Results 61 to 70 of about 5,216,846 (353)

Denovo-GCN: De Novo Peptide Sequencing by Graph Convolutional Neural Networks

Applied Sciences, 2023
The de novo peptide-sequencing method can be used to directly infer the peptide sequence from a tandem mass spectrum. It has the advantage of not relying on protein databases and plays a key role in the determination of the protein sequences of unknown ...
Ruitao Wu, Xiang Zhang, Runtao Wang, Haipeng Wang   +3 more
doaj   +1 more source

De novo peptide sequencing using exhaustive enumeration of peptide composition [PDF]

Journal of the American Society for Mass Spectrometry, 2006
We introduce the use of a peptide composition lookup table indexed by residual mass and number of amino acids for de novo sequencing of polypeptides. Polypeptides of 1600 Daltons (Da) or more can be sequenced effectively through exhaustive compositional analysis of MS/MS spectra obtained by unimolecular decomposition (without CID) in a MALDI TOF/TOF ...
Olson, Matthew T., Epstein, Jonathan A., Yergey, Alfred L.   +2 more
openaire   +2 more sources

Nucleic Acid Carriers Based on Precise Polymer Conjugates [PDF]

, 2011
Polymer polydispersity, random conjugation of functional groups, and poorly understood structure–activity relationships have constantly hampered progress in the development of nucleic acid carriers.
Troiber, Christina, Wagner, Ernst
core   +1 more source

Mapping the evolution of mitochondrial complex I through structural variation

FEBS Letters, EarlyView.
Respiratory complex I (CI) is crucial for bioenergetic metabolism in many prokaryotes and eukaryotes. It is composed of a conserved set of core subunits and additional accessory subunits that vary depending on the organism. Here, we categorize CI subunits from available structures to map the evolution of CI across eukaryotes. Respiratory complex I (CI)
Dong‐Woo Shin, Tingting Chen, James A. Letts   +2 more
wiley   +1 more source

APD3: the antimicrobial peptide database as a tool for research and education

Nucleic Acids Res., 2015
The antimicrobial peptide database (APD, http://aps.unmc.edu/AP/) is an original database initially online in 2003. The APD2 (2009 version) has been regularly updated and further expanded into the APD3.
Guangshun Wang, Xia Li, Zhe Wang
semanticscholar   +1 more source

A Dynamic Programming Approach to De Novo Peptide Sequencing via Tandem Mass Spectrometry [PDF]

, 2001
The tandem mass spectrometry fragments a large number of molecules of the same peptide sequence into charged prefix and suffix subsequences, and then measures mass/charge ratios of these ions.
Chen, Ting, Church, George M., Kao, Ming-Yang, Rush, John, Tepel, Matthew   +4 more
core   +3 more sources

Spatiotemporal and quantitative analyses of phosphoinositides – fluorescent probe—and mass spectrometry‐based approaches

FEBS Letters, EarlyView.
Fluorescent probes allow dynamic visualization of phosphoinositides in living cells (left), whereas mass spectrometry provides high‐sensitivity, isomer‐resolved quantitation (right). Their synergistic use captures complementary aspects of lipid signaling. This review illustrates how these approaches reveal the spatiotemporal regulation and quantitative
Hiroaki Kajiho, Shin Morioka, Junko Sasaki, Takehiko Sasaki   +3 more
wiley   +1 more source

By dawn or dusk—how circadian timing rewrites bacterial infection outcomes

FEBS Letters, EarlyView.
The circadian clock shapes immune function, yet its influence on infection outcomes is only beginning to be understood. This review highlights how circadian timing alters host responses to the bacterial pathogens Salmonella enterica, Listeria monocytogenes, and Streptococcus pneumoniae revealing that the effectiveness of immune defense depends not only
Devons Mo, Catherine S. Palmer, Jacqueline M. Kimmey   +2 more
wiley   +1 more source

Proteomic definition of a desmoglein linear determinant common to Pemphigus vulgaris and Pemphigus foliaceous

Journal of Translational Medicine, 2006
Background A number of autoimmune diseases have been clinically and pathologically characterized. In contrast, target antigens have been identified only in a few cases and, in these few cases, the knowledge of the exact epitopic antigenic sequence is ...
Sinha Animesh A, Serpico Rosario, Tessitore Luciana, Mittelman Abraham, Lucchese Alberta, Kanduc Darja   +5 more
doaj   +1 more source

Crosstalk between the ribosome quality control‐associated E3 ubiquitin ligases LTN1 and RNF10

FEBS Letters, EarlyView.
Loss of the E3 ligase LTN1, the ubiquitin‐like modifier UFM1, or the deubiquitinating enzyme UFSP2 disrupts endoplasmic reticulum–ribosome quality control (ER‐RQC), a pathway that removes stalled ribosomes and faulty proteins. This disruption may trigger a compensatory response to ER‐RQC defects, including increased expression of the E3 ligase RNF10 ...
Yuxi Huang, Satoshi Hashimoto, Sota Ito, Chisato Kikuguchi, Miho Hoshi, Kiyoshi Yamaguchi, Yoichi Furukawa, Toru Suzuki, Toshifumi Inada   +8 more
wiley   +1 more source