High‐throughput proteomic analysis of FFPE tissue samples facilitates tumor stratification
Sign Up to like & getrecommendations! Published in 2019 at "Molecular Oncology"
DOI: 10.1002/1878-0261.12570
Abstract: Formalin‐fixed, paraffin‐embedded (FFPE), biobanked tissue samples offer an invaluable resource for clinical and biomarker research. Here, we developed a pressure cycling technology (PCT)‐SWATH mass spectrometry workflow to analyze FFPE tissue proteomes and applied it to… read more here.
Keywords: stratification; ffpe samples; tissue samples; ffpe ... See more keywords
Evaluation of an E6/E7 PCR‐capillary electrophoresis fragment analysis in the genotyping of human papillomavirus in archival FFPE samples of oropharyngeal cancer
Sign Up to like & getrecommendations! Published in 2024 at "Journal of Medical Virology"
DOI: 10.1002/jmv.29716
Abstract: Accumulating evidence has demonstrated that high‐risk human papillomaviruses (HR‐HPVs) are involved in the etiology of a subset of oropharyngeal squamous cell carcinoma (OPSCC). In this regard, the International Agency for Research on Cancer (IARC) has… read more here.
Keywords: hpv; cancer; hpv dna; surex ... See more keywords
Proteomic Analysis of FFPE Tissue Samples Identifies Potential Molecular Mechanisms Mediating Resistance to Radiotherapy in Rectal Cancer
Sign Up to like & getrecommendations! Published in 2025 at "Journal of Proteome Research"
DOI: 10.1021/acs.jproteome.5c00114
Abstract: Chemoradiation prior to surgery in locally advanced rectal cancer is the current standard therapy but is not effective in all rectal cancer patients. Prognostic markers supporting patient stratification with respect to clinical response would therefore… read more here.
Keywords: prognostic markers; rectal cancer; tissue nonresponders; ffpe ... See more keywords
Novel FFPE proteomics method suggests prolactin induced protein as hormone induced cytoskeleton remodeling spatial biomarker
Sign Up to like & getrecommendations! Published in 2024 at "Communications Biology"
DOI: 10.1038/s42003-024-06354-8
Abstract: Robotically assisted proteomics provides insights into the regulation of multiple proteins achieving excellent spatial resolution. However, developing an effective method for spatially resolved quantitative proteomics of formalin fixed paraffin embedded tissue (FFPE) in an accessible… read more here.
Keywords: prolactin induced; induced protein; ffpe; spatial biomarker ... See more keywords
A Comprehensive Study of Laboratory-Based Micro-CT for 3D Virtual Histology of Human FFPE Tissue Blocks
Sign Up to like & getrecommendations! Published in 2024 at "IEEE Access"
DOI: 10.1109/access.2024.3407733
Abstract: Advances in laboratory-based X-ray computed tomography (CT) have enabled X-ray 3D virtual histology. This method shows a great potential as a complementary technique to conventional 2D histology where extensive volumetric sampling is necessary. While formalin-fixed… read more here.
Keywords: virtual histology; laboratory based; ray virtual; histology ... See more keywords
DNA Degradation in FFPE Tissue Samples Caused by Air Transport: An Experimental Evaluation of Radiation Exposure
Sign Up to like & getrecommendations! Published in 2025 at "Pathology International"
DOI: 10.1111/pin.70027
Abstract: Air transport of FFPE cancer tissue samples led to increased DNA fragmentation, primarily due to radiation exposure rather than temperature changes or freeze-thaw cycles. While overall degradation was minor, critical samples requiring high nucleic acid… read more here.
Keywords: radiation exposure; air; tissue samples; ffpe ... See more keywords
Extraction of RNA from formalin‐fixed, paraffin‐embedded equine placenta
Sign Up to like & getrecommendations! Published in 2019 at "Reproduction in Domestic Animals"
DOI: 10.1111/rda.13406
Abstract: Archived formalin-fixed, paraffin-embedded (FFPE) samples represent a valuable resource for the determination of gene expression for physio/pathological conditions. In the present study, we validated a protocol for the extraction of RNA from FFPE samples collected… read more here.
Keywords: fixed paraffin; ffpe samples; ffpe; paraffin embedded ... See more keywords
Abstract 1322: Development and performance of a formalin-damaged multiplexed DNA tumor mutation FFPE reference material
Sign Up to like & getrecommendations! Published in 2020 at "Cancer Research"
DOI: 10.1158/1538-7445.am2020-1322
Abstract: Tumor profiling often begins with a tissue biopsy that is formalin fixed and paraffin embedded (FFPE), a process that introduces various kinds of damage in the nucleic acids found in the tissue, however FFPE reference… read more here.
Keywords: ffpe; tumor; reference material; dna ... See more keywords
Abstract 249: A novel suite of enzyme mixes enable robust hybrid capture sequencing from low quality FFPE DNA
Sign Up to like & getrecommendations! Published in 2023 at "Cancer Research"
DOI: 10.1158/1538-7445.am2023-249
Abstract: In cancer genomics, a common source of DNA is formalin-fixed, paraffin-embedded (FFPE) tissue from patient surgical samples, where in most cases high-quality fresh or frozen tissue samples are not available. FFPE DNA poses many notable… read more here.
Keywords: dna; quality; ffpe; mix ... See more keywords
Abstract 6840: Automated preparation of single nuclei from FFPE samples for snRNA-Seq
Sign Up to like & getrecommendations! Published in 2024 at "Cancer Research"
DOI: 10.1158/1538-7445.am2024-6840
Abstract: S2 Genomics developed the Singulator™ 100 and 200 Systems to automate the processing of fresh, frozen, or OCT tissues into single cell or single nuclei suspensions using disposable cartridges, reagents, and customizable protocols. The systems… read more here.
Keywords: snrna seq; preparation; single nuclei; ffpe ... See more keywords
Abstract 2626: Leveraging FFPE single-nucleus RNA-sequencing for Osteosarcoma
Sign Up to like & getrecommendations! Published in 2025 at "Cancer Research"
DOI: 10.1158/1538-7445.am2025-2626
Abstract: Osteosarcoma (OS), a heterogeneous class of bone sarcomas, can be subclassified based on predominant histological features. This molecular heterogeneity cannot fully be resolved with bulk sequencing. However, due to the rarity of several OS subtypes,… read more here.
Keywords: rna sequencing; fixed frozen; ffpe; single nucleus ... See more keywords