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MetabolomicsPrediction, detection, and validation of isotope peaks in mass spectrometry data (Supplemental data for manuscript)
Mass spectrometry is a key analytical platform for metabolomics. The precise quantification and identification of small molecules is a prerequisite for elucidating the metabolism and the detection, validation, and evaluation of isotope clusters in LC-MS data is important for this task. Here, we pres...
2016-10-30 | MTBLS381 | MetaboLights
MetabolomicsDistribution of RESV and its metabolite peaks in mouse tissues after oral and skin administration
Resveratrol (RESV) is a plant polyphenol, which is thought to have beneficial metabolic effects in laboratory animals as well as in humans. Following oral administration, RESV is immediately catabolized, resulting in low bioavailability. This study compared RESV metabolites and their tissue distribu...
2014-12-15 | MTBLS125 | MetaboLights
GenomicsActive Promoters give rise to false positive 'Phantom Peaks' in ChIP-Seq experiments
We applied ChIP-seq to map the chromosomal binding sites for two nucleosome remodeling complexes containing the ATPase ISWI, ACF and RSF, in Drosophila embryos. Employing a panel of polyclonal and monoclonal antibodies directed against their signature subunits, ACF1 and RSF1, robust profiles were ob...
ORGANISM(S): Drosophila melanogaster 
2015-07-10 | E-GEOD-67323 | biostudies-arrayexpress
GenomicsDetecting differential peaks in ChIP-seq signals with ODIN
Motivation: Detection of changes in DNA-protein interactions from ChIP-seq data is a crucial step in unraveling the regulatory networks behind biological processes. The simplest variation of this problem is the differential peak calling problem. Here one has to find genomic regions with ChIP-seq sig...
ORGANISM(S): Mus musculus 
2015-01-07 | E-GEOD-57563 | biostudies-arrayexpress
GenomicsLRGASP challenge WTC11 ssCAGE sequencing derived peaks
LRGASP challenge WTC11 ssCAGE sequencing derived peaks
PRJNA771361 | ENA
GenomicsCUT&Tag recovers up to half of ENCODE ChIP-seq peaks
CUT&Tag recovers up to half of ENCODE ChIP-seq peaks
PRJNA820826 | ENA
GenomicsCUT&Tag recovers up to half of ENCODE ChIP-seq histone acetylation peaks
CUT&Tag recovers up to half of ENCODE ChIP-seq histone acetylation peaks
PRJNA1209791 | ENA
GenomicsMapping N6-methyladenosine (m6A) peaks in wild-type and METTL5 knockout (KO) HeLa cells
Mapping N6-methyladenosine (m6A) peaks in wild-type and METTL5 knockout (KO) HeLa cells
PRJNA729867 | ENA
GenomicsOmpR binding peaks identification by ChIP-seq analysis
Identification the binding peaks of Vibrio parahaemolyticus OmpR by ChIP-seq analysis to investigate the mechanisim of OmpR in molecular level.
PRJEB63095 | ENA
Genomicsac4C-RIP-seq to identify mRNA ac4C peaks
ac4C-RIP-seq to identify mRNA ac4C peaks
PRJNA941324 | ENA
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