Дисертації з теми "Formalin-fixed, paraffin-embedded tissues- FFPE"
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Matilda, Rentoft. "The use of formalin fixed paraffin embedded tissue and global gene expression profiling for increased understanding of squamous cell carcinoma of the tongue." Doctoral thesis, Umeå universitet, Patologi, 2012. http://urn.kb.se/resolve?urn=urn:nbn:se:umu:diva-54005.
Повний текст джерелаRossouw, Sophia Catherine. "Optimisation of proteomics techniques for archival tumour blocks of a South African cohort of colorectal cancer." University of Western Cape, 2020. http://hdl.handle.net/11394/8036.
Повний текст джерелаTumour-specific protein markers are usually present at elevated concentrations in patient biopsy tissue; therefore tumour tissue is an ideal biological material for studying cancer proteomics and biomarker discovery studies. To understand and elucidate cancer pathogenesis and its mechanisms at the molecular level, the collection and characterisation of a large number of individual patient tissue cohorts are required. Since most pathology institutes routinely preserve biopsy tissues by standardised methods of formalin fixation and paraffin embedment, these archived, FFPE tissues are important collections of pathology material, often accompanied by important metadata, such as patient medical history and treatments. FFPE tissue blocks are conveniently stored under ambient conditions for decades, while retaining cellular morphology due to the modifications induced by formalin.
2022
Djidja, M.-C., S. Francese, Paul M. Loadman, Chris W. Sutton, P. Scriven, E. Claude, M. F. Snel, J. Franck, M. Salzet, and M. R. Clench. "Detergent addition to trypsin digest and Ion Mobility Separation prior to MS/MS improves peptide yield and Protein Identification for in situ Proteomic Investigation of Frozen and FFPE Adenocarcinoma tissue sections." Wiley, 2009. http://hdl.handle.net/10454/4565.
Повний текст джерелаThe identification of proteins involved in tumour progression or which permit enhanced or novel therapeutic targeting is essential for cancer research. Direct MALDI analysis of tissue sections is rapidly demonstrating its potential for protein imaging and profiling in the investigation of a range of disease states including cancer. MALDI-mass spectrometry imaging (MALDI-MSI) has been used here for direct visualisation and in situ characterisation of proteins in breast tumour tissue section samples. Frozen MCF7 breast tumour xenograft and human formalin-fixed paraffin-embedded breast cancer tissue sections were used. An improved protocol for on-tissue trypsin digestion is described incorporating the use of a detergent, which increases the yield of tryptic peptides for both fresh frozen and formalin-fixed paraffin-embedded tumour tissue sections. A novel approach combining MALDI-MSI and ion mobility separation MALDI-tandem mass spectrometry imaging for improving the detection of low-abundance proteins that are difficult to detect by direct MALDI-MSI analysis is described. In situ protein identification was carried out directly from the tissue section by MALDI-MSI. Numerous protein signals were detected and some proteins including histone H3, H4 and Grp75 that were abundant in the tumour region were identified
Clift, Sarah J. "Standardization and validation of an immunoperoxidase test for African horsesickness virus using formalin-fixed, paraffin-embedded tissues." Diss., University of Pretoria, 2009. http://hdl.handle.net/2263/24626.
Повний текст джерелаDissertation (MSc)--University of Pretoria, 2008.
Paraclinical Sciences
unrestricted
Clift, Sarah Jane. "Standardization and validation of an immunoperoxidase test for African horsesickness virus using formalin-fixed, paraffin-embedded tissues." Pretoria : [s.n.], 2008. http://upetd.up.ac.za/thesis/available/etd-05132009-173308/.
Повний текст джерелаViljoen, Rabia. "Optimisation of sample preparation for DNA extraction from formalin fixed paraffin embedded tissues of unresolved sudden unexpected death cases." Master's thesis, Faculty of Health Sciences, 2021. http://hdl.handle.net/11427/33072.
Повний текст джерелаHutamo, Kutlwano Aggrineth. "Typing of Mycobacterium bovis in formalin-fixed, paraffin-embedded tissues from selected wildlife species in the Kruger National Park, South Africa." Diss., University of Pretoria, 2012. http://hdl.handle.net/2263/29674.
Повний текст джерелаDissertation (MSc)--University of Pretoria, 2012.
