Changing Technologies of RNA Sequencing and Their Applications in Clinical Oncology

Development of a miRNA-seq based prognostic signature in lung adenocarcinoma

(2019) Chathura Siriwardhana et al.   BMC CANCER

RNA sequencing: the teenage years

(2019) Rory Stark et al.   NATURE REVIEWS GENETICS

Laser Capture Microdissection and RNA-Seq Analysis: High Sensitivity Approaches to Explain Histopathological Heterogeneity in Human Glioblastoma FFPE Archived Tissues

(2019) Prospero Civita et al.   Frontiers in Oncology

Gene-expression profiling of single cells from archival tissue with laser-capture microdissection and Smart-3SEQ

(2019) Joseph W Foley et al.   GENOME RESEARCH

RNA sequencing for research and diagnostics in clinical oncology

(2019) Anton Buzdin et al.   SEMINARS IN CANCER BIOLOGY

FFPEcap-seq: a method for sequencing capped RNAs in formalin-fixed paraffin-embedded samples

(2019) Jeffery M. Vahrenkamp et al.   GENOME RESEARCH

Distinct tumor microenvironments of lytic and blastic bone metastases in prostate cancer patients

(2019) Claire L. Ihle et al.   Journal for ImmunoTherapy of Cancer

Development and Validation of an RNA-Seq-Based Prognostic Signature in Neuroblastoma

(2019) Jian-Guo Zhou et al.   Frontiers in Oncology

Spatial maps of prostate cancer transcriptomes reveal an unexplored landscape of heterogeneity

(2018) Emelie Berglund et al.   Nature Communications

Development and validation of an individualized diagnostic signature in thyroid cancer

(2018) Li-ou Han et al.   Cancer Medicine

Spatially resolved transcriptomics enables dissection of genetic heterogeneity in stage III cutaneous malignant melanoma

(2018) Kim Thrane et al.   CANCER RESEARCH

Neoadjuvant immune checkpoint blockade in high-risk resectable melanoma

(2018) Rodabe N. Amaria et al.   NATURE MEDICINE

Neoadjuvant versus adjuvant ipilimumab plus nivolumab in macroscopic stage III melanoma

(2018) Christian U. Blank et al.   NATURE MEDICINE

Barcoded solid-phase RNA capture for Spatial Transcriptomics profiling in mammalian tissue sections

(2018) Fredrik Salmén et al.   Nature Protocols

Integrative clinical genomics of metastatic cancer

(2017) Dan R. Robinson et al.   NATURE

The promise of spatial transcriptomics for neuroscience in the era of molecular cell typing

(2017) Ed Lein et al.   SCIENCE

Single-cell RNA-seq reveals new types of human blood dendritic cells, monocytes, and progenitors

(2017) Alexandra-Chloé Villani et al.   SCIENCE

Single-cell RNA-seq enables comprehensive tumour and immune cell profiling in primary breast cancer

(2017) Woosung Chung et al.   Nature Communications

Identification of a RNA-Seq based prognostic signature with five lncRNAs for lung squamous cell carcinoma

(2017) Rui-Xue Tang et al.   Oncotarget

A practical guide to single-cell RNA-sequencing for biomedical research and clinical applications

(2017) Ashraful Haque et al.   Genome Medicine

Optimized Method for Robust Transcriptome Profiling of Minute Tissues Using Laser Capture Microdissection and Low-Input RNA-Seq

(2017) Shannon Farris et al.   Frontiers in Molecular Neuroscience

Single-Cell Resolution of Temporal Gene Expression during Heart Development

(2016) Daniel M. DeLaughter et al.   DEVELOPMENTAL CELL

RNA sequencing validation of the Complexity INdex in SARComas prognostic signature

(2016) Tom Lesluyes et al.   EUROPEAN JOURNAL OF CANCER

Fourth Generation of Next-Generation Sequencing Technologies: Promise and Consequences

