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abbreviations.tex
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abbreviations.tex
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\begin{longtable}[l]{p{2.5cm}p{11cm}}
\textbf{Reference} & \textbf{Explanation} \\
\hline\label{chap:ap:abbrev}
\endfirsthead
\textbf{Reference} & \textbf{Explanation} \\
\hline
\endhead
\hline
%\multicolumn{2}{r}{Abbreviations continued on next page.}\\
\endfoot
\hline
%\caption{List of abbreviations}
\endlastfoot
ALL & Acute lymphoblastic leukemia\\
AML & Acute myeloid leukemia / Acute myelogenous leukemia \\
ATAC-seq & Assay for Transposase Accessible Chromatin)\cite{Buenrostro2013} \\
CDF & Cumulative distribution function \\
ChIP-seq & Chromatin Immunoprecipitation Sequencing\cite{Barski2007,Johnson2007,Mikkelsen2007} \\
CGI & CpG-Island, areas of genomic sequence rich in CG-dinucleotides \\
ciLAD & constitutive inter-Lamina-associated Domain\cite{Meuleman2013} \\
cLAD & constitutive Lamina-associated Domain\cite{Meuleman2013} \\
CML & Chronic myelogenous leukemia\\
CPM & Counts per Million, a measure of gene expression \\
DMR & Differentially methylated region \\
ECDF & Empirical Cumulative Distribution Function \\
eRNA & enhancer RNA\\
ES cell & Embryonic stem cell \\
FAIRE-seq & Formaldehyde Assisted Isolation of Regulatory Elements\cite{Giresi2007}\\
fLAD & flexible Lamina-associated Domain\cite{Meuleman2013} \\
GAM & Generalized additive model \dissrefpage{chap:r:gam:methylpredict:gamintro} \\
GLM & Generalized linear model \dissrefpage{chap:r:gam:methylpredict:gamintro} \\
GLMM & Generalized linear mixed model \\
GRO-seq & Global Run-on Sequencing\cite{Core2008} \\
GWAS & Genome-wide Association Studies \\
HSC & Hematopoietic Stem Cell \\
HSPC & Hematopoietic Stem/Progenitor Cell \\
iPSC / iPS cell & Induced pluripotent stem cell\cite{Takahashi2006} \\
IQR & Interquartile range, a measure of statistical dispersion \\
KEEs & \hisseventyninetwo / \hisseventyninethree positive enhancers with relevance for leukemia\cite{Godfrey2019} \\
LAD & Lamina-associated Domain\cite{Guelen2008} \\
LOCKs & Large organized chromatin lysine modifications \cite{Timp2013} \\
LRES & Long range epigenetic silencing\cite{Clark2007} \\
LSC & Leukemic Stem Cell \\
MEF & Mouse embryonic fibroblast\cite{Todaro1963}\\
PCA & Principal Component Analysis, a method for dimensionality reduction \\
PDF & Probability Density Function \\
PMD & Partially Methylated Domain\cite{Lister2009} \\
\polyic & Polyinosinic:polycytidylic acid, an immunostimulant \\
RPKM & Reads per kilobase per million mapped reads, an unit to compare expression among transcripts \\
SAHF & Senescence-associated heterochromatic foci\cite{Narita2003}\\
SMiLE-seq & Selective Microfluidics-based Ligand Enrichment followed by sequencing\cite{Isakova2017} \\
TINAT & Treatment-induced non-annotated transcription start sites\cite{Brocks2017} \\
TSS & Transcription start site, the 5' starting point for pre-mRNA production \\
WGBS & Whole-Genome Bisulfite Sequencing \\
WHO & World Health Organization \\
\end{longtable}