Sort   by:  
 Page size 
MetabolomicsLipid Data Analyzer: The LDA algorithm against the in silico library LipidBlast (LipidBlast benchmarking experiment)
Lipid Data Analyzer (LDA; http://genome.tugraz.at/lda2) provides automated and reliable annotation of lipid species and their molecular structures in high-throughput data from chromatography-coupled tandem mass spectrometry using embedded rule sets. Using various low- and high-resolution mass spectr...
2017-11-07 | MTBLS397 | MetaboLights
MetabolomicsThe Cancer-Associated Microbe Library reveals functional host-microbe interactions during colorectal cancer progression

Functional characterization of microbes which colonize CRC is impeded by a lack of bacterial strains from tumor tissues. Here, we report the Cancer-Associated Microbe Library (CAM-L), comprising more than 3,000 viable bacterial isolates, representing 121 distinct species, and 60 matching organoid...

2026-02-08 | MTBLS7385 | MetaboLights
GenomicsScalable whole-genome single-cell library preparation without pre-amplification
Single-cell genomics is critical for understanding cellular heterogeneity in cancer, but existing library preparation methods are expensive, require sample preamplification and introduce coverage bias. Here we describe direct library preparation (DLP), a robust, scalable, and high-fidelity method th...
EGAS00001002170 | EGA
ProteomicsEvaluation of library-free strategies for phosphoproteomics and ubiquitinomics data-independent acquisition data
Phosphoproteomics and ubiquitinomics data-independent acquisition MS data is generally analyzed using a DDA spectral library. Performance of different library-free strategies of analyzing phosphoproteomics and ubiquitinomics DIA MS data are not evaluated. In this study, we assess three library-free ...
ORGANISM(S): Homo Sapiens 
2023-05-17 | PXD037870 |
ProteomicsDirect data-independent acquisition proteomics with in silico spectral libraries by deep learning
Data-independent acquisition (DIA) proteomics allows systematic and unbiased measurement of protein samples and enables fast quantitative analysis of large cohorts of samples. However, sample-specific spectral libraries are usually required prior to perform DIA experiments. The libraries are built b...
ORGANISM(S): Homo Sapiens 
2019-12-02 | PXD014108 |
ProteomicsBenchmarking DIA data analysis workflows
Data independent acquisition (DIA) has become a well-established method in LC-MS driven proteomics. Nonetheless, there are still a lot of possibilities at the data analysis level. By benchmarking different DIA analysis workflows through a ground truth sample mimicking real differential abundance sam...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2024-05-06 | PXD044981 | Pride
Shotgun proteomics In silico library Lc-ms Dda library Data analysis Benchmark Dia Library free 
ProteomicsCarafe enables high quality in silico spectral library generation for data-independent acquisition proteomics
Data-independent acquisition (DIA)-based mass spectrometry is becoming an increasingly popular mass spectrometry acquisition strategy for carrying out quantitative proteomics experiments. Most of the popular DIA search engines make use of in silico generated spectral libraries. However, the generati...
ORGANISM(S): Homo Sapiens Saccharomyces Cerevisiae 
2025-11-09 | PXD056793 | panorama
TranscriptomicsIdentification of testis-relevant genes from testes ESTs and cDNA microarray in the black tiger shrimp
Identification of testis-relevant genes using in silico analysis from testes ESTs and cDNA microarray in the black tiger shrimp (Penaeus monodon) A total of 4,803 ESTs from the testis library were unidirectionally sequenced and analyzed in silico using a customizable data analysis package, ESTplus. ...
ORGANISM(S): Penaeus monodon 
2010-11-04 | E-GEOD-19037 | biostudies-arrayexpress
UnknownSynthesis and in silico screening of a library of β-carboline-containing compounds.
Not available
S-EPMC3458722 | biostudies-literature
MetabolomicsLipidCreator workbench to probe the lipidomic landscape - Collision Energy Optimization and Fragment Intensity Prediction for Lipid Mediators, Agilent QTof

Here we present LipidCreator, a software that fully supports targeted lipidomics assay development. LipidCreator offers a comprehensive framework to compute MS/MS fragment masses for over 60 lipid classes. LipidCreator provides all functionalities needed to define fragments, manage stable isotope...

2020-04-15 | MTBLS1334 | MetaboLights
Sort   by:  
 Page size