Molecular profiling for precision cancer therapies

ER Malone, M Oliva, PJB Sabatini, TL Stockley… - Genome medicine, 2020 - Springer
The number of druggable tumor-specific molecular aberrations has grown substantially in
the past decade, with a significant survival benefit obtained from biomarker matching …

Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists

DW Huang, BT Sherman, RA Lempicki - Nucleic acids research, 2009 - academic.oup.com
Functional analysis of large gene lists, derived in most cases from emerging high-throughput
genomic, proteomic and bioinformatics scanning approaches, is still a challenging and …

Acquisition of the contractile phenotype by murine arterial smooth muscle cells depends on the Mir143/145 gene cluster

T Boettger, N Beetz, S Kostin… - The Journal of …, 2009 - Am Soc Clin Investig
VSMCs respond to changes in the local environment by adjusting their phenotype from
contractile to synthetic, a phenomenon known as phenotypic modulation or switching …

GoMiner: a resource for biological interpretation of genomic and proteomic data

BR Zeeberg, W Feng, G Wang, MD Wang, AT Fojo… - Genome biology, 2003 - Springer
We have developed GoMiner, a program package that organizes lists of'interesting'genes
(for example, under-and overexpressed genes from a microarray experiment) for biological …

Data merging for integrated microarray and proteomic analysis

KM Waters, JG Pounds, BD Thrall - Briefings in Functional …, 2006 - academic.oup.com
The functioning of even a simple biological system is much more complicated than the sum
of its genes, proteins and metabolites. A premise of systems biology is that molecular …

Identifier mapping performance for integrating transcriptomics and proteomics experimental results

RS Day, KK McDade, UR Chandran, A Lisovich… - BMC …, 2011 - Springer
Background Studies integrating transcriptomic data with proteomic data can illuminate the
proteome more clearly than either separately. Integromic studies can deepen understanding …

Proteomic profiling of the NCI-60 cancer cell lines using new high-density reverse-phase lysate microarrays

S Nishizuka, L Charboneau, L Young… - Proceedings of the …, 2003 - National Acad Sciences
Because most potential molecular markers and targets are proteins, proteomic profiling is
expected to yield more direct answers to functional and pharmacological questions than …

Dopamine-regulated microRNA MiR-181a controls GluA2 surface expression in hippocampal neurons

R Saba, PH Störchel, A Aksoy-Aksel… - … and cellular biology, 2012 - Taylor & Francis
The dynamic expression of AMPA-type glutamate receptors (AMPA-R) at synapses is a key
determinant of synaptic plasticity, including neuroadaptations to drugs of abuse. Recently …

Transcript and protein expression profiles of the NCI-60 cancer cell panel: an integromic microarray study

UT Shankavaram, WC Reinhold, S Nishizuka… - Molecular cancer …, 2007 - AACR
To evaluate the utility of transcript profiling for prediction of protein expression levels, we
compared profiles across the NCI-60 cancer cell panel, which represents nine tissues of …

Using transcriptional profiling to develop a diagnostic test of operational tolerance in liver transplant recipients

M Martínez-Llordella, JJ Lozano… - The Journal of …, 2008 - Am Soc Clin Investig
A fraction of liver transplant recipients are able to discontinue all immunosuppressive
therapies without rejecting their grafts and are said to be operationally tolerant to the …