Výsledky vyhledávání - "Computational biology and bioinformatics"

Silent mutations in coding regions of Hepatitis C virus affect patterns of HCV RNA structures and attenuate viral replication and pathogenesis

Autoři: Roba Dabour Shaked Bergman Zohar Zafrir a další

Zdroj: Genome Biology, Vol 26, Iss 1, Pp 1-30 (2025)

Témata: Hepatitis C virus, Computational biology and bioinformatics, Vaccines, MRNA secondary structure, Synonymous mutations, Biology (General), QH301-705.5, Genetics, QH426-470

Popis souboru: electronic resource

Relation: https://doaj.org/toc/1474-760X

Přístupová URL adresa: https://doaj.org/article/8fb42d66a4cb4b03b0929d6adc1bb7af

Site-saturation mutagenesis of 500 human protein domains

Autoři: Antoni Beltran Xiang’er Jiang Yue Shen a další

Zdroj: Nature

Témata: Models, Molecular, Protein Domains, Protein Stability, Mutagenesis, High-throughput screening, Mutation, Missense, Humans, Proteins, Clinical genetics, Genomics, Protein folding, Article, Computational biology and bioinformatics

Popis souboru: application/pdf

Přístupová URL adresa: https://pubmed.ncbi.nlm.nih.gov/39779847

CORN 2.0 - Condition Orientated Regulatory Networks 2.0

Autoři: Ricky Wai Tak Leung Xinying Zhang Zhuobin Chen a další

Zdroj: Comput Struct Biotechnol J
Computational and Structural Biotechnology Journal, Vol 27, Iss, Pp 1518-1528 (2025)

Témata: Natural products, Induced pluripotency, Cell fate, Gene regulatory network, Natural compounds, Special Issue articles from 'Advances in Computational Biology and Bioinformatics', Personalized medicine, TP248.13-248.65, Biotechnology

Přístupová URL adresa: https://pubmed.ncbi.nlm.nih.gov/40270708
https://doaj.org/article/88ccb30e251a46dc81efc8312384a2f7

Unsupervised classification based on m7G-related lncRNAs reveals molecular subtypes of patients with hepatocellular carcinoma

Autoři: Yang Yang Zhihao Xu Zheng Zhang a další

Zdroj: Biomedical Analysis, Vol 2, Iss 3, Pp 100-110 (2025)

Témata: Hepatocellular carcinoma, N7-methylguanosine, Long non-coding RNA, Molecular subtype, Computational biology and bioinformatics, Biotechnology, TP248.13-248.65, Computer applications to medicine. Medical informatics, R858-859.7

Popis souboru: electronic resource

Relation: http://www.sciencedirect.com/science/article/pii/S2950435X25000435; https://doaj.org/toc/2950-435X

Přístupová URL adresa: https://doaj.org/article/a5d3d8be7b814922bd499d587528f392

The transcriptome of the olm provides insights into its evolution and gene expression

Autoři: Susanne Holtze Defne Demirtürk Oliver Ohlenschläger a další

Zdroj: Scientific Reports. 15

Témata: Landwirtschaft und verwandte Bereiche, the olm, long - lived species, Evolution, Molecular evolution, Gene expression, Proteus anguinus, transcriptome, Computational biology and bioinformatics

Automatic classification of fungal-fungal interactions using deep leaning models

Autoři: Marjan Mansourvar Jonathan Funk Søren Dalsgård Petersen a další

Zdroj: Comput Struct Biotechnol J
Computational and Structural Biotechnology Journal, Vol 23, Iss, Pp 4222-4231 (2024)
Mansourvar, M, Funk, J, Petersen, S D, Tavakoli, S, Hoof, J B, Corcoles, D L, Pittroff, S M, Jelsbak, L, Jensen, N B, Ding, L & Frandsen, R J N 2024, ' Automatic classification of fungal-fungal interactions using deep leaning models ', Computational and Structural Biotechnology Journal, vol. 23, pp. 4222-4231 . https://doi.org/10.1016/j.csbj.2024.11.027

Témata: 0301 basic medicine, Biocontrol, Deep learning, Special Issue articles from 'Generative AI in Computational Biology and Bioinformatics', 02 engineering and technology, Fungal growth, Automation, 03 medical and health sciences, Machine learning, 0202 electrical engineering, electronic engineering, information engineering, Computer vision, TP248.13-248.65, Biotechnology

