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Frozen Sections

Frozen Sections are a critical technique in pathology and histology, allowing rapid assessment of tissue samples without the need for traditional paraffin-embedding and processing.
This method preserves the structural integrity of the tissue, enabling quick diagnosis and intraoperative decision-making.
Frozen Sections are particularly useful for examining margins during surgical procedures, detecting the presence of cancer cells, and guiding further treatment.
The process involves rapidly freezing a small tissue sample, sectioning it using a cryostat, and staining the sections for microscopic analysis.
Accurate and reproducible Frozen Section analysis is essential for patient care, and PubCompare.ai offers a revolutionary AI-driven solution to optimize this workflow, ensuring effortless access to the best protocols and enssuring reliable, high-quality results.

Most cited protocols related to «Frozen Sections»

Gene expression profiles were generated using RNA obtained by TRIzol extraction (Invitrogen) from microdissected alternate sections of the same 59 EDRN lung AD/NTL frozen tissue pairs used for the DNA methylation analysis. Expression data were obtained using the Illumina Human WG-6 v3.0 Expression BeadChips (Illumina) at the Genomics Core at UT Southwestern. Bead-summarized data were obtained using the Illumina BeadStudio software, expression values were log2-transformed, and Robust Spline Normalization (RSN) was performed with the lumi package in R (Du et al. 2008 (link)). The ReMOAT annotation of gene expression data was used to include only “perfect” and “good” annotated probes (Barbosa-Morais et al. 2010 (link)). Exploratory quality-control analyses revealed no strong batch effects (data not shown), although one tumor sample was excluded (3035_T) due to quality concerns. Out of 766 differentially methylated genes identified (Q < 0.05, median β-value difference ≥0.2), we were able to examine gene expression levels for 709 genes after the probe quality filtering detailed above. For genes with multiple probes, we selected the probe with the highest variance and analyzed differential expression using t-tests and a Benjamini-Hochberg (BH) multiple comparisons correction. Statistical significance was called at BH-adjusted p < 0.05. An additional stringent filter of mean twofold change was used to identify top changing genes. Correlation between gene expression and DNA methylation for each gene was measured using the Spearman correlation coefficient. For genes with multiple probes measuring DNA methylation, we selected the probe with the highest SD/SDmax value for DNA methylation.
Publication 2012
DNA Methylation Frozen Sections Gene Annotation Gene Expression Genes Homo sapiens Lung Neoplasms Tissues trizol
To better understand the genetic pathogenesis of gliomas and begin to identify potential glioma-specific molecular therapeutic targets, consistent molecular characterization of a large number of tumors is required.
This process was undertaken under a national prospective clinical trial that would eventually be IRB-approved both within the NCI intramural program as well as through both CTEP-sponsored adult brain tumor consortia (NABTT and NABTC protocol # 01-07). With the activation of this study, we collected matched tumor, blood and plasma from the 14 contributing institutions (National Institutes of Health, Henry Ford Hospital, Thomas Jefferson University, University of California San Francisco, H. Lee Moffitt Hospital, University of Wisconsin, University of Pittsburgh Medical Center, University of California Los Angeles, M.D. Anderson Cancer Center, Dana Farber Cancer Center, Duke University, Johns Hopkins University, Massachusetts General Hospital and Memorial Sloan Kettering Cancer Center). All tissue collected is sent to the Neuro-Oncology Branch laboratory for processing. The samples were provided as snap frozen sections of areas immediately adjacent to the region used for the histopathological diagnosis. Initial histopathological diagnosis is performed at the tissue collecting institution following the World Health Organization (WHO) standards(6 (link)). The initial diagnosis is reviewed by in-house neuropathologists to assure a measure of consistency across samples. To date, 874 complete frozen sample sets have been accrued, of those 389 are Glioblastoma Multiforme, 122 are Astrocytomas, 113 are Oligodendrogliomas, 33 are Mixed with the reminder still unclassified.
Clinical data on the patients is collected prospectively until the patient’s death through the NABTC Operations Office at M.D. Anderson Cancer Center, Houston, Texas and the NABTT Operations office at the Johns Hopkins University, Baltimore, MD. The clinical data collected is updated into the Rembrandt database on a quarterly basis.
In order to assure consistency in the collection, shipment, processing, assaying, storage, data retrieval and dissemination, we have put together a series of standard operating procedures (SOPs) that have resulted in a streamlined, high-throughput operation capable of handling large numbers of samples in a consistent, operator-independent fashion. Consistency of data over time is continuously monitored by looking for any signs of batch effect in the analyses.
Publication 2009
Adult Astrocytoma BLOOD Brain Neoplasms Diagnosis Freezing Frozen Sections Glioblastoma Multiforme Glioma Malignant Neoplasms Neoplasms Neuropathologist Oligodendroglioma pathogenesis Patients Plasma Surgery, Office Therapeutics Tissues

