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Bioinformatics subfield
Structural bioinformatics is the branch of bioinformatics that is related to the analysis and prediction of the three-dimensional structure of biological
Structural_bioinformatics
Computational analysis of large, complex sets of biological data
definition placed bioinformatics as a field parallel to biochemistry (the study of chemical processes in biological systems). Bioinformatics and computational
Bioinformatics
detection of structurally similar protein binding sites by local structural alignment". Bioinformatics. 26 (9): 1160–1168. doi:10.1093/bioinformatics/btq100
Structural_alignment_software
Professor of Structural Bioinformatics
Charlotte Mary Deane MBE FRS (born 1975) is an English Professor of Structural Bioinformatics and the former Head of the Department of Statistics at the University
Charlotte_Deane
Aligning molecular sequences using sequence and structural information
detection of structurally similar protein binding sites by local structural alignment". Bioinformatics. 26 (9): 1160–1168. doi:10.1093/bioinformatics/btq100
Structural_alignment
that focus on bioinformatics and computational biology. BioData Mining Bioinformatics Bioinformatics and Biology Insights BMC Bioinformatics Briefings in
List of bioinformatics journals
List_of_bioinformatics_journals
Biomolecule consisting of chains of amino acid residues
structure databases with new web services for structural biology and biomedical research". Briefings in Bioinformatics. 9 (4): 276–285. doi:10.1093/bib/bbn015
Protein
Indian-Australian bioinformatian and academic
professor of bioinformatics at Macquarie University. Her research considers computational biology and bioinformatics, genome annotation and structural bioinformatics
Shoba_Ranganathan
The list of bioinformatics software tools can be split up according to the license used: List of proprietary bioinformatics software List of open-source
Lists of bioinformatics software
Lists_of_bioinformatics_software
Study of the structure of every protein in a genome
This raises new challenges in structural bioinformatics, i.e. determining protein function from its 3D structure. Structural genomics emphasizes high throughput
Structural_genomics
prediction of intrinsic disorder in proteins" (PDF). Bioinformatics. 33 (9): 1402–1404. doi:10.1093/bioinformatics/btx015. ISSN 1367-4803. PMID 28453683.[dead
List of disorder prediction software
List_of_disorder_prediction_software
Software for protein modeling and analysis
(July 2010). "Low-homology protein threading". Bioinformatics. 26 (12): i294–i300. doi:10.1093/bioinformatics/btq192. PMC 2881377. PMID 20529920. Peng, Jian;
RaptorX
"Databases, data tombs and dust in the wind". Bioinformatics. 24 (19): 2127–8. doi:10.1093/bioinformatics/btn464. PMID 18819940. "Volume 46 Issue D1 |
List_of_biological_databases
liquid phase-separated condensates" (PDF). Bioinformatics. 35 (22): 4617–4623. doi:10.1093/bioinformatics/btz274. ISSN 1367-4803. PMID 30994888. Lancaster
Liquid–liquid phase separation sequence-based predictors
Liquid–liquid_phase_separation_sequence-based_predictors
and data structures for molecular modelling and computational structural bioinformatics, a Python interface to this library, and a graphical user interface
BALL
Suite of services for protein homology modeling
Swiss-model (stylized as SWISS-MODEL) is a structural bioinformatics web-server dedicated to homology modeling of 3D protein structures. Before AlphaFold
Swiss-model
Australian physical chemist and computational biologist (1953–2026)
His diverse interests spanned structural biology, medical informatics, information technology, structural bioinformatics, scholarly communication and pharmaceutical
Philip_Bourne
International open access database of large biological molecules
1998, the PDB was transferred to the Research Collaboratory for Structural Bioinformatics (RCSB); the transfer was completed in June 1999. The new director
Protein_Data_Bank
structure and residue-based statistical potential". Bioinformatics. 23 (17): 2218–2225. doi:10.1093/bioinformatics/btm325. ISSN 1367-4803. PMID 17599928. Conchillo-Solé
Protein aggregation predictors
Protein_aggregation_predictors
Professor (born 1951)
the Centre for Integrative Systems Biology and Bioinformatics and Head of the Structural bioinformatics Group. Sternberg was educated at Hendon County
Michael_Sternberg
Professional body for bioinformatics and computational biology in Africa
Society for Bioinformatics and Computational Biology (ASBCB) is a non-profit professional association dedicated to the advancement of bioinformatics and computational
