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Mass Frontier
Mass spectrometry software is software used for data acquisition, analysis, or representation in mass spectrometry. Proteomics software In protein mass spectrometry, tandem mass spectrometry (also known as MS/MS or MS2) experiments are used for protein/peptide identification. Peptide identification algorithms fall into two broad classes: database search and ''de novo'' search. The former search takes place against a database containing all amino acid sequences assumed to be present in the analyzed sample, whereas the latter infers peptide sequences without knowledge of genomic data. Database search algorithms De novo sequencing algorithms De novo peptide sequencing algorithms are based, in general, on the approach proposed in Bartels ''et al.'' (1990). Homology searching algorithms MS/MS peptide quantification Other software See also * Mass spectrometry data format: for a list of mass spectrometry data viewers and format converters. * List of protei ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Software
Software is a set of computer programs and associated documentation and data. This is in contrast to hardware, from which the system is built and which actually performs the work. At the lowest programming level, executable code consists of machine language instructions supported by an individual processor—typically a central processing unit (CPU) or a graphics processing unit (GPU). Machine language consists of groups of binary values signifying processor instructions that change the state of the computer from its preceding state. For example, an instruction may change the value stored in a particular storage location in the computer—an effect that is not directly observable to the user. An instruction may also invoke one of many input or output operations, for example displaying some text on a computer screen; causing state changes which should be visible to the user. The processor executes the instructions in the order they are provided, unless it is instructed ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Post-translational Modification
Post-translational modification (PTM) is the covalent and generally enzymatic modification of proteins following protein biosynthesis. This process occurs in the endoplasmic reticulum and the golgi apparatus. Proteins are synthesized by ribosomes translating mRNA into polypeptide chains, which may then undergo PTM to form the mature protein product. PTMs are important components in cell signaling, as for example when prohormones are converted to hormones. Post-translational modifications can occur on the amino acid side chains or at the protein's C- or N- termini. They can extend the chemical repertoire of the 20 standard amino acids by modifying an existing functional group or introducing a new one such as phosphate. Phosphorylation is a highly effective mechanism for regulating the activity of enzymes and is the most common post-translational modification. Many eukaryotic and prokaryotic proteins also have carbohydrate molecules attached to them in a process called glycosyla ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Charité
The Charité – Universitätsmedizin Berlin (Charité – Berlin University of Medicine) is one of Europe's largest university hospitals, affiliated with Humboldt University and Free University Berlin. With numerous Collaborative Research Centres of the German Research Foundation it is one of Germany's most research-intensive medical institutions. From 2012 to 2022, it was ranked by ''Focus'' as the best of over 1000 hospitals in Germany. In 2019 to 2022 ''Newsweek'' ranked the Charité as the 5th best hospital in the world, and the best in Europe. More than half of all German Nobel Prize winners in Physiology or Medicine, including Emil von Behring, Robert Koch and Paul Ehrlich, have worked at the Charité. Several politicians and diplomats have been treated at the Charité, including German Chancellor Angela Merkel, who underwent meniscus treatment at the Orthopaedic Department, Yulia Tymoshenko from Ukraine, and more recently Russian opposition leader Alexei Navalny, who re ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Data-independent Acquisition
In mass spectrometry, data-independent acquisition (DIA) is a method of molecular structure determination in which all ions within a selected '' m/z'' range are fragmented and analyzed in a second stage of tandem mass spectrometry. Tandem mass spectra are acquired either by fragmenting all ions that enter the mass spectrometer at a given time (called broadband DIA) or by sequentially isolating and fragmenting ranges of '' m/z''. DIA is an alternative to data-dependent acquisition (DDA) where a fixed number of precursor ions are selected and analyzed by tandem mass spectrometry. Broadband One of the first DIA approaches was a nozzle-skimmer dissociation method called shotgun collision-induced dissociation (CID). Fragmentation can be in the ion source of the mass spectrometer by increasing the nozzle-skimmer voltage in electrospray ionization. MSE is a broadband DIA technique that uses alternating low-energy CID and high-energy CID. The low-energy CID is used to acquire precursor ion ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
OpenMS
OpenMS is an open-source project for data analysis and processing in mass spectrometry and is released under the 3-clause BSD licence. It supports most common operating systems including Microsoft Windows, MacOS and Linux. OpenMS has tools for analysis of proteomics data, providing algorithms for signal processing, feature finding (including de-isotoping), visualization in 1D (spectra or chromatogram level), 2D and 3D, map mapping and peptide identification. It supports label-free and isotopic-label based quantification (such as iTRAQ and TMT and SILAC). OpenMS also supports metabolomics workflows and targeted analysis of DIA/SWATH data. Furthermore, OpenMS provides tools for the analysis of cross linking data, including protein-protein, protein-RNA and protein-DNA cross linking. Lastly, OpenMS provides tools for analysis of RNA mass spectrometry data. History OpenMS was originally released in 2007 in version 1.0 and was described in two articles published in Bioinformatics ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
