Multiple platform assessment of the EGF dependent transcriptome by microarray and deep tag sequencing analysis

Towards the systematic discovery of signal transduction networks using phosphorylation dynamics data

(2010) Haruna Imamura et al.   BMC BIOINFORMATICS

Digital gene expression analysis of two life cycle stages of the human-infective parasite, Trypanosoma brucei gambiense reveals differentially expressed clusters of co-regulated genes

(2010) Nicola J Veitch et al.   BMC GENOMICS

A comparison of massively parallel nucleotide sequencing with oligonucleotide microarrays for global transcription profiling

(2010) James R Bradford et al.   BMC GENOMICS

Quantitative Analysis of HGF and EGF-Dependent Phosphotyrosine Signaling Networks

(2010) Dean E. Hammond et al.   JOURNAL OF PROTEOME RESEARCH

Dynamic interaction networks in a hierarchically organized tissue

(2010) Daniel C Kirouac et al.   Molecular Systems Biology

The two faces of metallothionein in carcinogenesis: photoprotection against UVR-induced cancer and promotion of tumour survival

(2010) Heather M. McGee et al.   PHOTOCHEMICAL & PHOTOBIOLOGICAL SCIENCES

EGF Decreases the Abundance of MicroRNAs That Restrain Oncogenic Transcription Factors

(2010) R. Avraham et al.   Science Signaling

3' tag digital gene expression profiling of human brain and universal reference RNA using Illumina Genome Analyzer

(2009) Yan W Asmann et al.   BMC GENOMICS

Measuring differential gene expression by short read sequencing: quantitative comparison to 2-channel gene expression microarrays

(2009) Joshua S Bloom et al.   BMC GENOMICS

Transcriptome sequencing of the Microarray Quality Control (MAQC) RNA reference samples using next generation sequencing

(2009) Shrinivasrao P Mane et al.   BMC GENOMICS

Computational modeling of the EGFR network elucidates control mechanisms regulating signal dynamics

(2009) Dennis YQ Wang et al.   BMC Systems Biology

Next-generation tag sequencing for cancer gene expression profiling

(2009) A. S. Morrissy et al.   GENOME RESEARCH

A comparison of meta-analysis methods for detecting differentially expressed genes in microarray experiments

(2008) Fangxin Hong et al.   BIOINFORMATICS

Displayed correlation between gene expression profiles and submicroscopic alterations in response to cetuximab, gefitinib and EGF in human colon cancer cell lines

(2008) Rossella Solmi et al.   BMC CANCER

A combination of LongSAGE with Solexa sequencing is well suited to explore the depth and the complexity of transcriptome

(2008) Lucie Hanriot et al.   BMC GENOMICS

Can subtle changes in gene expression be consistently detected with different microarray platforms?

(2008) Paola Pedotti et al.   BMC GENOMICS

Cross-platform comparison of SYBR Green real-time PCR with TaqMan PCR, microarrays and other gene expression measurement technologies evaluated in the MicroArray Quality Control (MAQC) study

(2008) Emi Arikawa et al.   BMC GENOMICS

Performance comparison of two microarray platforms to assess differential gene expression in human monocyte and macrophage cells

(2008) Seraya Maouche et al.   BMC GENOMICS

Regulation of growth factor signaling by FRS2 family docking/scaffold adaptor proteins

(2008) Noriko Gotoh   CANCER SCIENCE

Publisher's Note

(2008)   EXPERIMENTAL CELL RESEARCH

RNA-seq: An assessment of technical reproducibility and comparison with gene expression arrays

(2008) J. C. Marioni et al.   GENOME RESEARCH

Deep sequencing-based expression analysis shows major advances in robustness, resolution and inter-lab portability over five microarray platforms

(2008) Peter A. C. 't Hoen et al.   NUCLEIC ACIDS RESEARCH

Substantial biases in ultra-short read data sets from high-throughput DNA sequencing

(2008) J. C. Dohm et al.   NUCLEIC ACIDS RESEARCH

Quantitative proteomics and phosphoproteomics reveal novel insights into complexity and dynamics of the EGFR signaling network

(2008) Sandra Morandell et al.   PROTEOMICS

The Transcriptional Landscape of the Yeast Genome Defined by RNA Sequencing

(2008) U. Nagalakshmi et al.   SCIENCE

Why Do Hubs in the Yeast Protein Interaction Network Tend To Be Essential: Reexamining the Connection between the Network Topology and Essentiality

(2008) Elena Zotenko et al.   PLoS Computational Biology