African Society for Bioinformatics and Computational Biology
African_Society_for_Bioinformatics_and_Computational_Biology
American Biophysical Chemist
Chemistry and Chemical Biology, and Constellation Endowed Chair in Structural Bioinformatics at Rensselaer Polytechnic Institute in Troy, NY. His research
Gaetano_T._Montelione
BioNumerics Astrid Research BIOBASE BioBam Bioinformatics creator of Blast2GO Biomax Informatics AG bioinformatics services. Biovia (formerly Accelrys). Chemical
List of bioinformatics companies
List_of_bioinformatics_companies
Organization that maintains the global open access Protein Data Bank
The organization has five members: Research Collaboratory for Structural Bioinformatics Protein Database (RCSB PDB) Protein Data Bank in Europe (PDBe)
Worldwide_Protein_Data_Bank
British bioinformatician and academic
Bioinformatics Institute (EBI), part of the European Molecular Biology Laboratory (EMBL). She is one of the world's leading researchers in structural
Janet_Thornton
Design method for proteins
aggregation prevention: A structural bioinformatic and computational study". Proteins: Structure, Function, and Bioinformatics. 92 (2): 206–218. doi:10
QTY_Code
I-TASSER (Iterative Threading ASSEmbly Refinement) is a bioinformatics method for predicting three-dimensional structure model of protein molecules from
I-TASSER
multithreaded implementation for pairwise structural RNA alignment". Bioinformatics. 32 (8): 1238–1240. doi:10.1093/bioinformatics/btv748. PMC 4824132. PMID 26704597
List of RNA structure prediction software
List_of_RNA_structure_prediction_software
Dynamical system property
identifiability analysis of biological systems". Bioinformatics. 30 (10): 1440–1448. doi:10.1093/bioinformatics/btu006. ISSN 1367-4803. PMID 24463185. S2CID 10052322
Structural_identifiability
Institute of Bioinformatics is an academic not-for-profit foundation dedicated to biological and biomedical data science which federates bioinformatics activities
Swiss Institute of Bioinformatics
Swiss_Institute_of_Bioinformatics
are used frequently within the fields of molecular modeling, structural bioinformatics, and computational biology. pKa values of amino acid side chains
Protein_pKa_calculations
Key enzyme of photosynthesis involved in carbon fixation
Molecule of the Month. RCSB PDB (Research Collaboratory for Structural Bioinformatics PDB). doi:10.2210/rcsb_pdb/mom_2000_11. Lodish H, Berk A, Zipursky
RuBisCO
an open source software package that facilitates research in structural bioinformatics and molecular modelling. Written in Python, it consists of: An
Biskit
Branch of civil engineering dealing with man-made structures
Structural engineering is a sub-discipline of civil engineering in which structural engineers are trained to design the 'bones and joints' that create
Structural_engineering
BOINC based volunteer computing project researching protein folding
Rosetta@home network serves as a testing framework for new methods in structural bioinformatics. Such methods are then used in other Rosetta-based applications
Rosetta@home
Computational chemistry simulated force field
The OPLS (Optimized Potentials for Liquid Simulations) force field was developed by Prof. William L. Jorgensen at Purdue University and later at Yale University
OPLS
Sciences. The BMRB is part of the Research Collaboratory for Structural Bioinformatics and, since 2006, it is a partner in the Worldwide Protein Data
Biological Magnetic Resonance Data Bank
Biological_Magnetic_Resonance_Data_Bank
Division of the National Institute of Allergy and Infectious Diseases
Laboratory Humoral Immunology Core Humoral Immunology Section Structural Bioinformatics Core Structural Biology Section Virology Core Viral Pathogenesis Laboratory
Vaccine_Research_Center
2008 video game
fields of science, including bioinformatics, molecular biology, and medicine. Identifying natural proteins' structural configurations enables scientists
Foldit
Method used to investigate protein structure
1970s. Secondary structure prediction involves a set of methods in bioinformatics that aim to predict the local secondary structures of proteins and RNA
PSIPRED
relations between membraneless organelles and diseases". Briefings in Bioinformatics. 22 (4). doi:10.1093/bib/bbaa271. ISSN 1467-5463. PMID 33126250. Mészáros
List of liquid–liquid phase separation databases
List_of_liquid–liquid_phase_separation_databases
Allergic reaction to low temperatures
