Výsledky vyhledávání - Gene co-expression network inference algorithms

k- Strong Inference Algorithm: A Hybrid Information Theory Based Gene Network Inference Algorithm.

Autoři: Cingiz MÖ; Computer Engineering Department, Faculty of Engineering and Natural Sciences, Bursa Technical University, Mimar Sinan Campus, Yildirim, 16310, Bursa, Turkey. mustafa.cingiz@btu.edu.tr.

Zdroj: Molecular biotechnology [Mol Biotechnol] 2024 Nov; Vol. 66 (11), pp. 3213-3225. Date of Electronic Publication: 2023 Nov 11.

Způsob vydávání: Journal Article

Informace o časopise: Publisher: Springer Country of Publication: Switzerland NLM ID: 9423533 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1559-0305 (Electronic) Linking ISSN: 10736085 NLM ISO Abbreviation: Mol Biotechnol Subsets: MEDLINE

Výrazy ze slovníku MeSH: Algorithms* , Gene Regulatory Networks* , Saccharomyces cerevisiae*/genetics , Escherichia coli*/genetics, Information Theory ; Computational Biology/methods ; Gene Expression Profiling/methods ; Databases, Genetic ; Software

Seiðr: Efficient calculation of robust ensemble gene networks

Autoři: Schiffthaler, Bastian van Zalen, Elena Serrano, Alonso R. a další

Zdroj: Heliyon. 9(6)

Témata: Functional genomics, Gene co-expression network, Gene network inference, Gene regulatory network, Systems biology

Popis souboru: electronic

Přístupová URL adresa: https://urn.kb.se/resolve?urn=urn:nbn:se:umu:diva-209556
https://doi.org/10.1016/j.heliyon.2023.e16811

The Performance Comparison of Gene Co-expression Networks of Breast and Prostate Cancer using Different Selection Criteria

Autoři: Mustafa Özgür Cingiz Göksel Biricik Banu Diri

Zdroj: Interdisciplinary Sciences: Computational Life Sciences. 13:500-510

Témata: Gene Expression Regulation, Neoplastic, Male, 0301 basic medicine, 03 medical and health sciences, Patient Selection, 0206 medical engineering, Gene Expression, Humans, Prostatic Neoplasms, Gene Regulatory Networks, 02 engineering and technology, Algorithms, 3. Good health

Přístupová URL adresa: https://pubmed.ncbi.nlm.nih.gov/34003445
https://www.ncbi.nlm.nih.gov/pubmed/34003445
https://pubmed.ncbi.nlm.nih.gov/34003445/
https://avesis.yildiz.edu.tr/yayin/f8a44a3a-f94c-45ca-9c89-dfba6bf3f266/the-performance-comparison-of-gene-co-expression-networks-of-breast-and-prostate-cancer-using-different-selection-criteria
https://link.springer.com/article/10.1007/s12539-021-00440-9
https://europepmc.org/article/MED/34003445
https://avesis.yildiz.edu.tr/publication/details/f8a44a3a-f94c-45ca-9c89-dfba6bf3f266/oai

Augmenting the human interactome for disease prediction through gene networks inferred from human cell atlas.

Autoři: Sung, Euijeong Cha, Junha Baek, Seungbyn a další

Zdroj: Animal Cells & Systems; Dec2025, Vol. 29 Issue 1, p173-182, 10p

The inference of gene co-expression networks of breast and colon cancer using miRNA-target gene interactions data

Autoři: Cingiz, Mustafa Özgür DİRİ, Banu

Zdroj: 2017 25th Signal Processing and Communications Applications Conference (SIU). :1-4

Témata: 0301 basic medicine, 03 medical and health sciences, 0206 medical engineering, 02 engineering and technology, 3. Good health

Přístupová URL adresa: https://dblp.uni-trier.de/db/conf/siu/siu2017.html#CingizD17
https://ieeexplore.ieee.org/document/7960684/
https://avesis.yildiz.edu.tr/publication/details/6f31aa5a-52eb-4e93-ab55-e99a3d4a16d3/oai

Gene Regulatory Network Inference Using Convolutional Neural Networks from scRNA-seq Data.