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Publication 2011
Freezing Frozen Sections Gene Expression Intestinal Polyps Laser Capture Microdissection Medical Devices MicroRNAs Mus Polyps SMAD4 protein, human Tamoxifen Tissues
The institutional review board of the University of Cologne approved this study. We collected and analysed fresh-frozen tumour samples of 152 SCLC patients, which were provided by multiple collaborating institutions as fresh-frozen tissue specimen, frozen sections or as genomic DNA extracted from fresh-frozen material (Extended Data Fig. 1). Human tumour samples were obtained from patients under IRB-approved protocols following written informed consent.
The fresh-frozen SCLC samples were primary tumours diagnosed as stage I–IV tumours, and snap-frozen after tissue sampling. All tumour samples were pathologically assessed to have a purity of at least 60% and no extensive signs of necrosis. Additionally, these tumour samples were reviewed by at least two independent expert pathologists and the diagnosis of SCLC was histomorphologically confirmed by H&E staining and immunohistochemistry for chromogranin A, synaptophysin, CD56 and Ki67. Matching normal material was provided in the form of EDTA-anticoagulated blood or adjacent non-tumorigenic lung tissue (Supplementary Table 1). The matched normal tissue was confirmed to be free of tumour contaminants by pathological assessment. Furthermore, tumour and matching normal material were confirmed to be acquired from the same patient by short tandem repeat (STR) analysis conducted at the Institute of Legal Medicine at the University of Cologne (Germany), or confirmed by subsequent SNP 6.0 array and sequencing analyses. Patient material was stored at −80 °C.
Whole-genome sequencing was performed on 110 SCLC fresh-frozen tumour samples and matched normal material. Additionally, we analysed RNA-seq data of 81 SCLC primary tumours (Extended Data Fig. 1 and Supplementary Table 1), among which 20 cases were previously published2 (link),43 . Furthermore, we studied the copy-number alterations of a total of 142 fresh-frozen tumour specimen by Affymetrix SNP 6.0, among which 74 cases were described before44 .
Clinical correlation studies were performed with the study cohort of 110 SCLC patients considering age of diagnosis, gender, tumour stage, surgery, treatment with chemotherapeutics, smoking status, smoking history and overall survival (Extended Data Figs 2 and 4 and Supplementary Table 1). The median follow-up time for this cohort of 110 SCLC patients was 69 months, and 31% of the patients were alive at the time of last follow-up (Extended Data Fig. 2a and Supplementary Table 1). Smoking status was available for 88% (n = 97) of the patients; 63% (n = 69) reported a smoking history amounting to a median of 45 pack-years. Patients with a known smoking history were further subcategorized to heavy smokers (>30 pack-years), average smokers (10–30 pack-years) and light/never smokers (<10 pack-years).
Primary findings on somatic mutations were further studied in a second independent cohort consisting of 112 SCLC cases. This validation cohort refers to the exome sequencing data of 28 fresh-frozen SCLC primary tumours and 9 SCLC cell lines2 (link),3 (link) which were re-analysed in this present study (Supplementary Table 7). Additionally, we performed targeted sequencing on 8 fresh-frozen and 67 formalin fixed paraffin embedded (FFPE) samples from SCLC patients (Supplementary Table 1).
Publication 2015
BLOOD Cells Chromogranin A Copy Number Polymorphism Diagnosis Diploid Cell Edetic Acid Formalin Freezing Frozen Sections Gender Genome Homo sapiens Immunohistochemistry Light Lung Mutation Necrosis Neoplasms Neoplastic Cell Transformation Operative Surgical Procedures Paraffin Embedding Pathologists Patients Pharmacotherapy RNA-Seq Short Tandem Repeat Small Cell Lung Carcinoma Synaptophysin Tissues
Epidermal keratinocytes were isolated from human foreskin as previously described (Halbert et al., 1992 (link)). The cells were propagated in medium 154 supplemented with human keratinocyte growth supplement, 1,000× gentamycin/amphotericin B solution (Invitrogen), and 0.07 or 0.2 mM CaCl2.
Keratinocytes were transduced with retroviral supernatants produced from Phoenix cells (provided by G. Nolan, Stanford University, Stanford, CA) as previously described (Getsios et al., 2004 (link)). For differentiation of submerged cultures, cells were grown to confluence and switched to E-medium containing 1.8 mM Ca2+ for 1–6 d (Meyers and Laimins, 1994 (link)). For raft cultures, transduced cells were expanded and grown at an air–medium interface according to published protocols (Meyers and Laimins, 1994 (link)). Organotypic cultures were grown for 3–10 d, at which time they were lysed for RNA/protein analysis, embedded in optimal cutting temperature compound for frozen sections, fixed in 10% neutral-buffered formalin, and embedded in paraffin for histology or fixed in 2% paraformaldehyde/2% glutaraldehyde in cacodylate buffer for EM analysis. For some experiments, cultures were treated with 2–5 µg/ml ETA, DMSO (Thermo Fisher Scientific), 10 µM PKI166 (Novartis), 5 µM U0126 (Cell Signaling Technology), or 10 µM SB203580 (EMD).
Publication 2009
Amphotericin Amphotericin B Buffers Cacodylate Cells Dietary Supplements Epidermis Foreskin Formalin Frozen Sections Gentamicin gentamicin B Glutaral Homo sapiens Keratinocyte Microphysiological Systems Paraffin Embedding paraform PKI 166 Proteins Retroviridae SB 203580 Sulfoxide, Dimethyl U 0126