George N. Jr. (2003). "1Q44". PDB. Research Collaboratory for Structural Bioinformatics. doi:10.2210/pdb1Q44/pdb. Retrieved 27 July 2021. Hoffman, Hal
Cold_urticaria
of software for protein model error verification is a compilation of bioinformatics software frequently employed to check experimental and theoretical models
List of software for protein model error verification
List_of_software_for_protein_model_error_verification
This list of protein structure prediction software summarizes notable used software tools in protein structure prediction, including homology modeling
List of protein structure prediction software
List_of_protein_structure_prediction_software
Type of biological prediction
predicting beta-turn using support vector machine". Bioinformatics. 21 (10): 2370–4. doi:10.1093/bioinformatics/bti358. PMID 15797917. Zimmermann O, Hansmann
Protein_structure_prediction
Graph topology applied to electrical and communications circuits, or biomolecules
pathogenicity of missense mutations". Proteins: Structure, Function, and Bioinformatics. 90 (9): 1634–1644. doi:10.1002/prot.26342. PMC 9543832. PMID 35394672
Circuit_topology
Discipline in genetics
2007). "Towards a comprehensive structural coverage of completed genomes: a structural genomics viewpoint". BMC Bioinformatics. 8 86. doi:10.1186/1471-2105-8-86
Genomics
judging the quality of protein structures in in silico protein structure bioinformatics projects, and has been used frequently by participants of the CASP homology
PDBREPORT
2020-02-12. "About | rDock". Retrieved 2020-02-12. "Protein-ligand docking bioinformatics tools | Interaction analysis". omicX. Retrieved 2019-05-23.
List of protein-ligand docking software
List_of_protein-ligand_docking_software
Form of causal modeling that fit networks of constructs to data
Structural equation modeling (SEM) is a diverse set of methods used by scientists for both observational and experimental research. SEM is used mostly
Structural_equation_modeling
Institute of Bioinformatics. In 2007 the bioinformatician became Associate Professor and 2018 Full Professor for Structural Bioinformatics at the Biozentrum
Torsten_Schwede
conformational diversity Gu, Jenny; Bourne, Philip E. (March 2009). Structural Bioinformatics (2nd ed.). Wiley-Blackwell. ISBN 978-0-470-18105-8. Frauenfelder
Database_of_Molecular_Motions
Centre for research
Genetics (DNA Data Bank of Japan) Swiss Institute of Bioinformatics (SIB: Expasy) Australia Bioinformatics Resource BIG Data Center (National Genomics Data
European Bioinformatics Institute
European_Bioinformatics_Institute
List of notable software written in or for the C++ programming language
and data structures for molecular modelling and computational structural bioinformatics Boehm garbage collector – conservative garbage collector CEGUI
List of C++ software and tools
List_of_C++_software_and_tools
organoleptic properties. Contact Laboratory Institute of Physiology, Structural Bioinformatics Group, Berlin, Germany. Authors Jessica Ahmed Primary citation
VirtualTaste
Measure of similarity between two protein structures
structure similarity with TM-score = 0.5?". Bioinformatics. 26 (7): 889–895. doi:10.1093/bioinformatics/btq066. PMC 2913670. PMID 20164152. Zemla A (2003)
Template_modeling_score
Two nucleobases bound by hydrogen bonds
resource for structural bioinformatics of nucleic acids. Leontis NB, Westhof E (June 2003). "Analysis of RNA motifs". Current Opinion in Structural Biology
Base_pair
Process in bioinformatics that identifies equivalent sites within molecular sequences
In bioinformatics, a sequence alignment is a way of arranging the sequences of DNA, RNA, or protein to identify regions of similarity that may be a consequence
Sequence_alignment
Workflow system in biology
(2014). "Ballaxy: Web services for structural bioinformatics". Bioinformatics. 31 (1): 121–2. doi:10.1093/bioinformatics/btu574. PMID 25183489. "OSDDlinux"
Galaxy (computational biology)
Galaxy_(computational_biology)
Reaction between an antibody and an antigen that differs from the immunogen
a new structural bioinformatics method for predicting allergen cross-reactivity". Bioinformatics. 33 (7): 1014–1020. doi:10.1093/bioinformatics/btw767
Cross-reactivity
Jpred v.4 is the latest version of the JPred Protein Secondary Structure Prediction Server which provides predictions by the JNet algorithm, one of the
Jpred
Material selection List of computational materials science software Structural bioinformatics Data mining Cheminformatics Primary Journals: Journal of Materials
Materials_informatics
Tertiary structure prediction tool for protein sequence