Popis souboru: application/pdf

Přístupová URL adresa: https://pubmed.ncbi.nlm.nih.gov/39655263
https://doaj.org/article/ac965e91f07b4b6f899f54a9468bc2b4
https://orbit.dtu.dk/en/publications/7114a2cd-d376-4d1e-9687-9cabbe2d1df3

Multi-omics analysis constructs a novel neuroendocrine prostate cancer classifier and classification system

Autoři: Junxiao Shen Luyuan Lu Zujie Chen a další

Zdroj: Scientific Reports, Vol 15, Iss 1, Pp 1-22 (2025)

Témata: Neuroendocrine prostate cancer (NEPC), Multi-omics, Computational biology and bioinformatics, Tumor biomarkers, Tumor heterogeneity, Medicine, Science

Popis souboru: electronic resource

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

Přístupová URL adresa: https://doaj.org/article/7a76d19240124e9bb8ebf6dde1b1b3d8

The genetic architecture of protein stability

Autoři: Andre J. Faure Aina Martí-Aranda Cristina Hidalgo-Carcedo a další

Zdroj: Nature

Témata: Phenotype, Deep Learning, Models, Genetic, Protein Stability, Biophysics, Proteins, Thermodynamics, Humans, Computer Simulation, Genomics, Neural Networks, Computer, Article, Computational biology and bioinformatics

Popis souboru: application/pdf

Přístupová URL adresa: https://pubmed.ncbi.nlm.nih.gov/39322666

LongReadSum: A fast and flexible quality control and signal summarization tool for long-read sequencing data

Autoři: Jonathan Elliot Perdomo Mian Umair Ahsan Qian Liu a další

Zdroj: Comput Struct Biotechnol J
Computational and Structural Biotechnology Journal, Vol 27, Iss, Pp 556-563 (2025)

Témata: Quality control, Long-read sequencing, Special Issue articles from 'Advances in Computational Biology and Bioinformatics', TP248.13-248.65, Biotechnology

Přístupová URL adresa: https://pubmed.ncbi.nlm.nih.gov/39211184
https://pubmed.ncbi.nlm.nih.gov/39981293
https://doaj.org/article/9881aee34d0944f385f01b02855c03b8

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

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

Přispěvatelé: Prista von Bonhorst, Francisco Gandrillon, Olivier Herbach, Ulysse a další

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

Témata: [SDV] Life Sciences [q-bio], [SDV.BIBS] Life Sciences [q-bio]/Quantitative Methods [q-bio.QM], Differentiation, Science, Developmental biology, Medicine, Article, Computational biology and bioinformatics, Gene regulatory networks

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

GETgene-AI: a framework for prioritizing actionable cancer drug targets

Autoři: Adrian Gu Jake Y. Chen

Zdroj: Frontiers in Systems Biology, Vol 5 (2025)

Témata: cancer, pancreatic cancer, network-based prioritization, computational biology and bioinformatics, drug target prioritization, drug target, Physiology, QP1-981

Popis souboru: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/fsysb.2025.1649758/full; https://doaj.org/toc/2674-0702

Přístupová URL adresa: https://doaj.org/article/d1e380010a6946ffa2640609f7677416

Generalized Biological Foundation Model with Unified Nucleic Acid and Protein Language

Autoři: He, Yong

Témata: Deep Learning, Gene & Protein Language Model, LucaOne, Foundation Models, Computational Biology and Bioinformatics, Embedding for Biology, Computational Models

Baf-mediated transcriptional regulation of teashirt is essential for the development of neural progenitor cell lineages

Autoři: Byung Su Ko Myeong Hoon Han Min Jee Kwon a další

Přispěvatelé: Byung Su Ko Myeong Hoon Han Min Jee Kwon a další

Zdroj: Exp Mol Med
Digital.CSIC. Repositorio Institucional del CSIC
Consejo Superior de Investigaciones Científicas (CSIC)
Experimental and Molecular Medicine, Vol 56, Iss 2, Pp 422-440 (2024)

Témata: 0301 basic medicine, 0303 health sciences, Thyrotropin, QD415-436, Biochemistry, Article, Computational biology and bioinformatics, 03 medical and health sciences, Gene Expression Regulation, Neural Stem Cells, Heterochromatin, Genetics, Medicine, Animals, Drosophila, beta Catenin

