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Wyświetlanie 1-12 z 12
Tytuł:
Cytomegalovirus immediate early gene UL37 encodes a novel MHC-like protein
Autorzy:
Wyrwicz, Lucjan
Rychlewski, Leszek
Powiązania:
https://bibliotekanauki.pl/articles/1040815.pdf
Data publikacji:
2008
Wydawca:
Polskie Towarzystwo Biochemiczne
Tematy:
Betaherpesvirinae
CMV
protein structure prediction
MHC I class
bioinformatics
apoptosis
Opis:
The cytomegalovirus (CMV) genome encodes four clusters of genes expressed immediately after infection - i.e.: UL36-38, UL122-123, TRS1-IRS1, and US3. The general function of these genes is associated with inhibition of cellular mechanisms of antiviral response. Although several biological processes have been mapped onto specific gene products, the knowledge of the molecular mechanism of their activity remains fragmentary. Here, we report the application of protein structure prediction methods in assigning the function to a glycosylated domain encoded by UL37 of CMV (gpUL37, UL37x3). The discerned similarity clearly points out that this domain represents a novel type of a major histocompatibility complex (MHC)-like protein, and consequently may play a central role in an additional mechanism of escape from antiviral response.
Źródło:
Acta Biochimica Polonica; 2008, 55, 1; 67-74
0001-527X
Pojawia się w:
Acta Biochimica Polonica
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Fold recognition insights into function of herpes ICP4 protein
Autorzy:
Wyrwicz, Lucjan
Rychlewski, Leszek
Powiązania:
https://bibliotekanauki.pl/articles/1040938.pdf
Data publikacji:
2007
Wydawca:
Polskie Towarzystwo Biochemiczne
Tematy:
VZV
HSV2
Herpesviridae
bioinformatics
HSV1
ICP4 transcription regulator
Opis:
ICP4 is an important factor regulating the life cycle of HSV1. This conserved protein has several molecular functions, including activation of expression of viral late gene transcripts and inhibition of immediate early genes. Although ICP4 and its Alphaherpesvirinae homologs (eg.: IE62 of VZV) have been subjects of various molecular studies, a complete view of their molecular function is lacking. Here we present the results of fold recognition and molecular modelling of ICP4 functional domains. The performed state-of-the-art bioinformatic fold recognition analysis identified a dual helix-turn-helix motif as a binding module of repressor activities (so called region 2 domain). The mapping of distant homology identified that a segment responsible for activation of late gene promoters (region 4) exhibits folding of uracil DNA glycosylase (UDG), but seems to be a non-functional homolog of UDG. Potential implications of the results are discussed.
Źródło:
Acta Biochimica Polonica; 2007, 54, 3; 551-559
0001-527X
Pojawia się w:
Acta Biochimica Polonica
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Homologues of HSV-1 nuclear egress factor UL34 are potential phosphoinositide-binding proteins
Autorzy:
Wyrwicz, Lucjan
Koczyk, Grzegorz
Rychlewski, Leszek
Powiązania:
https://bibliotekanauki.pl/articles/1040842.pdf
Data publikacji:
2008
Wydawca:
Polskie Towarzystwo Biochemiczne
Tematy:
HSV-1
Herpesviridae
phosphoinositides
protein structure prediction
bioinformatics
UL34
nuclear egress
Opis:
During the herpesvirus replication cycle, viral transcription, DNA replication, formation of capsids and DNA packaging occur in the nucleus. The subsequent nuclear egress of newly synthesized nucleocapsids is performed by budding of the inner leaflet of the nuclear membrane, which creates the primary envelope. Although products of two genes conserved throughout the Herpesviridae family (HSV-1 UL34 and UL31) have previously been shown to be involved in the execution of this process, the molecular basis of their activity is not clear. Here we present results of protein structure prediction for the conserved domain of UL34. The applied methodology suggests that this protein adopts a pleckstrin homology (PH) fold to perform its function. A detailed inspection of the ligand binding site strongly supports the hypothesis that UL34 orthologs can recognize phosphoinositides. Since previous works suggest that alterations of UL34 gene product result in a drastic impairment of primary envelopment of HSV-1 and trapping of capsids in the nucleus, the presented data may lead to the development of novel anti-herpetic therapeutic strategies where analogs of phosphoinositides are administered.