PSIPRED protein structure prediction server". Bioinformatics. 16 (4): 404–5. doi:10.1093/bioinformatics/16.4.404. PMID 10869041. Jones, D. T.; Ward, J
Phyre
Measure of distance between atoms of superimposed proteins
sequence alignment accuracy using structural information" (PDF). Bioinformatics. 22 (14): e35–39. doi:10.1093/bioinformatics/btl218. PMID 16873492. Shibuya
Root mean square deviation of atomic positions
Root_mean_square_deviation_of_atomic_positions
professor Colin Teevan, professor of playwriting Dame Janet Thornton, structural bioinformatics, Director EBI Li Wei, academic, linguist Ralph Vaughan Williams
List of people associated with Birkbeck, University of London
List_of_people_associated_with_Birkbeck,_University_of_London
Enzyme which generates DNA
Reverse Transcriptase (Sep 2002)". Research Collaboratory for Structural Bioinformatics (RCSB) Protein Data Bank (PDB). Archived from the original on
Reverse_transcriptase
Group of chemical compounds
Research Collaboratory for Structural Bioinformatics. "5KGM". RCSB PDB. Research Collaboratory for Structural Bioinformatics. "5KGN". RCSB PDB. Research
Ipglycermides
North American species of flowering plant
groenlandica)". Wind River Range, July 2006. University of Oxford, Structural Bioinformatics and Computational Biochemistry Unit. Archived from the original
Pedicularis_groenlandica
American data scientist
2014-10-01. Retrieved 2015-10-29. Bourne PE, Helge W, eds. (2003). Structural Bioinformatics. Hoboken, NJ: Wiley-Liss. p. 229. ISBN 978-0-471-20199-1. OCLC 50199108
Werner_G._Krebs
E.; Taipale, J. (2017). "Structural perspective of cooperative transcription factor binding". Current Opinion in Structural Biology. Protein–nucleic acid
Obsolete models of DNA structure
Obsolete_models_of_DNA_structure
Branch of bioinformatics
regulatory mechanisms of genes. Structural bioinformatics: Sequence alignment visualization is integral to structural bioinformatics, where researchers analyze
Biological_data_visualization
(February 2008). "Utility library for structural bioinformatics". Bioinformatics. 24 (4): 584–5. doi:10.1093/bioinformatics/btm627. PMID 18227118. Official
BioJava
Italian computational biologist
associate editor for the journal Bioinformatics from 2005 until 2016 editing papers in the area of structural bioinformatics. Tramontano originally trained
Anna_Tramontano
German bioinformatician
Charité in Berlin, where Andrea Volkamer led a working group on structural bioinformatics and in silico toxicology from 2016 to 2022. As part of the BMBF-funded
Andrea_Volkamer
Polish-Canadian academic (born 1975)
of the Bioinformatics (journal). His research focuses on the applications of machine learning in bioinformatics and structural bioinformatics of proteins
Lukasz_Kurgan
residues to determine which interactions may be disrupted by swapping structural domains of the protein. By minimizing these disruptions, SCHEMA can be
SCHEMA_(bioinformatics)
Stages in the development of children
3390/jintelligence7020011. PMC 6630280. PMID 31162390. Gu J, Bourne PE (2009). Structural Bioinformatics (2nd ed.). Hoboken (N.J.): Wiley-Blackwell. ISBN 978-0-470-18105-8
Child_development
Nucleic acid pairing variations
and reverse Hoogsteen base pairs". X3DNA-DSSR: a resource for structural bioinformatics of nucleic acids. Halder S, Bhattacharyya D (November 2013). "RNA
Hoogsteen_base_pair
Type of stable macromolecular complex
Srinivasan, Narayanaswamy (2014). "An overview of recent advances in structural bioinformatics of protein–protein interactions and a guide to their principles"
Protein_complex
Individual differences in genomic DNA
against this hypothesis. Some genome browsers and bioinformatic databases have a list of structural variations in the human genome with an emphasis on
Structural_variation
Medical condition
T; Khan, JM; Ranganathan, S (30 November 2011). "A comparative structural bioinformatics analysis of inherited mutations in β-D-Mannosidase across multiple
Beta-mannosidosis
List of notable protein secondary structure prediction programs List of protein structure prediction software Protein structure prediction
List of protein secondary structure prediction programs
List_of_protein_secondary_structure_prediction_programs
Expert Protein-Analysis System
Expasy is an online bioinformatics resource operated by the SIB Swiss Institute of Bioinformatics. It is an extensible and integrative portal which provides
Expasy
Protein found in humans
Structural Bioinformatics Group.[permanent dead link] "ExPASy: SIB Bioinformatics Resource Portal - Home". ExPasy. Swiss Institute of Bioinformatics.
