Improving the proteome coverage of Daphnia magna ‐ implications for future ecotoxicoproteomics studies
Sign Up to like & getrecommendations! Published in 2022 at "PROTEOMICS"
DOI: 10.1002/pmic.202100289
Abstract: Aquatic pollution is an increasing problem and requires extensive research efforts to understand associated consequences and to find suitable solutions. The crustacean Daphnia is a keystone species in lacustrine ecosystems by connecting primary producers with… read more here.
Keywords: proteome coverage; daphnia; improving proteome; coverage daphnia ... See more keywords
Enhancement of Proteome Coverage by Ion Mobility Fractionation Coupled to PASEF on a TIMS-QTOF Instrument.
Sign Up to like & getrecommendations! Published in 2022 at "Journal of proteome research"
DOI: 10.1021/acs.jproteome.2c00336
Abstract: Trapped ion-mobility spectrometry (TIMS) was used to fractionate ions in the gas phase based on their ion mobility (V s/cm2), followed by parallel accumulation-serial fragmentation (PASEF) using a quadrupole time-of-flight instrument to determine the effect… read more here.
Keywords: pasef; proteome coverage; ion mobility; ion ... See more keywords
DIA-NN: Neural networks and interference correction enable deep proteome coverage in high throughput
Sign Up to like & getrecommendations! Published in 2019 at "Nature methods"
DOI: 10.1038/s41592-019-0638-x
Abstract: We present an easy-to-use integrated software suite, DIA-NN, that exploits deep neural networks and new quantification and signal correction strategies for the processing of data-independent acquisition (DIA) proteomics experiments. DIA-NN improves the identification and quantification… read more here.
Keywords: deep proteome; neural networks; proteome coverage; correction ... See more keywords
Lost and Found: Re-searching and Re-scoring Proteomics Data Aids Genome Annotation and Improves Proteome Coverage
Sign Up to like & getrecommendations! Published in 2020 at "mSystems"
DOI: 10.1128/msystems.00833-20
Abstract: Delineation of open reading frames (ORFs) causes persistent inconsistencies in prokaryote genome annotation. We demonstrate that by advanced (re)analysis of omics data, a higher proteome coverage and sensitive detection of unannotated ORFs can be achieved,… read more here.
Keywords: lost found; found searching; proteome coverage; genome annotation ... See more keywords