Most recents protocols related to «Frozen Sections»

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Example 18

Frozen tissue sections of liver were cut at 10 μm and air dried to the slides. After fixation in 10% formalin for 5 min, the slides were briefly washed with running tap water for 10 min, followed by rinse with 60{circumflex over ( )} isopropanol. Subsequently, oil red O working solution (0.3% oil red O) was used for lipid staining for 15 min. Slides were again rinsed with 60% isopropanol and then nuclei were lightly stained with alum haematoxylin, followed by rinse with distilled water and mounted in glycerine jelly. After half an hour, pictures were taken under microscopy.

Exemplary data are shown in FIG. 19, in which reduced lipid droplet amounts were observed after daily administration of mTA4 or mTA37 for 5 weeks.

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Patent 2024
alum, potassium Cell Nucleus Formalin Frozen Sections Glycerin Isopropyl Alcohol Lipid Droplet Lipids Liver Microscopy solvent red 27 Tissues

Example 17

Materials and Methods

Human CD40 transgenic mice were inoculated with MC38-hCEA tumor cells (MC-38-CEA-2, Kerafast) s.c. and were administered with 100 μg anti-CD40 antibody or a molar equivalent dose (167 μg) CD40×CEA bsAb (ffAC_05337) or Isotype bsAb i.p. on days 10 and 13. On day 14, tumors were dissected. Frozen tumor sections were stained for human IgG to assess accumulation of administered antibodies, and for CEA to assess CEA expression pattern in the tumors.

