Exact(2)
This systematic relationship raises the suspicion that part of the above-mentioned short-range enrichments and short and long-range periodicities are associated with inherent chip artifacts.
Given that in many microarray chips DNA spots are printed in an order related to the gene order on the chromosomes, the systematic relationship between gene co-expression and chromosomal location raises the suspicion that part of the gene pair correlations are associated with inherent chip artifacts rather than true biological co-expression.
Similar(58)
By taking advantage of the low sensor and sample mass inherent to chip calorimetry, a new methodology based on temperature jumps was developed.
In our opinion the interpretation of the results is not compromised by the observed variability, which in our hands is inherent to ChIP experiments on samples of diverse origin with changing reagents.
In addition, because of inherent differences between ChIP-chip array and ChIP-sequencing approaches, these platforms report different nucleosome distribution patterns across the human genome.
However, this study highlights a challenge inherent to ChIP-seq from low cell numbers: as cell input numbers fall, levels of unmapped sequence reads and PCR-generated duplicate reads rise.
Due to the lack of spacial resolution inherent in the ChIP assay it is impossible to determine if the binding of GABP alpha/beta corresponds to interaction with the RIBS, UP or both sites but indicates that it is able to interact with this promoter.
However, there is an inherent weakness in using ChIP-chip data to define the targets of a TF.
And by then, the designers and the users may have learned how to manage the chips' inherent complexity better.
This nevertheless represents an inherent limitation of ChIP-seq data and is a caveat to our entire study.
In contrast to other peak detection algorithms, MeDiChISeq uses the binding pattern properties, inherent to the ChIP-seq profile under study, to define enrichment and background characteristics.
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