Nucleic Acid Database (NDB)
[email protected] ©1995-2023 The Nucleic Acid Database Project , Rutgers, The State University of New Jersey ... Important Notice: The Nucleic Acid Knowledgebase (nakb.org), a new web-based data resource for experimentally-determined ... A Portal for Three-dimensional Structural Information about Nucleic Acids. As of 14-Jul-2023 number of released structures: ... and a nucleic-acid community web and software resource list. The NDB website (ndbserver.rutgers.edu) has been retired as of ...
Laboratory Diagnostics and Testing Guidance for COVID-19: Laboratory Studies, Specimen Selection, Collection, and Transport,...
... viral nucleic acid (RNA) detection, viral antigen detection, and detection of antibodies to the virus. Viral tests (nucleic ... Cochrane Database Syst Rev. 2020 Aug 26. 8:CD013705. [QxMD MEDLINE Link]. [Full Text]. ... Nucleic Acid Detection. The currently recommended modality for the diagnosis of acute or current SARS-CoV-2 infection is a ... 9] : nucleic acid amplification based on reverse transcription polymerase chain reaction (RT-PCR) assays, and SARS-CoV-2 RNA ...
Laboratory Diagnostics and Testing Guidance for COVID-19: Laboratory Studies, Specimen Selection, Collection, and Transport,...
... viral nucleic acid (RNA) detection, viral antigen detection, and detection of antibodies to the virus. Viral tests (nucleic ... Cochrane Database Syst Rev. 2020 Aug 26. 8:CD013705. [QxMD MEDLINE Link]. [Full Text]. ... Nucleic Acid Detection. The currently recommended modality for the diagnosis of acute or current SARS-CoV-2 infection is a ... 9] : nucleic acid amplification based on reverse transcription polymerase chain reaction (RT-PCR) assays, and SARS-CoV-2 RNA ...
Brix (database) - Wikipedia
... a database of protein building blocks for structural analysis, modeling and design". Nucleic Acids Res. England. 39 (Database ... BriX is a database containing some protein fragments from 4 to 14 residue from non-homologous proteins. There are very few ... http://brix.crg.es v t e (Biological databases, Protein structure, Peptides, Computer-related introductions in 2010, All stub ...
In vitro interaction network of a synthetic gut bacterial community | The ISME Journal
The MetaCyc database of metabolic pathways and enzymes - a 2019 update. Nucleic Acids Res. 2020;48:D445-D53. ... Saier MH Jr, Reddy VS, Tamang DG, Vastermark A. The transporter classification database. Nucleic Acids Res. 2014;42:D251-8. ... HMDB 4.0: the human metabolome database for 2018. Nucleic Acids Res. 2018;46:D608-D17. ... Both Bacteroidales strains produced acetic acid, succinic acid as well as branched-chain fatty acids. Both Lachnospiraceae ...
HLA-B gene: MedlinePlus Genetics
The IPD and IMGT/HLA database: allele variant databases. Nucleic Acids Res. 2015 Jan;43(Database issue):D423-31. doi: 10.1093/ ... amino acid). This variety allows each persons immune system to react to a wide range of foreign invaders. Most HLA-B gene ... which is a form of arthritis caused by a buildup of uric acid in the joints). This association has been confirmed in southeast ...
Towards zoomable multidimensional maps of the cell | Nature Biotechnology
Kanehisa, M., Goto, S., Kawashima, S. & Nakaya, A. The KEGG databases at GenomeNet. Nucleic Acids Res. 30, 42-46 (2002). ... The COG database: an updated version includes eukaryotes. BMC Bioinformatics [online] 4, 41 (2003). ... Mellor, J.C., Yanai, I., Clodfelter, K.H., Mintseris, J. & DeLisi, C. Predictome: a database of putative functional links ... where each metanode represents a set of orthologous eukaryotic genes from the COG database53.. ...
Metadata - Wikipedia
"Nucleic Acids Research. 39 (Database): D19-D21. doi:10.1093/nar/gkq1019. ISSN 0305-1048. PMC 3013647. PMID 21062823.. ... Database management[edit]. Each relational database system has its own mechanisms for storing metadata. Examples of relational- ... biomedical databases after publication. The original authors and database curators then become responsible for metadata ... many libraries replaced these paper file cards with computer databases. These computer databases make it much easier and faster ...