Veterinary Tropical Diseases
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Lüder, Ripoli Florenza [Verfasser]. "Comparison of fresh frozen vs. formalin-fixed, paraffin-embedded specimens and the expression profiling of 16 target genes in neoplastic and non-neoplastic canine mammary tissues using a multiplex branched-DNA assay / Florenza Lüder Ripoli." Hannover : Bibliothek der Tierärztlichen Hochschule Hannover, 2016. http://d-nb.info/1125394560/34.
Повний текст джерелаKuo, Shanny Hsuan, and 郭. 軒. "Molecular Detection of Feline Coronaviruses in Formalin-Fixed and Paraffin-Embedded Tissue (FFPE) by nested RT-PCRs: a Diagnosis-Aiding Approach." Thesis, 2017. http://ndltd.ncl.edu.tw/handle/dc943h.
Повний текст джерела國立臺灣大學
分子暨比較病理生物學研究所
105
Feline infectious peritonitis (FIP), caused by feline coronavirus (FCoV), is a lethal disease in cats. The clinical signs are non-specific and antemortem diagnosis remains challenging and frustrating. Appling histopathology combined with immunohistochemical (IHC) staining is considered as the gold standard for FIP diagnosis. However, the sensitivity of the IHC method depends much on the numbers of intralesional antigen-bearing cells. Due to the limitations of small sampling sizes as well as the equivocal IHC staining pattern in some specimens, formalin-fixed and paraffin-embedded tissue (FFPE) biopsies frequently submitted for histopathological examination for FIP are the most challenging specimens for pathologists. It has been demonstrated that the consensus PCR targeting 3’UTR alone is non-specific for diagnosis of FIP in fresh tissues. Moreover, two recently described mutations, the substitution of methionine (M) to leucine (L) amino acid mutation at position 1058 (M1058L) and the substitution of serine (S) to alanine (A) amino acid mutation at position 1060 (S1060A) in spike (S) gene, which together can distinguish feline infectious peritonitis virus (FIPV) from feline enteric coronavirus (FECV) in >95% of serotype I FCoV-infected cases in freshly-collected specimens, have suggested a potential diagnostic value. The aim of this study was to compare the uses of a consensus nested RT-PCR (nRT-PCR) targeting 3’UTR and a nRT-PCR targeting the two mutations in S gene in aiding the diagnosis of FIP in FFPE tissues. After evaluation of the RNA quality in FFPE tissues by a RT-PCR targeting the housekeeping gene of feline GAPDH, a total of 38 histopathologically and immunohistochemically confirmed FIP cases and 22 non-FIP cases were used as the source of RNA and examined nRT-PCRs. We have successfully extracted RNA and amplified FCoV genes in 31/38 (82%) FIP cases using consensus nRT-PCR, whereas 17/38 (42%) FIP cases were detected using the S-specific nRT-PCR. Following subsequent sequencing, 16 out of 17 serotype 1 cases had one of the two mutations (M1058L and S1060A) in the S gene. None of the FFPF tissues from these non-FIP cats were positive by both methods. We have demonstrated that in combined with histopathology and IHC staining, both consensus nRT-PCR and S-specific nRT-PCR were capable of detecting viral RNA from FFPE samples where IHC signals were equivocal and possibly misinterpreted as negativity. Both methods serve as a useful tool in supporting FIP diagnosis and for the retrospective study of FIP in archival FFPE tissues.
Zhang, XIAO. "EVALUATION OF RNA QUALITY FROM FORMALIN FIXED AND PARAFFIN EMBEDDED SAMPLES:APPLICATIONS AND LIMITATIONS." Thesis, 2008. http://hdl.handle.net/1974/1740.
Повний текст джерелаThesis (Master, Pathology & Molecular Medicine) -- Queen's University, 2008-09-26 10:49:50.044
Votavová, Hana. "Odlišení primárně mediastinálního a difuzního velkobuněčného B-lymfomu s využitím metody real-time kvantitativní polymerázové řetězové reakce." Doctoral thesis, 2011. http://www.nusl.cz/ntk/nusl-299441.
Повний текст джерелаJhuang, Jie-Yang, and 莊傑仰. "Identify the common DNA viral pathogens from formalin-fixed paraffin-embedded myocardium tissues of myocarditis." Thesis, 2007. http://ndltd.ncl.edu.tw/handle/21645895247955016339.