Autoři: Mao, Guo Pang, Zhengbin Zuo, Ke a další

Zdroj: Journal of Computational Biology. May2023, Vol. 30 Issue 5, p619-631. 13p.

Témata: *GENE regulatory networks, *CONVOLUTIONAL neural networks, *STATISTICS, *GENE expression

lionessR: single sample network inference in R

Autoři: John Quackenbush Marieke L. Kuijjer Ping-Han Hsieh a další

Zdroj: BMC Cancer
BMC Cancer, Vol 19, Iss 1, Pp 1-6 (2019)

Témata: 0301 basic medicine, Biopsy, Bone Neoplasms, Computational biology, 03 medical and health sciences, Neoplasms, Humans, Software tools, Computer Simulation, Gene Regulatory Networks, Precision Medicine, RC254-282, Osteosarcoma, 0303 health sciences, Biological networks, Neoplasms. Tumors. Oncology. Including cancer and carcinogens, Computational Biology, Survival Analysis, Co-expression, 3. Good health, Network analysis, Transcriptome, Algorithms, Software

Přístupová URL adresa: https://bmccancer.biomedcentral.com/track/pdf/10.1186/s12885-019-6235-7
https://pubmed.ncbi.nlm.nih.gov/31653243
https://doaj.org/article/05a0ade7ed2e4bca9b5c60187ac657c1
https://pubmed.ncbi.nlm.nih.gov/31653243/
https://bmccancer.biomedcentral.com/articles/10.1186/s12885-019-6235-7
https://link.springer.com/content/pdf/10.1186/s12885-019-6235-7.pdf
https://link.springer.com/article/10.1186/s12885-019-6235-7
https://www.duo.uio.no/handle/10852/70705
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6815019
http://hdl.handle.net/10852/70705
https://doi.org/10.1186/s12885-019-6235-7

Unlocking hematopoietic stem cell potential: integrative computational approaches for genomic and transcriptomic analysis.

Autoři: Raghav, Pawan Kumar Banerjee, Basudha Chadha, Rajni

Zdroj: Frontiers in Cell & Developmental Biology; 2025, p1-13, 13p

Témata: HEMATOPOIETIC stem cells, COMPUTATIONAL biology, STEM cell treatment, RNA sequencing, BLOOD diseases, GENE regulatory networks, MACHINE learning

Improving network inference algorithms using resampling methods

Autoři: Sean M Colby Ryan S McClure Christopher C Overall a další

Zdroj: BMC Bioinformatics, Vol 19, Iss 1, Pp 1-9 (2018)

Témata: Gene regulatory network inference, Random subspace method, Resampling, Bootstrapping, Aggregation, Computer applications to medicine. Medical informatics, R858-859.7, Biology (General), QH301-705.5

Popis souboru: electronic resource

Relation: http://link.springer.com/article/10.1186/s12859-018-2402-0; https://doaj.org/toc/1471-2105

Přístupová URL adresa: https://doaj.org/article/d146200cab9d448bbfe882e1a2a52cfd

Evaluating the Reproducibility of Single-Cell Gene Regulatory Network Inference Algorithms.

Autoři: Kang, Yoonjee Thieffry, Denis Cantini, Laura

Zdroj: Frontiers in Genetics; 3/22/2021, Vol. 11, pN.PAG-N.PAG, 10p

Témata: GENE regulatory networks, BIOLOGICAL networks, COLORECTAL cancer, FUNCTIONAL genomics, BIOLOGICAL systems

Uncovering candidate Nanog-Helper genes in early mouse embryo differentiation using differential entropy and network inference

Autoři: Francisco Prista von Bonhorst Olivier Gandrillon Ulysse Herbach a další

Zdroj: Scientific Reports, Vol 15, Iss 1, Pp 1-13 (2025)

