-
1دورية أكاديمية
المؤلفون: Benjamin Giovanni Iovino, Yuzhen Ye
المصدر: BMC Bioinformatics, Vol 25, Iss 1, Pp 1-16 (2024)
مصطلحات موضوعية: Protein embedding, Protein sequence alignment, Smith-Waterman algorithm, Twilight zone, Computer applications to medicine. Medical informatics, R858-859.7, Biology (General), QH301-705.5
وصف الملف: electronic resource
العلاقة: https://doaj.org/toc/1471-2105Test
-
2دورية أكاديمية
المؤلفون: Price, Morgan N, Arkin, Adam P
المصدر: mSystems. 7(6)
مصطلحات موضوعية: Biochemistry and Cell Biology, Bioinformatics and Computational Biology, Biological Sciences, Genetics, Biotechnology, Emerging Infectious Diseases, Human Genome, Underpinning research, 1.1 Normal biological development and functioning, Generic health relevance, Phylogeny, Computational Biology, Proteins, Amino Acid Sequence, Data Interpretation, Statistical, functional residues, protein sequence analysis
وصف الملف: application/pdf
الوصول الحر: https://escholarship.org/uc/item/1v1434cgTest
-
3دورية أكاديمية
المؤلفون: Sutter, Markus, Kerfeld, Cheryl A
المصدر: Biology Direct. 17(1)
مصطلحات موضوعية: Biochemistry and Cell Biology, Bioinformatics and Computational Biology, Genetics, Biological Sciences, Bacteria, Bacterial Proteins, Metabolic Networks and Pathways, Organelles, Phylogeny, Bacterial microcompartment, Protein HMM profile, Protein sequence analysis, Metabolosome, Carboxysome, Medical and Health Sciences, Bioinformatics, Biological sciences
وصف الملف: application/pdf
الوصول الحر: https://escholarship.org/uc/item/5f12w14dTest
-
4دورية أكاديمية
المؤلفون: Isaac Filella-Merce, Vincent Mallet, Eric Durand, Michael Nilges, Guillaume Bouvier, Riccardo Pellarin
المصدر: Frontiers in Bioinformatics, Vol 4 (2024)
مصطلحات موضوعية: self-organizing maps (SOM), sequence similarity landscape, protein sequence analysis, protein sequence visualization, human kinome, human GPCRs, Computer applications to medicine. Medical informatics, R858-859.7
وصف الملف: electronic resource
العلاقة: https://www.frontiersin.org/articles/10.3389/fbinf.2024.1321508/fullTest; https://doaj.org/toc/2673-7647Test
-
5دورية أكاديمية
المؤلفون: Filella Merce, Isaac, Mallet, Vincent, Durand, Enric, Nilges, Michael, Bouvier, Guillaume, Pellarin, Riccardo
المساهمون: Barcelona Supercomputing Center
مصطلحات موضوعية: Àrees temàtiques de la UPC::Informàtica::Aplicacions de la informàtica::Bioinformàtica, Protein sequencing, Phylogenetics, Self-organizing maps (SOM), Sequence similarity landscape, Protein sequence analysis, Protein sequence visualization, Human kinome, Human GPCRs, Type VI secretion system (T6SS), Supercomputadors
وصف الملف: application/pdf
العلاقة: https://www.frontiersin.org/articles/10.3389/fbinf.2024.1321508/full#supplementary-materialTest; https://www.frontiersin.org/articles/10.3389/fbinf.2024.1321508/fullTest; AlignScape is available as a Python library (https://github.com/bougui505/alignscapeTest). Users can utilize it locally as a Jupyter Notebook or within a Google Colaboratory Notebook (https://colab.research.google.com/github/bougui505/alignscape/blob/master/alignscape.ipynbTest), supporting both CPUs and GPUs. Within the notebook, we provide step-by-step instructions on how to install the necessary libraries, load the MSA, execute the SOM training, and generate several U-matrix representations. We also deployed an Apptainer (formerly known as Singularity) version of AlignScape (https://zenodo.org/records/10417520Test). We offer convenient downloads of all relevant files to ensure comprehensive access to the generated data. These include the resulting AlignScape object, the MST, the sequence to BMU to cluster assignment file, and images of all generated U-matrices.; Filella Merce, I. [et al.]. AlignScape, displaying sequence similarity using self-organizing maps. "Frontiers in Bioinformatics", 2024, vol. 4.; http://hdl.handle.net/2117/403939Test
-
6دورية أكاديمية
المؤلفون: Guohao Lv, Yingchun Xia, Zhao Qi, Zihao Zhao, Lianggui Tang, Cheng Chen, Shuai Yang, Qingyong Wang, Lichuan Gu
المصدر: BMC Bioinformatics, Vol 24, Iss 1, Pp 1-16 (2023)
مصطلحات موضوعية: LncRNA–protein prediction, Protein sequence, Feature selection, Boosting, Reweighting, Computer applications to medicine. Medical informatics, R858-859.7, Biology (General), QH301-705.5
وصف الملف: electronic resource
العلاقة: https://doaj.org/toc/1471-2105Test
-
7دورية أكاديمية
المؤلفون: Ji Hoon Park, Sohyun Kwon, So-Young Choi, Bongcheol Kim, Junseo Oh
المصدر: Bioengineering, Vol 11, Iss 6, p 617 (2024)
مصطلحات موضوعية: fusion protein, fibrosis, linker, protein sequence optimization, Technology, Biology (General), QH301-705.5
وصف الملف: electronic resource
-
8دورية أكاديمية
المؤلفون: Richa Rashmi, Chandan Nandi, Sharmistha Majumdar
المصدر: Current Research in Structural Biology, Vol 7, Iss , Pp 100113- (2024)
مصطلحات موضوعية: Evolutionary analysis, Transposase gene, Protein sequence characterization, Biology (General), QH301-705.5
وصف الملف: electronic resource
العلاقة: http://www.sciencedirect.com/science/article/pii/S2665928X23000193Test; https://doaj.org/toc/2665-928XTest
-
9دورية أكاديمية
المؤلفون: Benjamin Giovanni Iovino, Yuzhen Ye
مصطلحات موضوعية: Biochemistry, Genetics, Evolutionary Biology, Immunology, Infectious Diseases, Virology, Biological Sciences not elsewhere classified, Mathematical Sciences not elsewhere classified, Information Systems not elsewhere classified, Protein embedding, Protein sequence alignment, Smith-Waterman algorithm, Twilight zone
الإتاحة: https://doi.org/10.6084/m9.figshare.25302885.v1Test
https://figshare.com/articles/journal_contribution/Additional_file_1_of_Protein_embedding_based_alignment/25302885Test -
10دورية أكاديمية
المؤلفون: Danielle Ciren, Sophia Zebell, Zachary B. Lippman
مصطلحات موضوعية: Cell Biology, Genetics, Molecular Biology, Evolutionary Biology, Developmental Biology, Plant Biology, Computational Biology, whereas phenotypic enhancement, div >< p, demonstrating distinct distribution, 70 deletion alleles, 125 million years, different regulatory outcome, solanum lycopersicum <, conserved protein sequence, adding downstream mutations, conserved productivity genes, >- regulatory sequences, arabidopsis thaliana <, regulatory variation, conserved genes, coding sequence, >- regulation, vivo <, clv3 <, clavata3 <, cis <, sequences upstream, synergistic effects, striking paradox
الإتاحة: https://doi.org/10.1371/journal.pgen.1011174.s004Test
https://figshare.com/articles/journal_contribution/Oligos_used_in_this_study_/25336522Test