Źródło:
Acta Biochimica Polonica; 2008, 55, 1; 207-213
0001-527X
Pojawia się w:
Acta Biochimica Polonica
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Unexpected domain composition of MACC1 links MET signaling and apoptosis
Autorzy:
Kokoszyńska, Katarzyna
Kryński, Jacek
Rychlewski, Leszek
Wyrwicz, Lucjan
Powiązania:
https://bibliotekanauki.pl/articles/1040592.pdf
Data publikacji:
2009
Wydawca:
Polskie Towarzystwo Biochemiczne
Tematy:
protein structure modeling
colorectal cancer
bioinformatics
death domain
Opis:
Colorectal cancer, one of the most challenging malignancies, still has a limited number of recognized prognostic and predictive markers indicating appropriate treatment. MACC1 (metastasis-associated in colon cancer-1), a novel regulator of tumor growth and metastasis has recently been identified as an important prognostic factor of metastatic disease in colorectal cancer. The mechanism of MACC1 activity remains undetermined. Here we apply a combination of fold recognition and homology modeling algorithms to draft MACC1 function. The applied methods revealed that the MACC1 protein consists of four domains: ZU5, SH3, and two C-terminal death domains (DD). Previously a similar domain architecture (ZU5-DD) was observed in other proteins, involved mainly in signal transduction and apoptosis regulation. Based on the specific aspects of the closest homologues' biology functional hypotheses on MACC1 are proposed. A broad range of bioinformatic analyzes indicates that MACC1, besides its involvement in signal transduction from the MET receptor, links MET signaling and apoptosis.
Źródło:
Acta Biochimica Polonica; 2009, 56, 2; 317-324
0001-527X
Pojawia się w:
Acta Biochimica Polonica
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Barretts esophagus associates with a variant of IL23R gene
Autorzy:
Gaj, Pawel
Mikula, Michal
Wyrwicz, Lucjan
Regula, Jaroslaw
Ostrowski, Jerzy
Powiązania:
https://bibliotekanauki.pl/articles/1040756.pdf
Data publikacji:
2008
Wydawca:
Polskie Towarzystwo Biochemiczne
Tematy:
Barrett's esophagus
risk
SNP
IL23R
association study
Opis:
Gastroesophageal reflux disease is regarded as a spectrum of diseases: non-erosive reflux disease (NERD), erosive reflux disease (ERD), and the far end of the spectrum represented by patients with Barrett's esophagus. Among predisposing factors, both risk and protective polymorphic variants of several genes may influence the clinical outcomes of reflux disease. Consequently, different molecular mechanisms are likely to underlie the development of clinical variants of reflux disease. Ninety six patients with reflux disease were screened for polymorphisms of CARD15, SLC22A4 (OCTN1), SLC22A5 (OCTN2), DLG5, ATG16L1 and IL23R genes which had previously been found to associate with immune-mediated chronic inflammatory disorders. While none of the polymorphisms were associated with NERD or ERD, the 1142G/A variant of the IL23R gene was found to be a risk variant in Barrett's esophagus patients. The IL23/IL23R pathway may modulate STAT3 transcriptional activity which is an essential regulator not only of immune-mediated inflammation, but also of inflammatory-associated apoptosis resistance. Although the mechanisms of metaplastic transition of inflamed squamous epithelium are undetermined as yet, our findings suggest potential involvement of alternations in the IL23/IL23R pathway as a molecular background of Barrett's esophagus development.