Popis souboru: application/pdf

Přístupová URL adresa: https://pubmed.ncbi.nlm.nih.gov/38374207
http://hdl.handle.net/10261/365710
https://doaj.org/article/1ec26a52f76942f19aa7aa5402f7c822

Hagfish genome elucidates vertebrate whole-genome duplication events and their evolutionary consequences

Autoři: Daqi Yu Yandong Ren Masahiro Uesaka a další

Zdroj: Nat Ecol Evol
RIUMA. Repositorio Institucional de la Universidad de Málaga
Universidad de Málaga
Yu, D, Ren, Y, Uesaka, M, Beavan, A J S, Muffato, M, Shen, J, Li, Y, Sato, I, Wan, W, Clark, J W, Keating, J N, Carlisle, E M, Dearden, R P, Giles, S, Randle, E, Sansom, R S, Feuda, R, Fleming, J F, Sugahara, F, Cummins, C, Patricio, M, Akanni, W, D’Aniello, S, Bertolucci, C, Irie, N, Alev, C, Sheng, G, de Mendoza, A, Maeso, I, Irimia, M, Fromm, B, Peterson, K J, Das, S, Hirano, M, Rast, J P, Cooper, M D, Paps, J, Pisani, D, Kuratani, S, Martin, F J, Wang, W, Donoghue, P C J, Zhang, Y E & Pascual-Anaya, J 2024, 'Hagfish genome elucidates vertebrate whole-genome duplication events and their evolutionary consequences', Nature Ecology and Evolution, vol. 8, no. 3, pp. 519-535. https://doi.org/10.1038/s41559-023-02299-z

Témata: 0301 basic medicine, 0303 health sciences, Genome, Evolution, Animals, Gene Duplication, Hagfishes, Lampreys, Phylogeny, Vertebrates, Hagfish, Functional genomics, Genomics, Article, Genome evolution, Whole genome duplication, Computational biology and bioinformatics, 03 medical and health sciences, Sequencing, Evolutionary developmental biology, Vertebrados - Evolución, Vertebrate evolution

Popis souboru: application/pdf

Přístupová URL adresa: https://pubmed.ncbi.nlm.nih.gov/38216617
https://hdl.handle.net/10630/32703
https://hdl.handle.net/11392/2542490
https://doi.org/10.1038/s41559-023-02299-z
https://www.nature.com/articles/s41559-023-02299-z
http://www.scopus.com/inward/record.url?scp=85182141322&partnerID=8YFLogxK
https://doi.org/10.1038/s41559-023-02299-z
https://research.manchester.ac.uk/en/publications/6c43d692-0d2e-4e02-afad-f9975a32097c
https://hdl.handle.net/10037/34859

Development of an immune-related gene signature applying Ridge method for improving immunotherapy responses and clinical outcomes in lung adenocarcinoma

Autoři: Zhen Chen Yongjun Zhang

Zdroj: PeerJ, Vol 13, p e19121 (2025)

Témata: Lung adenocarcinoma, Immunotherapy, Molecular biology, Immunology, Computational biology and bioinformatics, Medicine, Biology (General), QH301-705.5

Popis souboru: electronic resource

Relation: https://peerj.com/articles/19121.pdf; https://peerj.com/articles/19121/; https://doaj.org/toc/2167-8359

Přístupová URL adresa: https://doaj.org/article/410e99f71f0147d193907dfab777b461

The energetic and allosteric landscape for KRAS inhibition

Autoři: Chenchun Weng Andre J. Faure Albert Escobedo a další

Zdroj: Nature

Témata: 0301 basic medicine, Protein Folding, 0303 health sciences, Drug discovery, Biophysics, Reproducibility of Results, Genomics, Article, Computational biology and bioinformatics, Substrate Specificity, Proto-Oncogene Proteins p21(ras), 03 medical and health sciences, Allosteric Regulation, Mutation, Humans, Thermodynamics, Systems biology, Allosteric Site, Protein Binding

Popis souboru: application/pdf

Přístupová URL adresa: https://pubmed.ncbi.nlm.nih.gov/38109937

Mobile element insertions in rare diseases: a comparative benchmark and reanalysis of 60,000 exome samples: a comparative benchmark and reanalysis of 60,000 exome samples