Results

FIG. 27 shows accumulation of the CD40×CEA bsAb (ffAC_05337), but not corresponding CD40 mAb, in CEA-expressing tumors

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Patent 2024
Antibodies Antibodies, Anti-Idiotypic Cells Frozen Sections Homo sapiens Immunoglobulin Isotypes Mice, Transgenic Molar Neoplasms
Frozen sections were cut at a thickness of 5 μm and mounted onto microscope slides. Sequential sections were used for a single antibody or for two antibodies (co-expression- as specified in Tables 1, 2) including for the negative controls. Samples were fixed with acetone for 15 min. at 4°C and washed with PBS. Then, incubated with the primary antibodies diluted at 1:100 in blocking buffer of 10% normal goat serum in RPMI-1640 medium, overnight at 4°C (2 (link)). The following cellular markers were used to identify and quantify cell populations in the carotid plaques; PMNs were identified by primary antibodies for CD66b, NE, and MPO and macrophages were identified by CD163. Double staining of CD66b(mono)/CD163(poly) was performed to identify potential co-expression. Additional markers included the scavenger receptors CD36 and CD68 for foam cells, the oxidative stress marker 3-NT, hypoxia inducible factor 1α (HIF-1α), VEGF, CD31 – for vessel identification by the presence of endothelial cells, and smooth muscle cell actin (SMC-actin), a marker of arterial wall remodeling.
After overnight incubation with primary antibodues the slides were washed and incubated with 1/400 secondary antibodies in blocking buffer, at room temperature, for 40 min. Secondary antibodies included Cy2 (CF 488A)-conjugated goat anti-rabbit IgG and/or Cy5 (CF 647)-conjugated goat anti-mouse IgG (Biotium, Hayward, CA). Isotype controls included: purified mouse IgG1 (clone MOPC-21, BioLegend, San Diego, CA), and normal rabbit IgG (sc-2027, Santa Cruz Biotechnologies, Santa Cruz, CA). After 40 min. incubation, slides were washed and mounted with mounting medium containing 4’, 6-diamidino-2-phenylindole (DAPI) for nuclear staining (Vectashield H-1000, Vector lab. Inc. Burlingame, CA).
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Publication 2023
Acetone Actins anti-IgG Antibodies Arteries Blood Vessel Buffers Carotid Arteries CD163 protein, human CEACAM8 protein, human Cells Clone Cells Cloning Vectors Endothelial Cells Foam Cells Frozen Sections Goat HIF1A protein, human IgG1 Immunoglobulin Isotypes Immunoglobulins Macrophage Microscopy Mus Myocytes, Smooth Muscle Oxidative Stress Poly A Population Group Rabbits Scavenger Receptor Senile Plaques Serum Vascular Endothelial Growth Factors
Frozen sections were cut at a 5 μm thickness and mounted on microscope slides. The 5-μm-thick sections were stained with hematoxylin and eosin (H&E), and lipid deposits in the plaques were visualized by Oil Red O staining as previously described (3 (link), 15 (link)). Primary antibodies against CD66b, CD163, and CD68 cellular markets were diluted to 1:100, and a Histostain-Plus Kit AEC, Broad Spectrum (Invitrogen) was used for their detection. The sections were incubated with the primary antibodies for 2 hrs. at 37°C. Then, the sections were incubated with secondary antibody from the Histostain-Plus kit, for 30 min at 37°C. The 3-amino-9-ethylcarbazole (AEC) was used as a chromogen to detect the antibodies according to manufacturer’s instructions. Polymorphonuclear neutrophils (PMNs) were identified by the expression of CD66b, macrophages were identified by the expression of CD163 and foam cells were identified by the expression of CD68 scavenger receptors. Isotype controls were used as specified in the list of antibodies. Lipid deposits were stained with Oil Red O. Sequential sections were stained each for an antibody including for negative controls. At least 3 different sections were cut from the center of each plaque for each CD marker and in each section at least 5 different fields were analyzed.
Collagen and non-collagen proteins were detected by differential staining in tissue sections with two dyes - Sirius Red for all collagens and Fast Green for non-collagen proteins.
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Publication 2023
3-amino-9-ethylcarbazole Antibodies azo rubin S CD163 protein, human CEACAM8 protein, human Cells Collagen Dyes Eosin Fast Green Foam Cells Frozen Sections Immunoglobulin Isotypes Immunoglobulins Lipids Macrophage Microscopy Neutrophil Proteins Scavenger Receptor Senile Plaques Tissues
Western blotting was performed based on a standard protocol. Immunofluorescence staining was performed on frozen tissues, as described previously39 (link). In short, mouse brains were fixed by transcardial perfusion with 4% paraformaldehyde, and stored at −80 °C. Frozen brain sections (25 μm thick) were obtained using a Leica cryostat, and immunostained using a free-floating staining method. All primary antibodies used in this study are listed in Supplemental Table 4. For Nissl staining, paraffin-embedded sagittal brain sections (5 μm) were stained with 0.1% cresyl violet solution. Images were captured on a Zeiss Axio Imager Z2 motorized fluorescence microscope (Carl Zeiss MicroImaging).
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Publication 2023
Antibodies Brain cresyl violet Fluorescent Antibody Technique Freezing Frozen Sections Mice, Laboratory Microscopy, Fluorescence Paraffin paraform Perfusion Tissues

