A strand specific high resolution normalization method for chip-sequencing data employing multiple experimental control measurements.

Research output: Contribution to journal › Journal article › Research › peer-review

Standard

A strand specific high resolution normalization method for chip-sequencing data employing multiple experimental control measurements. / Enroth, Stefan; Andersson, Claes; Andersson, Robin; Wadelius, Claes; Gustafsson, Mats; Komorowski, Jan.

In: Algorithms for Molecular Biology, Vol. 7, No. 1, 2012, p. 2.

Research output: Contribution to journal › Journal article › Research › peer-review

Harvard

Enroth, S, Andersson, C, Andersson, R, Wadelius, C, Gustafsson, M & Komorowski, J 2012, 'A strand specific high resolution normalization method for chip-sequencing data employing multiple experimental control measurements.', Algorithms for Molecular Biology, vol. 7, no. 1, pp. 2. https://doi.org/10.1186/1748-7188-7-2

APA

Enroth, S., Andersson, C., Andersson, R., Wadelius, C., Gustafsson, M., & Komorowski, J. (2012). A strand specific high resolution normalization method for chip-sequencing data employing multiple experimental control measurements. Algorithms for Molecular Biology, 7(1), 2. https://doi.org/10.1186/1748-7188-7-2

Vancouver

Enroth S, Andersson C, Andersson R, Wadelius C, Gustafsson M, Komorowski J. A strand specific high resolution normalization method for chip-sequencing data employing multiple experimental control measurements. Algorithms for Molecular Biology. 2012;7(1):2. https://doi.org/10.1186/1748-7188-7-2

Author

Enroth, Stefan ; Andersson, Claes ; Andersson, Robin ; Wadelius, Claes ; Gustafsson, Mats ; Komorowski, Jan. / A strand specific high resolution normalization method for chip-sequencing data employing multiple experimental control measurements. In: Algorithms for Molecular Biology. 2012 ; Vol. 7, No. 1. pp. 2.

Bibtex

@article{c87ee472627540029a7e64771d405691,
title = "A strand specific high resolution normalization method for chip-sequencing data employing multiple experimental control measurements.",
abstract = "High-throughput sequencing is becoming the standard tool for investigating protein-DNA interactions or epigenetic modifications. However, the data generated will always contain noise due to e.g. repetitive regions or non-specific antibody interactions. The noise will appear in the form of a background distribution of reads that must be taken into account in the downstream analysis, for example when detecting enriched regions (peak-calling). Several reported peak-callers can take experimental measurements of background tag distribution into account when analysing a data set. Unfortunately, the background is only used to adjust peak calling and not as a pre-processing step that aims at discerning the signal from the background noise. A normalization procedure that extracts the signal of interest would be of universal use when investigating genomic patterns.",
author = "Stefan Enroth and Claes Andersson and Robin Andersson and Claes Wadelius and Mats Gustafsson and Jan Komorowski",
year = "2012",
doi = "10.1186/1748-7188-7-2",
language = "English",
volume = "7",
pages = "2",
journal = "Algorithms for Molecular Biology",
issn = "1748-7188",
publisher = "BioMed Central Ltd.",
number = "1",

}

RIS

TY - JOUR

T1 - A strand specific high resolution normalization method for chip-sequencing data employing multiple experimental control measurements.

AU - Enroth, Stefan

AU - Andersson, Claes

AU - Andersson, Robin

AU - Wadelius, Claes

AU - Gustafsson, Mats

AU - Komorowski, Jan

PY - 2012

Y1 - 2012

N2 - High-throughput sequencing is becoming the standard tool for investigating protein-DNA interactions or epigenetic modifications. However, the data generated will always contain noise due to e.g. repetitive regions or non-specific antibody interactions. The noise will appear in the form of a background distribution of reads that must be taken into account in the downstream analysis, for example when detecting enriched regions (peak-calling). Several reported peak-callers can take experimental measurements of background tag distribution into account when analysing a data set. Unfortunately, the background is only used to adjust peak calling and not as a pre-processing step that aims at discerning the signal from the background noise. A normalization procedure that extracts the signal of interest would be of universal use when investigating genomic patterns.

AB - High-throughput sequencing is becoming the standard tool for investigating protein-DNA interactions or epigenetic modifications. However, the data generated will always contain noise due to e.g. repetitive regions or non-specific antibody interactions. The noise will appear in the form of a background distribution of reads that must be taken into account in the downstream analysis, for example when detecting enriched regions (peak-calling). Several reported peak-callers can take experimental measurements of background tag distribution into account when analysing a data set. Unfortunately, the background is only used to adjust peak calling and not as a pre-processing step that aims at discerning the signal from the background noise. A normalization procedure that extracts the signal of interest would be of universal use when investigating genomic patterns.

U2 - 10.1186/1748-7188-7-2

DO - 10.1186/1748-7188-7-2

M3 - Journal article

C2 - 22248020

VL - 7

SP - 2

JO - Algorithms for Molecular Biology

JF - Algorithms for Molecular Biology

SN - 1748-7188

IS - 1

ER -

ID: 43869460