Повний текст джерела國立臺灣大學
法醫學研究所
95
Fatal acute myocarditis is a common cause of alleged medicolegal investigation. Forensic pathologists frequently encounter these death investigations, so it is an important disease we have to understand. The etiology of myocarditis is usually inferred from clinical information and preliminary laboratory studies. This study was undertaken to evaluate the molecular analysis of endomyocardial archive tissues in identifying the possibility of common DNA viral pathogens. We collected all available clinical record and endomyocardial archive tissues for patients who had myocarditis recorded as the clinical diagnosis at the National Taiwan University Hospital from 2001 to 2005. Findings for all available patients(6 men and 6 women;median age, 26 years)with myocarditis that fulfilled the Dallas criteria were included in this study. Twelve subjects who had died naturally except heart diseases served as control group from forensic autopsy. Nested polymerase chain reaction (PCR)was used for detection of DNA viral genomes (human herpes virus 1, human herpes virus 2, Epstein-Barr virus, and human herpes virus 5)from endomyocardial biopsied tissues. DNA viral nucleic acid were found in the hearts of 2 patients (16.7%), including human herpes virus 5(2 patient). In the control group, no viral genome was detected. In patients with unexplained myocarditis, viral infection really contributes to be an important etiology. We can’t realize which kinds of DNA viral infection based on only microscopic examination of endomyocardial biopsies. Serological tests can help these but it is time-consuming and not very specific. Nested polymerase chain reaction may be an sensitive and specific tool to identify viruses. Then, this may be given as a guide in treating patients in the future, such as viral vaccine prevention. It may be useful in forensic cases to identify the underlying virus infection.
Hong, Chih-Kang, and 洪志岡. "The prevalence of common RNA enteroviral pathogens from formalin-fixed paraffin-embedded myocardium tissues of myocarditis." Thesis, 2011. http://ndltd.ncl.edu.tw/handle/89510507403561154089.
Повний текст джерела國立臺灣大學
法醫學研究所
99
The etiological factor of sudden cardiac death due to acute myocarditis has long been an important issue in forensic medicine. Due to the progression of molecular technique, there are increasing researches about the etiology of myocarditis. Although the cause of myocarditis in any given pations, systemic diseases, drugs, and toxins have been associated with the development of this disease. Viruses are an important cause of myocarditis in North America and Europe. The prevalence of viral myocarditis is still unclear in Taiwan. The purpose of this study was to investigate the prevalence of myocarditis infected by RNA enterovirus in Taiwan. The formalin fixed paraffin embedded myocardial tissue blocks of myocarditis were obtained from endomyocardial biopsy (9 samples), heart transplantation (1 sample) and forensic autopsy specimen die of myocarditis (1 sample). Tissue blocks were studied by using immunohistochemistry and reverse transcriptase-polymerase chain reaction (RT-PCR) for enterovirus. This study showed that histological section from 7 of 11 myocarditis cases were positive for the viral capsid protein VP1 by immunohistochemical staining. In 4 of 7 VP1 immunohistochemical positive staining specimens, viral genome of enterovirus was detected by RT-PCR using 5’ NTR genomic fragment. These results showed most RNA fragment recovered by RT-PCR which fall between 152-470 nt. The product of RT-PCR probe should less than 200 bp which is the best candidate in these recovery. Also the study provided data of rough enteroviral prevalence in myocarditis (more than 36.4%). Further evidence of prevalence about enterovirus involvement in myocarditis needs more large scale of such cases using the method provided in the study to get in Taiwan.
Hsieh, Chao-Han, and 謝昭漢. "mRNA expressions of matrix metalloproteinases and tissue inhibitor metalloproteinases on formalin fixed paraffin embedded human breast tumor tissues using RT-PCR." Thesis, 2011. http://ndltd.ncl.edu.tw/handle/t3uet5.