Źródło:
Acta Biochimica Polonica; 2008, 55, 2; 365-369
0001-527X
Pojawia się w:
Acta Biochimica Polonica
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
A common cis-element in promoters of protein synthesis and cell cycle genes
Autorzy:
Wyrwicz, Lucjan
Gaj, Paweł
Hoffmann, Marcin
Rychlewski, Leszek
Ostrowski, Jerzy
Powiązania:
https://bibliotekanauki.pl/articles/1041116.pdf
Data publikacji:
2007
Wydawca:
Polskie Towarzystwo Biochemiczne
Tematy:
gel shift assay
regulation of transcription
comparative genomics
gene expression
promoter
bioinformatics
Opis:
Gene promoters contain several classes of functional sequence elements (cis elements) recognized by protein agents, e.g. transcription factors and essential components of the transcription machinery. Here we describe a common DNA regulatory element (tandem TCTCGCGAGA motif) of human TATA-less promoters. A combination of bioinformatic and experimental methodology suggests that the element can be critical for expression of genes involved in enhanced protein synthesis and the G1/S transition in the cell cycle. The motif was identified in a substantial fraction of promoters of cell cycle genes, like cyclins (CCNC, CCNG1), as well as transcription regulators (TAF7, TAF13, KLF7, NCOA2), chromatin structure modulators (HDAC2, TAF6L), translation initiation factors (EIF5, EIF2S1, EIF4G2, EIF3S8, EIF4) and previously reported 18 ribosomal protein genes. Since the motif can define a subset of promoters with a distinct mechanism of activation involved in regulation of expression of about 5% of human genes, further investigation of this regulatory element is an emerging task.
Źródło:
Acta Biochimica Polonica; 2007, 54, 1; 89-98
0001-527X
Pojawia się w:
Acta Biochimica Polonica
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Mitochondria-associated satellite I RNA binds to hnRNP K protein
Autorzy:
Klimek-Tomczak, Karolina
Mikula, Michał
Dzwonek, Artur
Paziewska, Agnieszka
Wyrwicz, Lucjan
Hennig, Ewa
Ostrowski, Jerzy
Powiązania:
https://bibliotekanauki.pl/articles/1041284.pdf
Data publikacji:
2006
Wydawca:
Polskie Towarzystwo Biochemiczne
Tematy:
hnRNP K protein
SAGE
mitochondria
satellite I RNA
Opis:
hnRNP K protein, which localizes to the nucleus, cytoplasm and mitochondria, is involved in the various cellular processes that compose gene expression. We used a SAGE-based assay to profile RNAs associated with hnRNP K protein in rat mitochondria. RNA was isolated from mitoplasts obtained from highly purified and RNase-treated mitochondria. Total RNA and RNA associated with hnRNP K protein were then used as input material for generating two SAGE libraries. Mitochondrion-derived tags isolated from the total mitoplast RNA library represented 86.3%, while those isolated from the library constructed from RNA associated with hnRNP K protein represented only 28.2% of selected tags. Thus, an unexpected number of nuclear-encoded RNAs were purified from mitochondria. Many of these transcripts were co-purified with hnRNP K protein, and high levels of nuclear-encoded RNAs co-immunoprecipitating with K protein corresponded to elevated hnRNP K protein levels of the organelle. The most abundant RNAs that were co-purified with hnRNP K protein represented transcripts originating from satellite I DNA. While satellite I RNA levels were higher in the nucleus and cytoplasm than in mitochondria, the most abundant binding of satellite I transcripts to hnRNP K protein was found in mitochondria. The role of satellite I RNA in mitochondria remains to be elucidated.