CCDC78
Israeli structural biologist (born 1943)
Crystallographic Society. Sussman’s research spans structural biology, enzymology, and bioinformatics, with over 300 scientific publications. Macromolecular
Joel_Sussman
Animal or plant disease resulting from a viral infection
of Bioinformatics. Archived from the original on 2015-10-04. Retrieved 2015-10-03. "Bunyaviridae". ViralZone. SIB Swiss Institute of Bioinformatics. Archived
Viral_disease
Annual academic conference
Biology (ISMB) is an annual academic conference on the subjects of bioinformatics and computational biology organised by the International Society for
Intelligent Systems for Molecular Biology
Intelligent_Systems_for_Molecular_Biology
Discovering chemical properties by physical simulations
programs Semi-empirical quantum chemistry method Simulated reality Structural bioinformatics Z-matrix (mathematics) Leach AR (2009). Molecular modelling :
Molecular_modelling
A dynamic storage for bioinformatic results and DNA sequence data". Bioinformatics. 20 (18): 3682–6. doi:10.1093/bioinformatics/bth423. PMID 15256401
Molecular_models_of_DNA
Protein(s) forming a major part of an organism's immune system
automatic prediction of antibody structures". Bioinformatics. 24 (17): 1953–4. doi:10.1093/bioinformatics/btn341. PMID 18641403. Archived from the original
Antibody
Structural Bioinformatics
of the 3D-protein models. This is important in advancing the structural bioinformatics field. McGuffin, Liam J; Adiyaman, Recep; Maghrabi, Ali H A; Shuid
IntFOLD
Emeritus Professor
decameric sequences into a four-way Holliday junction In the area of structural bioinformatics, Gautham developed a novel Ab initio computational method using
N._Gautham
American mathematician
branch of computational biology. His focus is in the area of structural bioinformatics. Dr. Bryant also leads NCBI information resource teams in protein
Charles Lawrence (mathematician)
Charles_Lawrence_(mathematician)
University Medicine Berlin Laboratory Institute for Physiology, Structural Bioinformatics Group Primary citation PMID 20952398 Release date 2010 Access
CancerResource
Protein and gene in humans
MPI Bioinformatics Toolkit. Retrieved 16 December 2020. "I-TASSER". Zhang Lab. Retrieved 16 December 2020. "Phyre2". Structural Bioinformatics Group
TMEM101
Proteins activated by the hormone estrogen
"Estrogen Receptor". Protein Data Bank, Research Collaboratory for Structural Bioinformatics (RCSB). Archived from the original on March 11, 2006. Retrieved
Estrogen_receptor
Interactions curated and predicted "STITCH". 500,000 SuperDRUG2 Structural Bioinformatics Group drugs targets targets, dose, side effects, Canonical SMILES
List_of_chemical_databases
C M Deane, MA Oxf, PhD Camb, Fellow of Kellogg: Professor of Structural Bioinformatics L M Herz, PhD Camb, Dipl Bonn, Fellow of Brasenose: Professor
Titles of distinction awarded by the University of Oxford
Titles_of_distinction_awarded_by_the_University_of_Oxford
Basepairing interactions within a single nucleic acid polymer or between two polymers
pseudoknotted RNA structures in dot-bracket notation". Bioinformatics. 34 (8): 1304–1312. doi:10.1093/bioinformatics/btx783. PMC 5905660. PMID 29236971. Mattei,
Nucleic acid secondary structure
Nucleic_acid_secondary_structure
American biophysicist
of protein structure" 1981, an early hallmark publication in structural bioinformatics. The diagrams have since become a standard way of visualizing