6IX5: The structure of LepI complex with SAM and its substrate analogue
2OLP: Structure and ligand selection of hemoglobin II from Lucina pectinata
GenBank Overview
GenBank ® is the NIH genetic sequence database, an annotated collection of all publicly available DNA sequences (Nucleic Acids ... Public nucleic acid sequence repository. Search database. Nucleotide. All Databases. Assembly. Biocollections. BioProject. ... The GenBank database is designed to provide and encourage access within the scientific community to the most up-to-date and ... See BLAST info for more information about the numerous BLAST databases. ...
Appendix Figure 4 - Genotyping, Orientalis-like Yersinia pestis, and Plague Pandemics - Volume 10, Number 9-September 2004 -...
Pfam: the protein families database. | Nucleic Acids Res;42(Database issue): D222-30, 2014 Jan. | MEDLINE | BVS CLAP/SMR...
Pfam: the protein families database.. Finn, Robert D; Bateman, Alex; Clements, Jody; Coggill, Penelope; Eberhardt, Ruth Y; Eddy ... is a widely used database of protein families, containing 14 831 manually curated entries in the current release, version 27.0 ... increase in the size of the underlying sequence database. Since our 2012 article describing Pfam, we have also undertaken a ...
UUCD: a family-based database of ubiquitin and ubiquitin-like conjugation
... we developed a family-based database of UUCD (http://uucd.biocuckoo.org) for ubiquitin and ubiquitin-like conjugation, which is ... UUCD: a family-based database of ubiquitin and ubiquitin-like conjugation Nucleic Acids Res. 2013 Jan;41(Database issue):D445- ... Then the UUCD database was developed with 738 E1s, 2937 E2s, 46 631 E3s and 6647 DUBs of 70 eukaryotic species. The detailed ... In this work, we developed a family-based database of UUCD (http://uucd.biocuckoo.org) for ubiquitin and ubiquitin-like ...
Life | Free Full-Text | Gut Hormones as Potential Therapeutic Targets or Biomarkers of Response in Depression: The Case of...
... based on a literature search of three scientific databases, and (2) an analysis of the relationship between a functional ... ALFRED: The ALlele FREquency Database. Update. Nucleic Acids Res. 2003, 31, 270-271. [Google Scholar] [CrossRef] [PubMed][Green ... changes in immune-inflammatory activity and changes in the metabolism of specific amino acids and fatty acids [21]. Evidence of ... Cochrane Database Syst. Rev. 2008, 2008, CD001690. [Google Scholar] [CrossRef]. *Pae, C.-U.; Mandelli, L.; Kim, T.-S.; Han, C ...
RCSB PDB - ANL Ligand Summary Page
Making trend graphs
Nucleic Acids Research. 2011;39(Database):D58-D65. https://doi.org/10.1093/nar/gkq1063.↩︎ ...
ModBase, a database of annotated comparative protein structure models and associated resources
... is a database of annotated comparative protein structure models. The models are calculated by ModPipe, an automated modeling ... Nucleic Acids Res. 2014 Jan;42(Database issue):D336-46. doi: 10.1093/nar/gkt1144. Epub 2013 Nov 23. ... ModBase, a database of annotated comparative protein structure models and associated resources ... ModBase (http://salilab.org/modbase) is a database of annotated comparative protein structure models. The models are calculated ...
Molecules | Free Full-Text | Molecular Docking and Structure-Based Drug Design Strategies
Nucleic Acids Res. 2006, 34, D668-D672. [Google Scholar] [CrossRef] [PubMed]. *The Binding Database. Available online: www. ... The ChEMBL bioactivity database: An update. Nucleic Acids Res. 2014, 42, D1083-D1090. [Google Scholar] [CrossRef] [PubMed] ... A small-molecule screening and cheminformatics resource database. Nucleic Acids Res. 2008, 36, D351-D359. [Google Scholar] [ ... Nucleic Acids Res. 2008, 36, W223-W228. [Google Scholar] [CrossRef] [PubMed]. *Van Drie, J.H.; Weininger, D.; Martin, Y.C. ...
RCSB PDB - BLI Ligand Summary Page
Nucleic Acids Res. 2011 Jan; 39 (Database issue):D1035-41. , PMID:21059682 ... 4-OXO-2-PHENYLMETHANESULFONYL-OCTAHYDRO-PYRROLO[1,2-A]PYRAZINE-6-CARBOXYLIC ACID [1-(N-HYDROXYCARBAMIMIDOYL)-PIPERIDIN-4- ... 4-OXO-2-PHENYLMETHANESULFONYL-OCTAHYDRO-PYRROLO[1,2-A]PYRAZINE-6-CARBOXYLIC ACID [1-(N-HYDROXYCARBAMIMIDOYL)-PIPERIDIN-4- ... 4-Oxo-2-Phenylmethanesulfonyl-Octahydro-Pyrrolo[1,2-a]Pyrazine-6-Carboxylic Acid [1-(N-Hydroxycarbamimidoyl)-Piperidin-4- ...