Źródło:
Acta Biochimica Polonica; 2006, 53, 1; 169-178
0001-527X
Pojawia się w:
Acta Biochimica Polonica
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Microarray Inspector: tissue cross contamination detection tool for microarray data
Autorzy:
Stępniak, Piotr
Maycock, Matthew
Wojdan, Konrad
Markowska, Monika
Perun, Serhiy
Srivastava, Aashish
Wyrwicz, Lucjan
Świrski, Konrad
Powiązania:
https://bibliotekanauki.pl/articles/1039460.pdf
Data publikacji:
2013
Wydawca:
Polskie Towarzystwo Biochemiczne
Tematy:
microarray
transcription profiling
contamination analysis
adipose tissue
cancer
data quality
Opis:
Microarray technology changed the landscape of contemporary life sciences by providing vast amounts of expression data. Researchers are building up repositories of experiment results with various conditions and samples which serve the scientific community as a precious resource. Ensuring that the sample is of high quality is of utmost importance to this effort. The task is complicated by the fact that in many cases datasets lack information concerning pre-experimental quality assessment. Transcription profiling of tissue samples may be invalidated by an error caused by heterogeneity of the material. The risk of tissue cross contamination is especially high in oncological studies, where it is often difficult to extract the sample. Therefore, there is a need of developing a method detecting tissue contamination in a post-experimental phase. We propose Microarray Inspector: customizable, user-friendly software that enables easy detection of samples containing mixed tissue types. The advantage of the tool is that it uses raw expression data files and analyses each array independently. In addition, the system allows the user to adjust the criteria of the analysis to conform to individual needs and research requirements. The final output of the program contains comfortable to read reports about tissue contamination assessment with detailed information about the test parameters and results. Microarray Inspector provides a list of contaminant biomarkers needed in the analysis of adipose tissue contamination. Using real data (datasets from public repositories) and our tool, we confirmed high specificity of the software in detecting contamination. The results indicated the presence of adipose tissue admixture in a range from approximately 4% to 13% in several tested surgical samples.
Źródło:
Acta Biochimica Polonica; 2013, 60, 4; 647-655
0001-527X
Pojawia się w:
Acta Biochimica Polonica
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Zasady stosowania dootrzewnowej chemioterapii w hipertermii (HIPEC) w leczeniu nowotworów złośliwych powierzchni otrzewnej w połączeniu z zabiegami cytoredukcyjnymi: zalecenia krajowe
Polish clinical practice guideline on hyperthermic intraperitoneal chemotherapy (HIPEC) with cytoreductive surgery in peritoneal malignancy treatment
Autorzy:
Rutkowski, Piotr
Śpiewankiewicz, Beata
Herman, Krzysztof
Jastrzębski, Tomasz
Kładny, Józef
Kojs, Zbigniew
Krzakowski, Maciej
Polkowski, Wojciech
Wyrwicz, Lucjan
Wysocki, Piotr
Zdzienicki, Marcin
Zegarski, Wojciech
Powiązania:
https://bibliotekanauki.pl/articles/1031598.pdf
Data publikacji:
2014
Wydawca:
Medical Communications
Tematy:
dootrzewnowa chemioterapia perfuzyjna w warunkach hipertermii (hipec)
rekomendacje
wskazania
przeciwwskazania
hyperthermic intraperitoneal perfusion chemotherapy (hipec)
recommendations
indications
contraindications
Opis:
The management of peritoneal surface malignancy is a significant clinical problem in oncology. It was demonstrated that the combination of complete cytoreductive surgery with hyperthermic intraperitoneal chemotherapy (HIPEC) may lead to long-term control of the disease or improved survival in selected patients. The aim of this paper was to present the optimal indications and technical guidelines for performing HIPEC in Poland. The application of this method requires experience of a multidisciplinary team of physicians (gynecologic oncologist, surgeon and clinical oncologist), availability of diagnostic and therapeutic resources (intensive care unit) as well as a dedicated perfusion system. A crucial aspect for obtaining optimal treatment outcomes is the selection of patients. Such a selection takes place both at the beginning of treatment and intraoperatively. The initial selection of patients qualified for HIPEC includes ruling out extraperitoneal spread of cancer and metastases to the liver (single resectable liver metastases in patients with colorectal carcinoma are not contraindications) and lungs. According to current international guidelines, the HIPEC procedure is a standard treatment in patients with ovarian carcinoma that metastasizes to the peritoneum, in colorectal cancer, when PCI <20 and in patients with peritoneal mesothelioma or pseudomyxoma peritonei as well as in patients with gastric cancer.
