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ProteomicsHyPep: An Open-Source Software for Identification and Discovery of Neuropeptides using Sequence Homology Searching
Neuropeptides are a class of endogenous peptides that have key regulatory roles in biochemical, physiological, and behavioral processes. Mass spectrometry analyses of neuropeptides often rely on protein informatics tools for database searching and peptide identification. As neuropeptide databases ar...
ORGANISM(S): Drosophila melanogaster (Fruit fly) 
2023-02-02 | PXD037058 | Pride
Peptidomics Hypep Homology Mass spectrometry Peptide De novo sequencing Fdr Neuropeptide 
GenomicsCovalent linkage of the DNA repair template to the CRISPR-Cas9 nuclease enhances homology-directed repair
Based on the hypothesis that, enhancing the local concentration of donor oligos could increase the correction rates, we generated and tested novel CRISPR-Cas9 systems, in which the DNA repair template is covalently conjugated to Cas9 (RNPD system). To validate our results from the HEK293T reporter c...
ORGANISM(S): Mus musculus 
2018-06-04 | E-MTAB-6808 | biostudies-arrayexpress
UnknownCPHmodels-3.0--remote homology modeling using structure-guided sequence profiles.
Not available
S-EPMC2896139 | biostudies-literature
GenomicsAmplification of siRNA in Caenorhabditis elegans generates a transgenerational sequence-targeted histone H3 lysine 9 methylation footprint
Exogenous double-stranded RNA (dsRNA) has been shown to exert homology-dependent effects at the level of both target mRNA stability and chromatin structure. Using C. elegans undergoing RNAi as an animal model, we have investigated the generality, scope, and longevity of chromatin-targeted dsRNA effe...
ORGANISM(S): Caenorhabditis elegans 
2012-01-06 | E-GEOD-32631 | biostudies-arrayexpress
UnknownLNA blockers for improved amplification selectivity.
Not available
S-EPMC10038989 | biostudies-literature
ProteomicsHuman POT1 Prevents Severe Telomere Damage Instability Induced by Homology Directed DNA Repair
The evolutionarily conserved POT1 protein binds the single stranded G-rich telomeric DNA and has been implicated in telomeric DNA maintenance and the suppression of DNA damage checkpoint signaling. Here, we explore human POT1 function through genetics and proteomics discovering that the complete abs...
ORGANISM(S): Homo sapiens (Human) 
2020-10-21 | PXD016826 | Pride
Telomeres Affinity purification Mass spectrometry Homology-directed dna repair Tandem mass tags 
TranscriptomicsU87MG Decoded: The Genomic Sequence of a Cytogenetically Aberrant Human Cancer Cell Line
U87MG is a commonly studied grade IV glioma cell line that has been analyzed in at least 1,700 publications over four decades. In order to comprehensively characterize the genome of this cell line and to serve as a model of broad cancer genome sequencing, we have generated greater than 30x genomic s...
ORGANISM(S): Homo sapiens 
2010-01-24 | E-GEOD-19986 | biostudies-arrayexpress
UnknownFaster sequence homology searches by clustering subsequences.
Not available
S-EPMC4393512 | biostudies-literature
TranscriptomicsIdentification of miRNAs from Eugenia uniflora by high-throughput sequencing and bioinformatics analysis [mRNA-seq]
miRNAs are small non-coding regulatory RNAs that play important functions in the regulation of gene expression at the post-transcriptional level by targeting mRNAs for degradation or by inhibiting protein translation. Eugenia uniflora is a plant native to tropical America with pharmacological and ec...
ORGANISM(S): Eugenia uniflora 
2013-01-07 | E-GEOD-38210 | biostudies-arrayexpress
UnknownFold homology detection using sequence fragment composition profiles of proteins.
Not available
S-EPMC2933786 | biostudies-literature
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