol. 24 Issue 1, p1-13. 13p.

Subject Terms: *GENE regulatory networks, *MACHINE learning, *FEATURE selection, *CANCER genes, *GENES, *PROTEIN-protein interactions, *GENETIC mutation

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13

Academic Journal

Comparative genomic analysis of the human genome and six bat genomes using unsupervised machine learning: Mb-level CpG and TFBS islands.

Authors: Iwasaki, Yuki¹ (AUTHOR), Ikemura, Toshimichi¹ (AUTHOR) t_ikemura@nagahama-i-bio.ac.jp, Wada, Kennosuke¹ (AUTHOR), Wada, Yoshiko¹ (AUTHOR), Abe, Takashi² (AUTHOR) takaabe@ie.niigata-u.ac.jp

Superior Title: BMC Genomics. 7/8/2022, Vol. 23 Issue 1, p1-13. 13p.

Subject Terms: *GENOMICS, *MACHINE learning, *HUMAN genome, *CENTROMERE, *HUMAN chromosomes, *SELF-organizing maps

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14

Academic Journal

Machine learning assists prediction of genes responsible for plant specialized metabolite biosynthesis by integrating multi-omics data.

Authors: Bai, Wenhui^1,2 (AUTHOR), Li, Cheng² (AUTHOR), Li, Wei² (AUTHOR), Wang, Hai³ (AUTHOR), Han, Xiaohong¹ (AUTHOR) hanxiaohong@tyut.edu.cn, Wang, Peipei⁴ (AUTHOR) wangpeipei02@caas.cn, Wang, Li² (AUTHOR) wangli03@caas.cn

Superior Title: BMC Genomics. 4/29/2024, Vol. 25 Issue 1, p1-12. 12p.

Subject Terms: *PLANT genes, *MULTIOMICS, *MACHINE learning, *BIOSYNTHESIS, *PROTEOMICS, *TOMATOES

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15

Academic Journal

Predicting the targets of IRF8 and NFATc1 during osteoclast differentiation using the machine learning method framework cTAP.

Authors: Wang, Honglin¹ (AUTHOR) honglin.wang@uconn.edu, Joshi, Pujan¹ (AUTHOR), Hong, Seung-Hyun¹ (AUTHOR), Maye, Peter F.² (AUTHOR), Rowe, David W.³ (AUTHOR), Shin, Dong-Guk¹ (AUTHOR) dong.shin@uconn.edu

Superior Title: BMC Genomics. 1/7/2022, Vol. 23 Issue 1, p1-18. 18p.

Subject Terms: *MACHINE learning, *OSTEOCLASTS, *GENETIC regulation, *GENE expression, *BONE remodeling, *TRANSCRIPTION factors

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16

Academic Journal

Correction: Glutamine metabolism-related genes and immunotherapy in nonspecifc orbital infammation were validated using bioinformatics and machine learning.

Authors: Wu, Zixuan¹ (AUTHOR), Li, Na² (AUTHOR), Gao, Yuan¹ (AUTHOR), Cao, Liyuan¹ (AUTHOR), Yao, Xiaolei³ (AUTHOR) yxlshh@126.com, Peng, Qinghua^1,3 (AUTHOR) pqh410007@126.com

Superior Title: BMC Genomics. 2/29/2024, Vol. 25 Issue 1, p1-1. 1p.

Subject Terms: *MACHINE learning, *IMMUNOTHERAPY, *GENES, *BIOINFORMATICS, *GLUTAMINE

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17

Academic Journal

Generalizability of machine learning in predicting antimicrobial resistance in E. coli: a multi-country case study in Africa.

Authors: Nsubuga, Mike^1,2,3,4 (AUTHOR), Galiwango, Ronald^1,2 (AUTHOR), Jjingo, Daudi^2,5 (AUTHOR), Mboowa, Gerald^1,2,6 (AUTHOR) gmboowa@gmail.com

Superior Title: BMC Genomics. 3/18/2024, Vol. 25 Issue 1, p1-13. 13p.

Subject Terms: *ESCHERICHIA coli, *DRUG resistance in microorganisms, *MACHINE learning, *WHOLE genome sequencing, *SUPPORT vector machines

Geographic Terms: AFRICA

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18

Academic Journal

A semi-supervised approach for the integration of multi-omics data based on transformer multi-head self-attention mechanism and graph convolutional networks.

Authors: Wang, Jiahui¹ (AUTHOR), Liao, Nanqing² (AUTHOR), Du, Xiaofei¹ (AUTHOR), Chen, Qingfeng³ (AUTHOR) qingfeng@gxu.edu.cn, Wei, Bizhong¹ (AUTHOR) wbz@guet.edu.cn