Title | The Overlooked Fact: Fundamental Need for Spike-In Control for Virtually All Genome-Wide Analyses. |
Publication Type | Journal Article |
Year of Publication | 2015 |
Authors | Chen K, Hu Z, Xia Z, Zhao D, Li W, Tyler JK |
Journal | Mol Cell Biol |
Volume | 36 |
Issue | 5 |
Pagination | 662-7 |
Date Published | 2015 Dec 28 |
ISSN | 1098-5549 |
Keywords | Animals, Chromatin Immunoprecipitation, DNA Copy Number Variations, Genome-Wide Association Study, High-Throughput Nucleotide Sequencing, Humans, Sequence Analysis, DNA, Sequence Analysis, RNA |
Abstract | Genome-wide analyses of changes in gene expression, transcription factor occupancy on DNA, histone modification patterns on chromatin, genomic copy number variation, and nucleosome positioning have become popular in many modern laboratories, yielding a wealth of information during health and disease states. However, most of these studies have overlooked an inherent normalization problem that must be corrected with spike-in controls. Here we describe the reason why spike-in controls are so important and explain how to appropriately design and use spike-in controls for normalization. We also suggest ways to retrospectively renormalize data sets that were wrongly interpreted due to omission of spike-in controls. |
DOI | 10.1128/MCB.00970-14 |
Alternate Journal | Mol Cell Biol |
PubMed ID | 26711261 |
PubMed Central ID | PMC4760223 |
Grant List | R01HG007538 / HG / NHGRI NIH HHS / United States R01 CA095641 / CA / NCI NIH HHS / United States R01GM64475 / GM / NIGMS NIH HHS / United States R01 GM064475 / GM / NIGMS NIH HHS / United States R01CA95641 / CA / NCI NIH HHS / United States R01 HG007538 / HG / NHGRI NIH HHS / United States |
Related Faculty:
Jessica K. Tyler, Ph.D.