Témata: Medicine, Science

Popis souboru: electronic resource

Relation: https://doaj.org/toc/2045-2322

Přístupová URL adresa: https://doaj.org/article/ac3638e7f4d74ebb9140eb2d01f261d9

Computational Ensemble Gene Co-Expression Networks for the Analysis of Cancer Biomarkers

Autoři: Julia Figueroa-Martínez Dulcenombre M. Saz-Navarro Aurelio López-Fernández a další

Zdroj: Informatics, Vol 11, Iss 2, p 14 (2024)

Témata: bioinformatics, gene co-expression network, biomarkers, breast cancer, prostate cancer, stromal tissue, Information technology, T58.5-58.64

Popis souboru: electronic resource

Relation: https://www.mdpi.com/2227-9709/11/2/14; https://doaj.org/toc/2227-9709

Přístupová URL adresa: https://doaj.org/article/fe6cb6ff0571422693f10fc887bebfce

Improving network inference algorithms using resampling methods.

Autoři: Colby, Sean M McClure, Ryan S Renslow, Ryan S a další

Zdroj: BMC Bioinformatics; 10/12/2018, Vol. 19 Issue 1, p1-9, 9p, 6 Graphs

Témata: BOOTSTRAP aggregation (Algorithms), GENE regulatory networks, GENE expression, ESCHERICHIA coli, RESAMPLING (Statistics), AGGREGATION (Statistics), BIOLOGICAL networks

Benchmarking imputation methods for network inference using a novel method of synthetic scRNA-seq data generation.

Autoři: Lasri, Ayoub Shahrezaei, Vahid Sturrock, Marc

Zdroj: BMC Bioinformatics; 6/17/2022, Vol. 23 Issue 1, p1-26, 26p

Témata: GENE regulatory networks, MULTISCALE modeling

Reconstruction of gene regulatory networks from single cell transcriptomic data ; Методы реконструкции генных регуляторных сетей на основе транскриптомных данных отдельных клеток

Autoři: M. A. Rybakov N. A. Omelyanchuk E. V. Zemlyanskaya a další

Přispěvatelé: M. A. Rybakov N. A. Omelyanchuk E. V. Zemlyanskaya a další

Zdroj: Vavilov Journal of Genetics and Breeding; Том 28, № 8 (2024); 974-981 ; Вавиловский журнал генетики и селекции; Том 28, № 8 (2024); 974-981 ; 2500-3259 ; 10.18699/vjgb-24-88

Témata: scATAC-seq, single-cell data, RNA sequencing, scRNA-seq, данные для отдельных клеток, секвенирование РНК

Popis souboru: application/pdf

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Dostupnost: https://vavilov.elpub.ru/jour/article/view/4418
https://doi.org/10.18699/vjgb-24-104

An assessment of gene regulatory network inference algorithms

Autoři: Zuur Pedraza, Adrián Guillermo Lopez-Kleine, Liliana Grupo de Investigación en Bioinformática y Biología de Sistemas

Přispěvatelé: Zuur Pedraza, Adrián Guillermo Lopez-Kleine, Liliana Grupo de Investigación en Bioinformática y Biología de Sistemas

Témata: 500 - Ciencias naturales y matemáticas, 570 - Biología, 519 - Probabilidades y matemáticas aplicadas, Gene regulatory network, Gene network inference, Gene regulation, Biological network, Relevance network, Structural equations model, Thermodynamic model, Red de regulación génica, Modelo termodinámico, Modelo de ecuaciones estructurales, Red de relevancia, Red biológica, Inferencia de redes génicas, Regulación génica

Popis souboru: 1 recurso en línea (130 páginas); application/pdf

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Repositorio Institucional; https://repositorio.unal.edu.co/handle/unal/79256

Dostupnost: https://repositorio.unal.edu.co/handle/unal/79256

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Přístupová URL adresa: https://doaj.org/article/a0b43953a74b45b98f893b309bc2e8c6

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