University Of California San Francisco
The University of California, San Francisco (UCSF) is a public land-grant research university in San Francisco, California. It is part of the University of California system and is dedicated entirely to health science and life science. It conducts research and teaching in Medicine, medical and biology, biological sciences. UCSF was founded as Toland Medical College in 1864. in 1873, it became affiliated with the University of California as its Medical Department. In the same year, it incorporated the California College of Pharmacy and in 1881 it established a dentistry school. Its facilities were located in both Berkeley, California, Berkeley and San Francisco. In 1964, the school gained full administrative independence as a campus of the UC system, headed by its own chancellor, and in 1970 it gained its current name. Historically based at List of neighborhoods in San Francisco#Parnassus, Parnassus Heights with satellite facilities throughout the city, UCSF developed a second ma ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Proteoform
Proteoforms are the different forms of a protein produced from the genome with a variety of sequence variations, splice isoforms, and post-translational modifications Post-translational modification (PTM) is the covalent and generally enzymatic modification of proteins following protein biosynthesis. This process occurs in the endoplasmic reticulum and the golgi apparatus. Proteins are synthesized by ribosom .... Proteoform captures the disparate sources of biological variation which alter primary sequence and composition at the whole-protein level. Protein characterization at the proteoform level has a crucial importance to fully understand biological processes since specific proteoforms can carry particular biological functions. The proteoforms estimation in human can be in millions for around 20,000 proteins. References Protein classification {{Biology-stub ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Swiss Institute Of Bioinformatics
The SIB Swiss Institute of Bioinformatics is an academic not-for-profit foundation which federates bioinformatics activities throughout Switzerland. The institute was established on 30 March 1998 and its mission is to provide core bioinformatics resources to the national and international life science research community in fields such as genomics, proteomics and systems biology as well as to lead and coordinate the field of bioinformatics in Switzerland. In particular, it promotes research, develops databanks and computer technologies, and is involved in teaching and service activities. History The institute was originally created to provide a framework for stable long-term funding for both the Swiss-Prot database and the Swiss EMBnet node. Swiss-Prot in particular went through a major funding crisis in 1996, which led the leaders of the five research groups active in bioinformatics in Geneva and Lausanne, Ron Appel, Amos Bairoch, Philipp Bucher, Victor Jongeneel a ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
PEAKS (software)
Peak or The Peak may refer to: Basic meanings Geology * Mountain peak ** Pyramidal peak, a mountaintop that has been sculpted by erosion to form a point Mathematics * Peak hour or rush hour, in traffic congestion * Peak (geometry), an (''n''-3)-dimensional element of a polytope * Peak electricity demand or peak usage * Peak-to-peak, the highest (or sometimes the highest and lowest) points on a varying waveform * Peak (pharmacology), the time at which a drug reaches its maximum plasma concentration * Peak experience, psychological term for a euphoric mental state Resource production In terms of resource production, the peak is the moment when the production of a resource reaches a maximum level, after which it declines; in particular see: * Peak oil * Peak car * Peak coal * Peak copper * Peak farmland * Peak gas * Peak gold * Peak minerals * Peak phosphorus * Peak uranium * Peak water * Peak wheat * Peak wood Other basic meanings * Visor, a part of a hat, known as a "peak" in Britis ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
National Center For Biotechnology Information
The National Center for Biotechnology Information (NCBI) is part of the United States National Library of Medicine (NLM), a branch of the National Institutes of Health (NIH). It is approved and funded by the government of the United States. The NCBI is located in Bethesda, Maryland, and was founded in 1988 through legislation sponsored by US Congressman Claude Pepper. The NCBI houses a series of databases relevant to biotechnology and biomedicine and is an important resource for bioinformatics tools and services. Major databases include GenBank for DNA sequences and PubMed, a bibliographic database for biomedical literature. Other databases include the NCBI Epigenomics database. All these databases are available online through the Entrez search engine. NCBI was directed by David Lipman, one of the original authors of the BLAST sequence alignment program and a widely respected figure in bioinformatics. GenBank NCBI had responsibility for making available the GenBank DNA seque ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Vanderbilt University Medical Center
The Vanderbilt University Medical Center (VUMC) is a medical provider with multiple hospitals in Nashville, Tennessee, as well as clinics and facilities throughout Middle Tennessee. VUMC is an independent non-profit organization, but maintains academic affiliations with Vanderbilt University. As of 2022, the health system had more than 3 million patient visits a year, a workforce of 40,000, and 1,709 licensed hospital beds. Overview VUMC comprises the following units: * Vanderbilt University Adult Hospital * Monroe Carell Jr. Children's Hospital at Vanderbilt * Vanderbilt-Ingram Cancer Center * The Vanderbilt Clinic * Vanderbilt Bill Wilkerson Center * Vanderbilt Stallworth Rehabilitation Hospital * Vanderbilt Psychiatric Hospital * Eskind Biomedical Library * Vanderbilt Sports Medicine * Dayani Human Performance Center * Vanderbilt Heart & Vascular Institute *Nashville Biosciences (''aka'' NashBio), a subsidiary spun out from the university in 2018 VUMC also has hospitals, clin ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
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