FRINK Linked Data Fragments server

Matches in SemOpenAlex for { <https://semopenalex.org/work/W1966921801> ?p ?o ?g. }

• W1966921801 endingPage "e201401002" @default.
• W1966921801 startingPage "e201401002" @default.
• W1966921801 abstract "ChIP-seq experiments identify genome-wide profiles of DNA-binding molecules including transcription factors, enzymes and epigenetic marks. Biological replicates are critical for reliable site discovery and are required for the deposition of data in the ENCODE and modENCODE projects. While early reports suggested two replicates were sufficient, the widespread application of the technique has led to emerging consensus that the technique is noisy and that increasing replication may be worthwhile. Additional biological replicates also allow for quantitative assessment of differences between conditions. To date it has remained controversial about how to confirm peak identification and to determine signal strength across biological replicates, particularly when the number of replicates is greater than two. Using objective metrics, we evaluate the consistency of biological replicates in ChIP-seq experiments with more than two replicates. We compare several approaches for binding site determination, including two popular but disparate peak callers, CisGenome and MACS2. Here we propose read coverage as a quantitative measurement of signal strength for estimating sample concordance. Determining binding based on genomic features, such as promoters, is also examined. We find that increasing the number of biological replicates increases the reliability of peak identification. Critically, binding sites with strong biological evidence may be missed if researchers rely on only two biological replicates. When more than two replicates are performed, a simple majority rule (>50% of samples identify a peak) identifies peaks more reliably in all biological replicates than the absolute concordance of peak identification between any two replicates, further demonstrating the utility of increasing replicate numbers in ChIP-seq experiments." @default.
• W1966921801 created "2016-06-24" @default.
• W1966921801 creator A5001365559 @default.
• W1966921801 creator A5014437737 @default.
• W1966921801 creator A5032322535 @default.
• W1966921801 creator A5045346418 @default.
• W1966921801 creator A5047905175 @default.
• W1966921801 creator A5052095171 @default.
• W1966921801 creator A5055962801 @default.
• W1966921801 creator A5091195046 @default.
• W1966921801 date "2014-01-01" @default.
• W1966921801 modified "2023-10-06" @default.
• W1966921801 title "LEVERAGING BIOLOGICAL REPLICATES TO IMPROVE ANALYSIS IN CHIP-SEQ EXPERIMENTS" @default.
• W1966921801 cites W1499375494 @default.
• W1966921801 cites W1507213876 @default.
• W1966921801 cites W1517251498 @default.
• W1966921801 cites W1544691147 @default.
• W1966921801 cites W1963911710 @default.
• W1966921801 cites W1966276188 @default.
• W1966921801 cites W1967656072 @default.
• W1966921801 cites W1978020339 @default.
• W1966921801 cites W1978133064 @default.
• W1966921801 cites W1984971566 @default.
• W1966921801 cites W1995070233 @default.
• W1966921801 cites W1996212302 @default.
• W1966921801 cites W1998704502 @default.
• W1966921801 cites W2003220033 @default.
• W1966921801 cites W2011369410 @default.
• W1966921801 cites W2015416439 @default.
• W1966921801 cites W2015795623 @default.
• W1966921801 cites W2017840637 @default.
• W1966921801 cites W2021129827 @default.
• W1966921801 cites W2021341670 @default.
• W1966921801 cites W2025129963 @default.
• W1966921801 cites W2026882865 @default.
• W1966921801 cites W2034002639 @default.
• W1966921801 cites W2035280748 @default.
• W1966921801 cites W2044164623 @default.
• W1966921801 cites W2049220511 @default.
• W1966921801 cites W2049849487 @default.
• W1966921801 cites W2051831012 @default.
• W1966921801 cites W2052562387 @default.
• W1966921801 cites W2059699217 @default.
• W1966921801 cites W2067339099 @default.
• W1966921801 cites W2074770442 @default.
• W1966921801 cites W2076128933 @default.
• W1966921801 cites W2079499097 @default.
• W1966921801 cites W2095005830 @default.
• W1966921801 cites W2097220641 @default.
• W1966921801 cites W2102904139 @default.
• W1966921801 cites W2104865962 @default.
• W1966921801 cites W2115137176 @default.
• W1966921801 cites W2117131162 @default.
• W1966921801 cites W2119558943 @default.
• W1966921801 cites W2124514674 @default.
• W1966921801 cites W2124985265 @default.
• W1966921801 cites W2129795133 @default.
• W1966921801 cites W2130239280 @default.
• W1966921801 cites W2131088968 @default.
• W1966921801 cites W2131610374 @default.
• W1966921801 cites W2133094193 @default.
• W1966921801 cites W2134193463 @default.
• W1966921801 cites W2146303939 @default.
• W1966921801 cites W2147397865 @default.
• W1966921801 cites W2149627698 @default.
• W1966921801 cites W2154431984 @default.
• W1966921801 cites W2156631105 @default.
• W1966921801 cites W2157750836 @default.
• W1966921801 cites W2160801632 @default.
• W1966921801 cites W2161083747 @default.
• W1966921801 cites W2162557359 @default.
• W1966921801 cites W2164433153 @default.
• W1966921801 cites W2166058459 @default.
• W1966921801 cites W2170222864 @default.
• W1966921801 cites W2171111703 @default.
• W1966921801 cites W2171808845 @default.
• W1966921801 cites W3104066961 @default.
• W1966921801 cites W4248318091 @default.
• W1966921801 doi "https://doi.org/10.5936/csbj.201401002" @default.
• W1966921801 hasPubMedCentralId "https://www.ncbi.nlm.nih.gov/pmc/articles/3962196" @default.
• W1966921801 hasPubMedId "https://pubmed.ncbi.nlm.nih.gov/24688750" @default.
• W1966921801 hasPublicationYear "2014" @default.
• W1966921801 type Work @default.
• W1966921801 sameAs 1966921801 @default.
• W1966921801 citedByCount "54" @default.
• W1966921801 countsByYear W19669218012014 @default.
• W1966921801 countsByYear W19669218012015 @default.
• W1966921801 countsByYear W19669218012016 @default.
• W1966921801 countsByYear W19669218012017 @default.
• W1966921801 countsByYear W19669218012018 @default.
• W1966921801 countsByYear W19669218012019 @default.
• W1966921801 countsByYear W19669218012020 @default.
• W1966921801 countsByYear W19669218012021 @default.
• W1966921801 countsByYear W19669218012022 @default.
• W1966921801 countsByYear W19669218012023 @default.
• W1966921801 crossrefType "journal-article" @default.
• W1966921801 hasAuthorship W1966921801A5001365559 @default.
• W1966921801 hasAuthorship W1966921801A5014437737 @default.

• next