Повний текст джерела國立中興大學
動物科學系所
99
Formalin fixed paraffin embedded (FFPE) is the most commonly used method worldwide for tissue storage; this resource represents a vast repository of tissue material with a long-term clinical follow-up. Although, FFPE preserves the tissue integrity it may cause extensive damage to nucleic acids stored within the tissue. Hence, the primary goal of this experiment is to set up the best condition for detecting mRNA expression in FFPE tissues by RT-PCR. To optimize the RT-PCR condition, we compare the GAPDH mRNA expression in fresh frozen tissues and tissues with formalin fixation for 1, 2 and 3 days under different proteinase K reaction time, primer concentration, commercial RT kits, amplicon size of primer treatment. We concluded that a shorten fixation time to less than one day, and extended proteinase K reaction time to 24 hours produced better RNA quality and recovery. The appropriate primer amplicon size is smaller than 100 bp and the concentration of primer is better at 5 μM in 1.5 μl. Biomi Biotech RT kit is more sensitive than Invitrogen Superscript RT kit in detecting small amplicon size primer. Matrix metalloproteinases (MMPs) can degrade extracellular matrix, which is regulated by tissue inhibitors of metalloproteinases (TIMPs). Hence, those two factors are considered to play an important role in cancer metastasis and invasion. We applied the above optimal condition for RT-PCR to measure the RNA expressions of matrix metalloproteinases (MMP) -2, -9, -14 and tissue inhibitor of metalloproteinases (TIMP) -1, -2 on FFPE human breast cancer tissues. Thirty cases of FFPE human breast tumor from 2009 and two cases of FFPE human breast tumor from 2007 were adopted in this experiment. FFPE of eleven cases of intraductal papilloma (IP), eleven cases of ductal carcinoma in situ (DCIS), and ten cases of invasive ductal carcinoma (IDC) were included in current study. The RT-PCR results were quantified. The statistics of the results show that RNA expressions of MMP-9 and TIMP-2 were significantly lower in DCIS. TIMP-1 RNA expression was not detected in all samples studied. Correlation analysis show that the expression between MMP-2 and MMP-9, MMP-2 and TIMP-2, MMP-9 and TIMP-2 are highly related. The correlation analysis of MMP-2, MMP-9, MMP-14 and TIMP-2 are highly related in DCIS. Our results suggest that MMP-2, MMP-14 and TIMP-2 are important in extracellular matrix degradation in DCIS and MMP-9 is more relevant with invasive ductal carcinoma.
Upreti, Deepa. "Diagnostics for Rift Valley fever virus." Thesis, 2018. http://hdl.handle.net/2097/39109.
Повний текст джерелаDepartment of Diagnostic Medicine/Pathobiology
A. Sally Davis
Rift Valley fever virus (RVFV) is a mosquito-borne, zoonotic Phlebovirus that is a significant threat to ruminants and humans. RVFV is categorized as an overlap Select Agent by the Department of Health and Human Services and US Department of Agriculture. Therefore, the study of RVFV’s pathogenesis and the development of novel diagnostic tools for the prevention and control of outbreaks and virus spread is crucial. RVF is endemic to sub-Saharan Africa but has spread beyond the continent to the Arabian Peninsula indicating the competence of the virus to emerge in new areas. Thus, the high likelihood of RVF’s spread to other non- endemic countries also spurs the need for development and implementation of rapid diagnostic tests and surveillance programs. In the US, RVFV is a Select Agent, requiring BSL-3 enhanced containment practices for research work. First, we developed a method for the detection of RVFV RNA by reverse transcriptase real-time PCR (RT-qPCR) using non-infectious, formalin- fixed, paraffin-embedded tissues (FFPET). The results from FFPET RT-qPCR were compared to prior results for fresh-frozen tissues (FFT) RT-qPCR, as well as immunohistochemistry and histopathology completed on the same FFPET blocks. We developed a novel technique using a rapid and low cost magnetic bead extraction method for recovery of amplifiable RVFV RNA from FFPET. FFPET RT-qPCR can serve as an alternative tissue-based diagnostic test, which does not require a BSL-3 research facility. Second, we assessed the diagnostic accuracy and precision of a recombinant RVFV nucleoprotein based competitive ELISA (cELISA) assay to detect RVFV antibodies. The cELISA results were compared to the virus neutralization test, the gold standard serological assay for RVFV. This prototype cELISA is easy to implement, sensitive, specific, and safe test for the detection of antibodies to RVFV in diagnostic and surveillance applications. RVF is an important transboundary disease that should be monitored on a regular basis. The diagnostic tests developed and validated in this thesis could be used in endemic or non-endemic countries for the early detection of RVF and assist with the implementation of countermeasures against RVFV.
Govender, Kerushini. "Preliminary validation of Mycobacterium tuberculosis complex-specific PCR tests for the detection of M. bovis and M. tuberculosis in formalin-fixed, paraffin-embedded tissues of captive and free-ranging wildlife." Diss., 2013. http://hdl.handle.net/2263/37366.
Повний текст джерелаDissertation (MSc)--University of Pretoria, 2013.
gm2014
Veterinary Tropical Diseases
Unrestricted
Nourizadeh, Alireza. "APC, BRAF and KRAS mutations, and MLH1, MGMT and CDKN2A expression analysis in Nepalese colorectal cancer patients. : -." Thesis, 2017. http://urn.kb.se/resolve?urn=urn:nbn:se:his:diva-15719.
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