Research graph
References from Long-Term Storage of Formalin-Fixed Paraffin-Embedded Tissues Negatively Impacts Next-Generation Sequencing: Successful Restoration with a DNA Repair Enzyme. Local targets link to admitted publications; unresolved targets remain external evidence.
Genetic basis for clinical response to CTLA-4 blockade in melanoma
10.1056/nejmoa1406498 · 2014 · External reference
Cancer immunology. Mutational landscape determines sensitivity to PD-1 blockade in nonsmall cell lung cancer
10.1126/science.aaa1348 · 2015 · External reference
Association of tumour mutational burden with outcomes in patients with advanced solid tumours treated with pembrolizumab: prospective biomarker analysis of the multicohort, open-label, phase 2 KEYNOTE-158 study
10.1016/s1470-2045(20)30445-9 · 2020 · External reference
Nucleic acid extraction from formalin-fixed paraffin-embedded cancer cell line samples: a trade off between quantity and quality?
10.1186/s12907-016-0039-3 · 2016 · External reference
International network of cancer genome projects
10.1038/nature08987 · 2010 · External reference
Paraffin treasures: do they last forever?
10.1089/bio.2014.0010 · 2014 · External reference
Estimation of age-related DNA degradation from formalin-fixed and paraffin-embedded tissue according to the extraction methods
10.3892/etm.2017.4797 · 2017 · External reference
Comparison of next-generation sequencing quality metrics and concordance in the detection of cancer-specific molecular alterations between formalin-fixed paraffin-embedded and fresh-frozen samples in comprehensive genomic profiling with the Illumina® TruSight Oncology 500 assay
10.3892/etm.2025.12814 · 2025 · External reference
Performance of non-formalin fixed paraffin embedded samples in hybrid capture and amplicon next-generation sequencing panels
10.1002/dc.25267 · 2024 · External reference
Cytosine deamination is a major cause of baseline noise in next-generation sequencing
10.1007/s40291-014-0115-2 · 2014 · External reference
Sequence artifacts in DNA from formalin-fixed tissues: causes and strategies for minimization
10.1373/clinchem.2014.223040 · 2015 · External reference
Deep oncopanel sequencing reveals within block position-dependent quality degradation in FFPE processed samples
10.1186/s13059-022-02709-8 · 2022 · External reference
Deamination effects in formalin-fixed, paraffin-embedded tissue samples in the era of precision medicine
10.1016/j.jmoldx.2016.09.006 · 2017 · External reference
A critical spotlight on the paradigms of FFPE-DNA sequencing
10.1093/nar/gkad519 · 2023 · External reference
Sources of erroneous sequences and artifact chimeric reads in next generation sequencing of genomic DNA from formalin-fixed paraffin-embedded samples
10.1093/nar/gky1142 · 2019 · External reference
The mutational signatures of formalin fixation on the human genome
10.1038/s41467-022-32041-5 · 2022 · External reference
Analyses of mutational patterns induced by formaldehyde and acetaldehyde reveal similarity to a common mutational signature
10.1093/g3journal/jkac238 · 2022 · External reference
Toward best practice in cancer mutation detection with whole-genome and whole-exome sequencing
10.1038/s41587-021-00994-5 · 2021 · External reference
Sequence artefacts in a prospective series of formalin-fixed tumours tested for mutations in hotspot regions by massively parallel sequencing
10.1186/1755-8794-7-23 · 2014 · External reference
Mutations in BRCA1 from fixed, paraffin-embedded tissue can be artifacts of preservation
10.1016/s0165-4608(98)00079-x · 1998 · External reference
Insertion of specific bases during DNA synthesis past the oxidation-damaged base 8-oxodG
10.1038/349431a0 · 1991 · External reference
Evaluating the repair of DNA derived from formalin-fixed paraffin-embedded tissues prior to genomic profiling by SNP-CGH analysis
10.1038/labinvest.2013.54 · 2013 · External reference
Reducing sequence artifacts in amplicon-based massively parallel sequencing of formalin-fixed paraffin-embedded DNA by enzymatic depletion of uracil-containing templates
10.1373/clinchem.2012.202390 · 2013 · External reference
Duplex-repair enables highly accurate sequencing, despite DNA damage
10.1093/nar/gkab855 · 2022 · External reference
Clinicopathologic and molecular analysis of malignant neoplasms with yolk sac tumor differentiation in women 40 years of age and older
10.1097/pas.0000000000002389 · 2025 · External reference
Artificial intelligence-assisted serial analysis of clinical cancer genomics data identifies changing treatment recommendations and therapeutic targets
10.1158/1078-0432.ccr-21-4061 · 2022 · External reference
CREBBP and STAT6 co-mutation and 16p13 and 1p36 loss define the t (14; 18)-negative diffuse variant of follicular lymphoma
10.1038/s41408-020-0335-0 · 2020 · External reference
Analysis of 100,000 human cancer genomes reveals the landscape of tumor mutational burden
10.1186/s13073-017-0424-2 · 2017 · External reference
Fast and accurate long-read alignment with Burrows-Wheeler transform
10.1093/bioinformatics/btp698 · 2010 · External reference
Unresolved reference
External reference
The sequence alignment/map format and SAMtools
10.1093/bioinformatics/btp352 · 2009 · External reference
COSMIC: exploring the world's knowledge of somatic mutations in human cancer
10.1093/nar/gku1075 · 2015 · External reference
dbSNP: a database of single nucleotide polymorphisms
10.1093/nar/28.1.352 · 2000 · External reference
ANNOVAR: functional annotation of genetic variants from high-throughput sequencing data
10.1093/nar/gkq603 · 2010 · External reference
Performance comparison of three DNA extraction kits on human whole-exome data from formalin-fixed paraffin-embedded normal and tumor samples
10.1371/journal.pone.0195471 · 2018 · External reference
Comparison of accuracy of whole-exome sequencing with formalin-fixed paraffin-embedded and fresh frozen tissue samples
10.1371/journal.pone.0144162 · 2015 · External reference
DNA damage is a pervasive cause of sequencing errors, directly confounding variant identification
10.1126/science.aai8690 · 2017 · External reference
Association between preanalytical factors and tumor mutational burden estimated by next-generation sequencing-based multiplex gene panel assay
10.1634/theoncologist.2018-0587 · 2019 · External reference
Dramatic reduction of sequence artefacts from DNA isolated from formalin-fixed cancer biopsies by treatment with uracil- DNA glycosylase
10.18632/oncotarget.503 · 2012 · External reference
Characterization of FFPE-induced bacterial DNA damage and development of a repair method
10.1093/biomethods/bpaa015 · 2020 · External reference
Successful restoration of archived ovine formalin fixed paraffin-embedded tissue DNA and single nucleotide polymorphism analysis
10.1007/s11259-022-09937-0 · 2023 · External reference
Large-scale analysis of whole genome sequencing data from formalin-fixed paraffin-embedded cancer specimens demonstrates preservation of clinical utility
10.1038/s41467-024-51577-2 · 2024 · External reference
Use of FFPE-derived DNA in next generation sequencing: DNA extraction methods
10.1371/journal.pone.0211400 · 2019 · External reference
