Defining the Human Brain Proteome Using Transcriptomics and Antibody-Based Profiling with a Focus on the Cerebral Cortex

Tissue-based map of the human proteome

(2015) M. Uhlen et al.   SCIENCE

The human liver-specific proteome defined by transcriptomics and antibody-based profiling

(2014) Caroline Kampf et al.   FASEB JOURNAL

The lung-specific proteome defined by integration of transcriptomics and antibody-based profiling

(2014) Cecilia Lindskog et al.   FASEB JOURNAL

Brain-specific noncoding RNAs are likely to originate in repeats and may play a role in up-regulating genes in cis

(2014) Margherita Francescatto et al.   INTERNATIONAL JOURNAL OF BIOCHEMISTRY & CELL BIOLOGY

The human gastrointestinal tract-specific transcriptome and proteome as defined by RNA sequencing and antibody-based profiling

(2014) Gabriela Gremel et al.   JOURNAL OF GASTROENTEROLOGY

An RNA-Sequencing Transcriptome and Splicing Database of Glia, Neurons, and Vascular Cells of the Cerebral Cortex

(2014) Y. Zhang et al.   JOURNAL OF NEUROSCIENCE

Defining the Human Adipose Tissue Proteome To Reveal Metabolic Alterations in Obesity

(2014) Adil Mardinoglu et al.   JOURNAL OF PROTEOME RESEARCH

The human testis-specific proteome defined by transcriptomics and antibody-based profiling

(2014) D. Djureinovic et al.   MOLECULAR HUMAN REPRODUCTION

Integrating the roles of long and small non-coding RNA in brain function and disease

(2014) G Barry   MOLECULAR PSYCHIATRY

Defining the human gallbladder proteome by transcriptomics and affinity proteomics

(2014) Caroline Kampf et al.   PROTEOMICS

Genome-wide association study reveals two new risk loci for bipolar disorder

(2014) Thomas W. Mühleisen et al.   Nature Communications

Long non-coding RNA-dependent transcriptional regulation in neuronal development and disease

(2014) Brian S. Clark et al.   Frontiers in Genetics

Analysis of the Human Tissue-specific Expression by Genome-wide Integration of Transcriptomics and Antibody-based Proteomics

(2013) Linn Fagerberg et al.   MOLECULAR & CELLULAR PROTEOMICS

The Genotype-Tissue Expression (GTEx) project

(2013) John Lonsdale et al.   NATURE GENETICS

Genome-wide sequencing for the identification of rearrangements associated with Tourette syndrome and obsessive-compulsive disorder

(2012) Sean D Hooper et al.   BMC Medical Genetics

The GENCODE v7 catalog of human long noncoding RNAs: Analysis of their gene structure, evolution, and expression

(2012) T. Derrien et al.   GENOME RESEARCH

An anatomically comprehensive atlas of the adult human brain transcriptome

(2012) Michael J. Hawrylycz et al.   NATURE

Analysis of alternative cleavage and polyadenylation by 3′ region extraction and deep sequencing

(2012) Mainul Hoque et al.   NATURE METHODS

ArrayExpress update—trends in database growth and links to data analysis tools

(2012) Gabriella Rustici et al.   NUCLEIC ACIDS RESEARCH

NCBI GEO: archive for functional genomics data sets—update

(2012) Tanya Barrett et al.   NUCLEIC ACIDS RESEARCH

Cell Type-Specific Transcriptomics in the Brain

(2011) B. W. Okaty et al.   JOURNAL OF NEUROSCIENCE

RNA sequencing reveals two major classes of gene expression levels in metazoan cells

(2011) D. Hebenstreit et al.   Molecular Systems Biology

Spatio-temporal transcriptome of the human brain

(2011) Hyo Jung Kang et al.   NATURE

A long noncoding RNA maintains active chromatin to coordinate homeotic gene expression

(2011) Kevin C. Wang et al.   NATURE

Ensembl 2012

(2011) P. Flicek et al.   NUCLEIC ACIDS RESEARCH

The Dynamic Architecture of Hox Gene Clusters

(2011) D. Noordermeer et al.   SCIENCE

Widespread transcription at neuronal activity-regulated enhancers

(2010) Tae-Kyung Kim et al.   NATURE

A global map of human gene expression

(2010) Margus Lukk et al.   NATURE BIOTECHNOLOGY

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Differential expression analysis for sequence count data

(2010) Simon Anders et al.   GENOME BIOLOGY

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

GOrilla: a tool for discovery and visualization of enriched GO terms in ranked gene lists

(2009) Eran Eden et al.   BMC BIOINFORMATICS

The Impact of Tissue Fixatives on Morphology and Antibody-based Protein Profiling in Tissues and Cells

(2009) Linda Paavilainen et al.   JOURNAL OF HISTOCHEMISTRY & CYTOCHEMISTRY

Myelin Proteomics: Molecular Anatomy of an Insulating Sheath

(2009) Olaf Jahn et al.   MOLECULAR NEUROBIOLOGY

An Abundance of Ubiquitously Expressed Genes Revealed by Tissue Transcriptome Sequence Data

(2009) Daniel Ramsköld et al.   PLoS Computational Biology

The Human Protein Atlas-a tool for pathology

(2008) F Pontén et al.   JOURNAL OF PATHOLOGY

Mapping and quantifying mammalian transcriptomes by RNA-Seq

(2008) Ali Mortazavi et al.   NATURE METHODS