(2016) Rongqin Ke et al.   HUMAN MUTATION

Development of a RNA-Seq Based Prognostic Signature in Lung Adenocarcinoma

(2016) Sudhanshu Shukla et al.   JNCI-Journal of the National Cancer Institute

Visualization and analysis of gene expression in tissue sections by spatial transcriptomics

(2016) P. L. Stahl et al.   SCIENCE

Analysis of Immune Signatures in Longitudinal Tumor Samples Yields Insight into Biomarkers of Response and Mechanisms of Resistance to Immune Checkpoint Blockade

(2016) P.-L. Chen et al.   Cancer Discovery

Development of a RNA-Seq Based Prognostic Signature in Lung Adenocarcinoma

(2016) Sudhanshu Shukla et al.   JNCI-Journal of the National Cancer Institute

Translating cancer genomes and transcriptomes for precision oncology

(2015) Sameek Roychowdhury et al.   CA-A CANCER JOURNAL FOR CLINICIANS

Immune Checkpoint Targeting in Cancer Therapy: Toward Combination Strategies with Curative Potential

(2015) Padmanee Sharma et al.   CELL

Characterization of three alternative transcripts of the BRCA1 gene in patients with breast cancer and a family history of breast and/or ovarian cancer who tested negative for pathogenic mutations

(2015) GAETANA GAMBINO et al.   INTERNATIONAL JOURNAL OF MOLECULAR MEDICINE

Integrative Clinical Sequencing in the Management of Refractory or Relapsed Cancer in Youth

(2015) Rajen J. Mody et al.   JAMA-JOURNAL OF THE AMERICAN MEDICAL ASSOCIATION

Fluorescent in situ sequencing (FISSEQ) of RNA for gene expression profiling in intact cells and tissues

(2015) Je Hyuk Lee et al.   Nature Protocols

Genomic correlates of response to CTLA-4 blockade in metastatic melanoma

(2015) E. M. Van Allen et al.   SCIENCE

Comparison of RNA-seq and microarray-based models for clinical endpoint prediction

(2015) Wenqian Zhang et al.   GENOME BIOLOGY

Targetable Kinase-Activating Lesions in Ph-like Acute Lymphoblastic Leukemia

(2015) Kathryn G. Roberts et al.   NEW ENGLAND JOURNAL OF MEDICINE

Transfer of clinically relevant gene expression signatures in breast cancer: from Affymetrix microarray to Illumina RNA-Sequencing technology

(2014) Debora Fumagalli et al.   BMC GENOMICS

cDNA Hybrid Capture Improves Transcriptome Analysis on Low-Input and Archived Samples

(2014) Christopher R. Cabanski et al.   JOURNAL OF MOLECULAR DIAGNOSTICS

Identification of mRNAs and lincRNAs associated with lung cancer progression using next-generation RNA sequencing from laser micro-dissected archival FFPE tissue specimens

(2014) Matthew L. Morton et al.   LUNG CANCER

Single-cell analyses of transcriptional heterogeneity during drug tolerance transition in cancer cells by RNA sequencing

(2014) M.-C. W. Lee et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Highly Multiplexed Subcellular RNA Sequencing in Situ

(2014) J. H. Lee et al.   SCIENCE

The landscape of kinase fusions in cancer

(2014) Nicolas Stransky et al.   Nature Communications

Genetic Alterations Activating Kinase and Cytokine Receptor Signaling in High-Risk Acute Lymphoblastic Leukemia

(2012) Kathryn G. Roberts et al.   CANCER CELL

JAABA: interactive machine learning for automatic annotation of animal behavior

(2012) Mayank Kabra et al.   NATURE METHODS

RNA sequencing: advances, challenges and opportunities

(2010) Fatih Ozsolak et al.   NATURE REVIEWS GENETICS

Migratory neighbors and distant invaders: tumor-associated niche cells

(2008) J. Wels et al.   GENES & DEVELOPMENT

RNA-Seq: a revolutionary tool for transcriptomics

(2008) Zhong Wang et al.   NATURE REVIEWS GENETICS

Germline Allele-Specific Expression of TGFBR1 Confers an Increased Risk of Colorectal Cancer

(2008) L. Valle et al.   SCIENCE