Testing for oncogenic molecular aberrations in cell-free DNA-based liquid biopsies in the clinic: are we there yet?

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🔗 View Article (PMID 26559503)

Published in Expert Rev Mol Diagn on November 11, 2015

Authors

Jiri Polivka1,2, Martin Pesta3, Filip Janku

Author Affiliations

1: a Department of Histology and Embryology and Biomedical Centre, Faculty of Medicine in Plzen , Charles University in Prague , Plzen , Czech Republic.
2: b Department of Neurology , Faculty Hospital Plzen , Plzen , Czech Republic.
3: c Department of Biology, Faculty of Medicine in Plzen , Charles University in Prague , Plzen , Czech Republic.

Associated clinical trials:

A Study to Compare the Safety and Efficacy of an Aromatase Inhibitor in Combination With Lapatinib, Trastuzumab or Both for the Treatment of Hormone Receptor Positive, HER2+ Metastatic Breast Cancer | NCT01160211

Dabrafenib With or Without Trametinib in Treating Patients With Recurrent Thyroid Cancer | NCT01723202

AZD8186 First Time In Patient Ascending Dose Study | NCT01884285

Pembrolizumab and Monoclonal Antibody Therapy in Advanced Cancer (PembroMab) | NCT02318901

Erlotinib Therapy and Subsequent Development of Mechanisms of Secondary Resistance in Patients With NSCLC | NCT00997334

PLX3397 KIT in Acral aNd mucOsal Melanoma (PIANO) | NCT02071940

Study of Pembrolizumab Plus Chemotherapy in Patients With Advanced Cancer (PembroPlus) | NCT02331251

Tumor Specific Plasma DNA | NCT01617915

Sweden Cancerome Analysis Network - Breast : Genomic Profiling of Breast Cancer (SCAN-B) | NCT02306096

Assessment of the Minimal Residual Disease in DLBCL From Cell-free Circulating DNA by NGS (LymphoSeq) | NCT02339805

Circulating Tumor DNA in Predicting Outcomes in Patients With Stage IV Head and Neck Cancer or Stage III-IV Non-small Cell Lung Cancer | NCT02245100

Molecular Diagnosis on Circulating Tumor DNA of Non-Small Cell Lung Cancer (ANTiCIPe) | NCT02169349

NGS Genome Analysis in Personalisation of Lung Cancer Treatment (ALCAPONE) | NCT02281214

Presence of Circulating Tumor DNA in Colorectal Cancer (ALGECOLS) | NCT01198743

Circulating Cell-free DNA in Metastatic Melanoma Patient: Mutational Analyses in Consecutive Measurement Before and After Chemotherapy (AMMAM) | NCT02133222

Circulating Cell-free DNA as a Predictive Biomarker for Hepatocelluar Carcinoma. | NCT02036216

Analysis of Tumor Tissue and Circulating Genetic Material in the Blood to Obtain Further Insight in the Effectiveness of Everolimus When Combined With Exemestane | NCT02109913

Analysis of Circulating Tumor DNA to Monitor Metastatic Colorectal Cancer Treatment | NCT01983098

Use of Exome Sequence Analysis and Circulating Tumour in Assessing Tumour Heterogeneity in BRAF Mutant Melanoma | NCT02251314

Study of Circulating Markers in Serum of Patients Treated for Metastatic Colorectal Cancer (Coca-Colon) | NCT01212510

RAS Switch in Patients With Metastatic RAS Native Colorectal Tumors Treated With 1st Line FOLFIRI-Cetuximab (BEAMING) | NCT01943786

Detection of Circulating Tumor Cells for the Diagnostic of Pancreatic Adenocarcinoma. (CTC-Pancreas) | NCT02072616

Detection of CF-DNA in Patients With Gastrointestinal Stromal Tumors (GIST) | NCT01462994

Analysis of Plasma Tumor DNA in Lung Cancer Patients | NCT01930474

DNA in Predicting Response After Systemic Therapy in Women With Metastatic Breast Cancer | NCT00899548

Detection of Oncogenic Tumor Mutations in the Urine and Blood of Lung and Colorectal Cancer Patients | NCT02186236

The Oncopanel Pilot (TOP) Study | NCT02171286

GIST: Assessment of Tumor Mutations and TKI Plasma Exposure | NCT02331914

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[Not Available]. C R Seances Soc Biol Fil (1948) 3.32

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