Autoři: Wijngaard, Robin Demidov, German O'Gorman, Luke a další

Zdroj: Eur J Hum Genet
European Journal of Human Genetics, 32, 2, pp. 200-208
EUROPEAN JOURNAL OF HUMAN GENETICS
European Journal of Human Genetics

Témata: Human Genetics - Radboud University Medical Center - DCMN, Medical Biosciences - Radboud University Medical Center, Article, RETROTRANSPOSITION, Solve-RD consortium, Computational biology and bioinformatics, 3. Good health, Benchmarking, Rare Diseases, GERMLINE, Exome Sequencing, Medicine and Health Sciences, Genetics, Humans, Human Genetics - Radboud University Medical Center, Exome, Genetic Testing, 631/208, Benchmarking [MeSH], Rare Diseases/genetics [MeSH], Humans [MeSH], Exome [MeSH], 45/23, Genetic Testing/methods [MeSH], 631/114, Exome Sequencing [MeSH], article, Medical Oncology - Radboud University Medical Center

Popis souboru: application/pdf

Přístupová URL adresa: https://pubmed.ncbi.nlm.nih.gov/37853102
https://hdl.handle.net/https://repository.ubn.ru.nl/handle/2066/303487
https://pure.amsterdamumc.nl/en/publications/fd60c8cd-a99f-40eb-ba5d-474f123aeaef
https://doi.org/10.1038/s41431-023-01478-7
https://hdl.handle.net/2066/303487
https://repository.ubn.ru.nl//bitstream/handle/2066/303487/303487.pdf
https://repository.publisso.de/resource/frl:6499979
https://discovery-pp.ucl.ac.uk/id/eprint/10180214/
http://hdl.handle.net/1854/LU-01J8QR1536B70F9XW5PN5ATNGE
https://biblio.ugent.be/publication/01J8QR1536B70F9XW5PN5ATNGE
http://doi.org/10.1038/s41431-023-01478-7
https://biblio.ugent.be/publication/01J8QR1536B70F9XW5PN5ATNGE/file/01JAW4SV8ZAFNQD93A3X2T0NAS

Scalable long-read nanopore HPV16 amplicon-based whole-genome sequencing

Autoři: Titus, Maina K. Giesbrecht, David Oduor, Cliff I. a další

Přispěvatelé: Titus, Maina K. Giesbrecht, David Oduor, Cliff I. a další

Zdroj: PMC

Témata: Computational biology and bioinformatics, Genetics, Medical research, Molecular medicine, Oncology

Popis souboru: application/pdf

Relation: Scientific Reports; https://hdl.handle.net/1805/52232

Dostupnost: https://hdl.handle.net/1805/52232

Plant cold acclimation and its impact on sensitivity of carbohydrate metabolism

Autoři: Adler, Stephan O. Kitashova, Anastasia Bulović, Ana a další

Témata: Computational biology and bioinformatics, Plant sciences, Systems biology, 570 Biologie, ddc:570

Popis souboru: application/pdf

Relation: https://doi.org/10.18452/33858

Dostupnost: http://edoc.hu-berlin.de/18452/34490
https://nbn-resolving.org/urn:nbn:de:kobv:11-110-18452/34490-4
https://doi.org/10.18452/33858
https://doi.org/10.1038/s41540-025-00505-1

Detection of viral sequences at single-cell resolution identifies novel viruses associated with host gene expression changes

Autoři: Luebbert, Laura Sullivan, Delaney K. Carilli, Maria a další

Zdroj: Nature Biotechnology, (2025-04-22)

Témata: Computational biology and bioinformatics, Infectious diseases, Virology

Relation: readcube:https://rdcu.be/eFGqT; https://static-content.springer.com/esm/art%3A10.1038%2Fs41587-025-02614-y/MediaObjects/41587_2025_2614_MOESM1_ESM.pdf; https://doi.org/10.1101/2023.12.11.571168; https://pubmed.ncbi.nlm.nih.gov/40263451/; https://doi.org/10.22002/krqmp-5hy81; https://doi.org/10.22002/k7xqw-88d74; https://github.com/pachterlab/LSCHWCP_2023/tree/main/PalmDB; https://github.com/pachterlab/LSCHWCP_202391; https://authors.library.caltech.edu/communities/caltechauthors/

Dostupnost: https://doi.org/10.1038/s41587-025-02614-y
https://pubmed.ncbi.nlm.nih.gov/40263451/