Jane_S._Richardson
STRUCTURAL BIOINFORMATICS
STRUCTURAL BIOINFORMATICS
Girl/Female
Indian
Shape, Structure
Girl/Female
Tamil
Shape, Structure
Girl/Female
Tamil
Shape, Structure
Boy/Male
Afghan, Arabic, Gujarati, Indian, Muslim
Solid Structure; Lifetime
Girl/Female
Indian
Shape, Structure
Boy/Male
Muslim
Solid structure
Boy/Male
Indian
Good Structure
Boy/Male
Indian
Solid structure
Surname or Lastname
English
English : occupational name for a wattler, Middle English watelere, i.e. someone who made the panels of interwoven twigs that were used to fill the spaces between the structural timbers of a timber frame building. See also Dauber.
Girl/Female
Hindu, Indian, Telugu
The Structure of God
Girl/Female
Indian, Kashmiri
Body Structure
Girl/Female
Indian
Structure
STRUCTURAL BIOINFORMATICS
STRUCTURAL BIOINFORMATICS
Girl/Female
Tamil
A creeper with flowers
Boy/Male
Gujarati, Hindu, Indian
Great Joy; Rainfall; Lord Krishna
Boy/Male
Arabic, Malaysian, Muslim
Ancestor of the Prophet Muhammad Called Abd Manaaf
Surname or Lastname
English
English : topographic name for someone who lived in a village, as opposed to an outlying farm or hamlet, from Middle English toun (Old English tūn, which originally meant ‘fence’ and then ‘enclosure’, although the sense ‘settlement, village’ was already firmly established in the Old English period)
Boy/Male
Indian, Sanskrit
Mighty; Powerful; A King of Ancient Bharata
Boy/Male
Irish
Hooded.
Girl/Female
Tamil
A song, World, Universe
Boy/Male
Native American
Chief.
Girl/Female
Hindu
Brilliant
Boy/Male
Indian, Punjabi, Sikh
Limitless God
STRUCTURAL BIOINFORMATICS
STRUCTURAL BIOINFORMATICS
STRUCTURAL BIOINFORMATICS
STRUCTURAL BIOINFORMATICS
STRUCTURAL BIOINFORMATICS
n.
Organic structure; organization.
n.
Having the color spots, or structural parts, arranged spirally.
a.
Being of the same typical structure; having like relations to a fundamental type to structure; as, those bones in the hand of man and the fore foot of a horse are homologous that correspond in their structural relations, that is, in their relations to the type structure of the fore limb in vertebrates.
n.
Manner of building; form; make; construction.
n.
Manner of organization; the arrangement of the different tissues or parts of animal and vegetable organisms; as, organic structure, or the structure of animals and plants; cellular structure.
v. t.
To determine the homologies or structural relations of.
a.
A typical, structural unit; a type.
a.
Resembling shale in structure.
a.
Having a definite organic structure; showing differentiation of parts.
n.
Composition, or structure.
a.
Of lofty structure; tall.
a.
Of or pertaining to structure; affecting structure; as, a structural error.
a.
Of or pertaining to organit structure; as, a structural element or cell; the structural peculiarities of an animal or a plant.
a.
Bearing teeth or toothlike structures.
n.
That which is built; a building; esp., a building of some size or magnificence; an edifice.
n.
Arrangement of parts, of organs, or of constituent particles, in a substance or body; as, the structure of a rock or a mineral; the structure of a sentence.
a.
Pertaining to an edifice; structural.
n.
Framework; structure; edifice; building.
n.
Union of parts; structure.
n.
The act of building; the practice of erecting buildings; construction.