[HTML][HTML] Normalization methods for the analysis of unbalanced transcriptome data: a review
Dozens of normalization methods for correcting experimental variation and bias in high-
throughput expression data have been developed during the last two decades. Up to 23 …
throughput expression data have been developed during the last two decades. Up to 23 …
Separate enrichment analysis of pathways for up-and downregulated genes
Two strategies are often adopted for enrichment analysis of pathways: the analysis of all
differentially expressed (DE) genes together or the analysis of up-and downregulated genes …
differentially expressed (DE) genes together or the analysis of up-and downregulated genes …
Critical limitations of prognostic signatures based on risk scores summarized from gene expression levels: a case study for resected stage I non-small-cell lung cancer
L Qi, L Chen, Y Li, Y Qin, R Pan, W Zhao… - Briefings in …, 2016 - academic.oup.com
Most of current gene expression signatures for cancer prognosis are based on risk scores,
usually calculated as some summaries of expression levels of the signature genes, whose …
usually calculated as some summaries of expression levels of the signature genes, whose …
[HTML][HTML] Whole blood transcriptomic investigation identifies long non-coding RNAs as regulators in sepsis
Background Sepsis is a fatal disease referring to the presence of a known or strongly
suspected infection coupled with systemic and uncontrolled immune activation causing …
suspected infection coupled with systemic and uncontrolled immune activation causing …
[HTML][HTML] CrossNorm: a novel normalization strategy for microarray data in cancers
Normalization is essential to get rid of biases in microarray data for their accurate analysis.
Existing normalization methods for microarray gene expression data commonly assume a …
Existing normalization methods for microarray gene expression data commonly assume a …
[HTML][HTML] Platelets purification is a crucial step for transcriptomic analysis
Platelets are small anucleate cells derived from the fragmentation of megakaryocytes and
are involved in different biological processes especially hemostasis, thrombosis, and …
are involved in different biological processes especially hemostasis, thrombosis, and …
[HTML][HTML] Normics: proteomic normalization by variance and data-inherent correlation structure
FF Dressler, J Brägelmann, M Reischl… - Molecular & Cellular …, 2022 - ASBMB
Several algorithms for the normalization of proteomic data are currently available, each
based on a priori assumptions. Among these is the extent to which differential expression …
based on a priori assumptions. Among these is the extent to which differential expression …
[HTML][HTML] The prognostic and clinical significance of IFI44L aberrant downregulation in patients with oral squamous cell carcinoma
D Ou, Y Wu - Bmc Cancer, 2021 - Springer
Background It is a basic task in high-throughput gene expression profiling studies to identify
differentially expressed genes (DEGs) between two phenotypes. RankComp, an algorithm …
differentially expressed genes (DEGs) between two phenotypes. RankComp, an algorithm …
ICN: a normalization method for gene expression data considering the over-expression of informative genes
The global increase of gene expression has been frequently established in cancer
microarray studies. However, many genes may not deliver informative signals for a given …
microarray studies. However, many genes may not deliver informative signals for a given …
Powerful differential expression analysis incorporating network topology for next-generation sequencing data
Motivation RNA-seq has become the technology of choice for interrogating the
transcriptome. However, most methods for RNA-seq differential expression (DE) analysis do …
transcriptome. However, most methods for RNA-seq differential expression (DE) analysis do …