Alzheimer Disease in Down Syndrome: Overview, Pathophysiology/Risk Factors, Epidemiology
Nucleic Acids Res. 2004 Jan 1. 32 (Database issue):D109-11. [QxMD MEDLINE Link]. ... Sauer J, Tabet N, Howard R. Alpha lipoic acid for dementia. Cochrane Database Syst Rev. 2004. (1):CD004244. ... 200 mg of ascorbic acid, and 600 mg of alpha-lipoic acid) in 53 persons with DS and dementia. [150] Although supplementation ... A study of the use of lipoic acid in persons with DS failed to show any clinical impact. [146] A Cochrane report also found no ...
De novo missense variants disrupting protein-protein interactions affect risk for autism through gene co-expression and protein...
MIPS: curated databases and comprehensive secondary data resources in 2010. Nucleic Acids Res. 2011;39(Database issue):D220-224 ... The BioGRID interaction database: 2015 update. Nucleic Acids Res. 2015;43(Database issue):D470-478. ... Human protein reference database-2009 update. Nucleic Acids Res. 2009;37(Database issue):D767-772. ... IntAct: an open source molecular interaction database. Nucleic Acids Res. 2004;32(Database issue):D452-455. ...
IUCr) Databases for intrinsically disordered proteins
Miskei, M., Antal, C. & Fuxreiter, M. (2017). Nucleic Acids Res. 45, D228-D235. CrossRef CAS PubMed Google Scholar. Mistry, J ... Curated databases are indicated with a check mark, deposition databases with a database icon and databases with predicted data ... We describe (i) manually curated IDR databases, (ii) predicted IDR databases, (iii) deposition databases and (iv) liquid-liquid ... PDBe-KB Consortium (2020). Nucleic Acids Res. 48, D344-D353. Web of Science CrossRef PubMed Google Scholar. Piovesan, D., Necci ...
Frontiers | Identification of Type VI Secretion Systems Effector Proteins That Contribute to Interbacterial Competition in...
Kanehisa, M., Goto, S., Kawashima, S., and Nakaya, A. (2002). The KEGG databases at GenomeNet. Nucleic Acids Res. 30, 42-46. ... 2019). CDD/SPARCLE: the conserved domain database in 2020. Nucleic Acids Res. 48, D265-D268. doi: 10.1093/nar/gkz991 ... 2014). Pfam: the protein families database. Nucleic Acids Res. 42, D222-D230. doi: 10.1093/nar/gkt1223 ... This ORF (Bastion6 score = 0,909) encodes a large 924 amino acid protein with both a RHS and an Ntox47 protein domain, involved ...
Semantic prioritization of novel causative genomic variants | PLOS Computational Biology
... by using the similarity of the patients phenotype to known phenotype-genotype data in human and model organism databases to ... ChEBI: a database and ontology for chemical entities of biological interest. Nucleic Acids Research. 2008;36(Database issue): ... Mouse genome database 2016. Nucleic Acids Research. 2016;44(D1):D840-D847. pmid:26578600 * View Article ... ZFIN, the Zebrafish Model Organism Database: increased support for mutants and transgenics. Nucleic Acids Research. 2013;41(D1 ...
Frontiers | Probiotic Properties of Bifidobacterium longum KABP042 and Pediococcus pentosaceus KABP041 Show Potential to...
Pathogens inhibition was mostly mediated by the production of organic acids, but neutralization experiments strongly suggested ... 2015). CDD: NCBIs conserved domain database. Nucleic Acids Res. 43, D222-D226. doi: 10.1093/nar/gku1221 ... 2020). CARD 2020: antibiotic resistome surveillance with the comprehensive antibiotic resistance database. Nucleic Acids Res. ... genomes are included in BAGEL4 database. Interestingly, the combination of B. longum KABP042 and P. pentosaceus KABP041 ...
JCI - The Mycobacterium tuberculosis genome at 25 years: lessons and lingering questions
The Immune Epitope Database (IEDB): 2018 update. Nucleic Acids Res. 2019;47(d1):D339-D343.. View this article via: CrossRef ... Cochrane Database Syst Rev. 2022;5(5):CD014841. View this article via: PubMed Google Scholar ... named for the conserved Pro-Glu and Pro-Pro-Glu amino acids near their N-termini, which were uniquely discovered by M. ... despite evidence that pretomanid treatment impaired synthesis of ketomycolic acids, this was unlikely to be the mechanism of M ...