Gene and isoform expression signatures associated with tumor stage in kidney renal clear cell carcinoma

A Robust Method for Transcript Quantification with RNA-Seq Data

(2013) Yan Huang et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

iReckon: Simultaneous isoform discovery and abundance estimation from RNA-seq data

(2012) A. M. Mezlini et al.   GENOME RESEARCH

Stage, Grade and Behavior of Bladder Urothelial Carcinoma Defined by the MicroRNA Expression Profile

(2012) Nelson Dip et al.   JOURNAL OF UROLOGY

Cancer Stem Cells Stemness Transcription Factors Expression Correlates with Breast Cancer Disease Stage

(2012) Panagiotis Apostolou et al.   Current Stem Cell Research & Therapy

Estimation of alternative splicing isoform frequencies from RNA-Seq data

(2011) Marius Nicolae et al.   Algorithms for Molecular Biology

Distinct Expression Profiles of p63 Variants during Urothelial Development and Bladder Cancer Progression

(2011) Orit Karni-Schmidt et al.   AMERICAN JOURNAL OF PATHOLOGY

FOXA1 Promotes Tumor Progression in Prostate Cancer and Represents a Novel Hallmark of Castration-Resistant Prostate Cancer

(2011) Josefine Gerhardt et al.   AMERICAN JOURNAL OF PATHOLOGY

K-ras mutations are correlated to lymph node metastasis and tumor stage, but not to the growth pattern of colon carcinoma

(2011) ABDUL MANNAN et al.   APMIS

RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome

(2011) Bo Li et al.   BMC BIOINFORMATICS

DNA Methylation Changes Correlate with Gleason Score and Tumor Stage in Prostate Cancer

(2011) Lissette Delgado-Cruzata et al.   DNA AND CELL BIOLOGY

Overexpression of cyclin E isoforms correlates with poor prognosis in rectal cancer

(2011) Y.J. Zhou et al.   EJSO

Dual role of FoxA1 in androgen receptor binding to chromatin, androgen signalling and prostate cancer

(2011) Biswajyoti Sahu et al.   EMBO JOURNAL

Increased levels of noisy splicing in cancers, but not for oncogene-derived transcripts

(2011) Lu Chen et al.   HUMAN MOLECULAR GENETICS

The USP19 Deubiquitinase Regulates the Stability of c-IAP1 and c-IAP2

(2011) Yide Mei et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Computational methods for transcriptome annotation and quantification using RNA-seq

(2011) Manuel Garber et al.   NATURE METHODS

Gene-Expression Signatures Can Distinguish Gastric Cancer Grades and Stages

(2011) Juan Cui et al.   PLoS One

Altered Splicing of FGFR1 Is Associated with High Tumor Grade and Stage and Leads to Increased Sensitivity to FGF1 in Bladder Cancer

(2010) Darren C. Tomlinson et al.   AMERICAN JOURNAL OF PATHOLOGY

ConsensusClusterPlus: a class discovery tool with confidence assessments and item tracking

(2010) Matthew D. Wilkerson et al.   BIOINFORMATICS

Implication of Metastasis Suppressor NM23-H1 in Maintaining Adherens Junctions and Limiting the Invasive Potential of Human Cancer Cells

(2010) M. Boissan et al.   CANCER RESEARCH

Roles of inflammatory cytokines in the progression of gastric cancer: friends or foes?

(2010) Hironori Tsujimoto et al.   Gastric Cancer

Aberrant Promoter Methylation of DLEC1, a Critical 3p22 Tumor Suppressor for Renal Cell Carcinoma, is Associated With More Advanced Tumor Stage

(2010) Qian Zhang et al.   JOURNAL OF UROLOGY

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

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Alternative expression analysis by RNA sequencing

(2010) Malachi Griffith et al.   NATURE METHODS

Analysis and design of RNA sequencing experiments for identifying isoform regulation

(2010) Yarden Katz et al.   NATURE METHODS

Noisy Splicing Drives mRNA Isoform Diversity in Human Cells

(2010) Joseph K. Pickrell et al.   PLoS Genetics

Modeling non-uniformity in short-read rates in RNA-Seq data

(2010) Jun Li et al.   GENOME BIOLOGY

The Tight Junction Protein ZO-2 Blocks Cell Cycle Progression and Inhibits Cyclin D1 Expression

(2009) Lorenza Gonzalez-Mariscal et al.   Annals of the New York Academy of Sciences

Survivin and its spliced isoform gene expression is associated with proliferation of renal cancer cells and clinical stage of renal cancer

(2009) Keigo Okamura et al.   Cancer Epidemiology

Experimentally Derived Metastasis Gene Expression Profile Predicts Recurrence and Death in Patients With Colon Cancer

(2009) J. Joshua Smith et al.   GASTROENTEROLOGY

Inositol 1,4,5-Trisphosphate 3-Kinase-A Is a New Cell Motility-promoting Protein That Increases the Metastatic Potential of Tumor Cells by Two Functional Activities

(2009) Sabine Windhorst et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Loss of tight junction barrier function and its role in cancer metastasis

(2008) Tracey A. Martin et al.   BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES

DNA methylation changes in ovarian cancer are cumulative with disease progression and identify tumor stage

(2008) George S Watts et al.   BMC Medical Genomics

Alternative Splicing and Tumor Progression

(2008) Claudia Ghigna et al.   CURRENT GENOMICS

RNA-Seq: a revolutionary tool for transcriptomics

(2008) Zhong Wang et al.   NATURE REVIEWS GENETICS

Expression levels of p53 and p73 isoforms in stage I and stage III ovarian cancer

(2007) Mirko Marabese et al.   EUROPEAN JOURNAL OF CANCER