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DAPI is a fluorescent dye that binds strongly to adenine-thymine (A-T) rich regions in DNA. It is commonly used as a nuclear counterstain in fluorescence microscopy to visualize and locate cell nuclei.
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DAPI is a fluorescent dye used in microscopy and flow cytometry to stain cell nuclei. It binds strongly to the minor groove of double-stranded DNA, emitting blue fluorescence when excited by ultraviolet light.
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Oil Red O is a fat-soluble dye used in histology and cell biology for the staining of neutral lipids, such as triglycerides and cholesterol esters. It is a useful tool for the identification and visualization of lipid-rich structures in cells and tissues.
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The Olympus Fluorescence Microscope is an optical microscope that uses fluorescence to visualize and analyze samples. It illuminates the specimen with light of a specific wavelength, causing fluorescent molecules within the sample to emit light at a different wavelength, which is then detected and displayed.
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Tissue-Tek OCT compound is a tissue-embedding medium designed for cryosectioning. It is formulated to provide optimal support and preservation of tissue samples during the freezing process, enabling the production of high-quality frozen sections for microscopic analysis.
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The Cryostat is a laboratory instrument designed for cutting thin, frozen tissue samples for microscopic examination. It maintains a low-temperature environment, allowing for the precise sectioning of specimens.
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More about "Frozen Sections"

Frozen sections, also known as cryosections or cryostatic sections, are a critical technique in pathology and histology.
This rapid assessment method allows for the analysis of tissue samples without the need for traditional paraffin-embedding and processing.
By preserving the structural integrity of the tissue, frozen sections enable quick diagnosis and intraoperative decision-making.
Frozen sections are particularly useful for examining margins during surgical procedures, detecting the presence of cancer cells, and guiding further treatment.
The process involves rapidly freezing a small tissue sample, sectioning it using a cryostat, and staining the sections for microscopic analysis.
Accurate and reproducible frozen section analysis is essential for patient care.
DAPI (4',6-diamidino-2-phenylindole) and Alexa Fluor 488 are fluorescent stains commonly used in frozen section analysis, enabling the visualization of cellular structures and specific target molecules, respectively.
OCT (Optimal Cutting Temperature) compound is a versatile embedding medium that facilitates the freezing and sectioning of tissue samples.
Oil Red O is a stain used to detect the presence of lipids in frozen sections, particularly useful for the analysis of fatty tissue or metabolic disorders.
Fluorescence microscopy is an invaluable tool for visualizing and analyzing the stained frozen sections, providing high-contrast images and the ability to detect specific biomolecules.
Tissue-Tek OCT compound is a widely used embedding medium that ensures the proper freezing and sectioning of tissue samples.
The cryostat is the essential instrument for cutting thin, frozen sections of tissue, enabling the preparation of samples for microscopic examination.
Triton X-100 is a detergent commonly used in the processing of frozen sections, as it helps to permeabilize cell membranes and improve the penetration of stains and antibodies.
PubCompare.ai offers a revolutionary AI-driven solution to optimize the frozen section workflow, ensuring effortless access to the best protocols and enssuring reliable, high-quality results.
This innovative platform helps researchers and clinicians streamline their frozen section analysis, leading to more accurate diagnoses and improved patient outcomes.