Leczenie nowotworów złośliwych powierzchni otrzewnej stanowi istotny problem w onkologii. Wykazano, że skojarzenie maksymalnej cytoredukcji chirurgicznej z dootrzewnową chemioterapią w hipertermii (hyperthermic intraperitoneal chemotherapy, HIPEC) może prowadzić do długotrwałej kontroli choroby lub wydłużenia przeżyć u odpowiednio wybranych chorych. Celem niniejszego opracowania są zalecenia dla optymalnego zakresu wskazań i sposobu prowadzenia HIPEC w Polsce. Zastosowanie tej metody wymaga doświadczenia wielospecjalistycznego zespołu lekarskiego (ginekolog onkolog, chirurg, onkolog kliniczny), a także zaplecza diagnostycznego i leczniczego (oddziału intensywnej opieki medycznej) oraz dedykowanego systemu do perfuzji. Kluczową kwestią dla uzyskania optymalnego wyniku leczenia jest odpowiedni dobór chorych. Dobór ten następuje zarówno na etapie planowania leczenia, jak i śródoperacyjnie. Wstępna selekcja pacjentów kwalifikowanych do leczenia z wykorzystaniem HIPEC obejmuje wykluczenie pozaotrzewnowych przerzutów nowotworu oraz przerzutów do wątroby (pojedyncze resekcyjne przerzuty do wątroby u chorych na raka jelita grubego nie są przeciwwskazaniem) i płuc. Zgodnie z istniejącymi zaleceniami międzynarodowymi procedura HIPEC jest standardowo stosowana u chorych z przerzutami do otrzewnej raka jajnika, raka jelita grubego, gdy PCI <20 oraz u chorych na międzybłoniaka lub śluzaka rzekomego otrzewnej i wybranych chorych na raka żołądka.
Źródło:
Current Gynecologic Oncology; 2014, 12, 2; 86-97
2451-0750
Pojawia się w:
Current Gynecologic Oncology
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Gene expression alterations induced by low molecular weight heparin during bowel anastomosis healing in rats
Autorzy:
Krześniak, Natalia
Paziewska, Agnieszka
Rubel, Tymon
Skrzypczak, Magdalena
Mikula, Michał
Dzwonek, Artur
Goryca, Krzysztof
Wyrwicz, Lucjan
Jarosz, Dorota
Laubitz, Daniel
Woszczyński, Marek
Bielecki, Krzysztof
Ostrowski, Jerzy
Powiązania:
https://bibliotekanauki.pl/articles/1039955.pdf
Data publikacji:
2011
Wydawca:
Polskie Towarzystwo Biochemiczne
Tematy:
heparins
gene expression
wound healing
microarrays
Opis:
Colon anastomosis is therapeutically challenging because multiple, usually undetectable factors influence a spectrum of repair mechanisms. We hypothesized that low molecular weight heparins, routinely administered perioperatively, may differentially affect gene expression related to colon healing. Twenty pairs of untreated and enoxaparin-treated rats underwent left-side hemicolectomy with a primary end-to-end anastomosis. Normal colon and anastomotic bowel segments were resected on day 0 and on days 1, 3, 5, and 7 after surgery, respectively. Serial anastomosis transverse cross-sections were evaluated microscopically and by microarray (Rat Genome 230 2.0, Affymetrix). Differentially expressed probe sets were annotated with Gene Ontology. We also examined the influence of enoxaparin on fibroblast proliferation and viability in vitro. Among the 5476 probe sets, we identified differential expression at each healing time point, yielding 79 subcategories. Most indicated genes were involved in wound healing, including multicellular organismal development, locomotory behavior, immune response, cell adhesion, inflammatory response, cell-cell signaling, blood vessel development, and tissue remodeling. Although we found no intensity differences in histological features of healing between enoxaparin-treated and control rats, treatment did induce significant expression changes during early healing. Of these changes, 83 probe sets exhibited at least twofold changes and represented different functional annotations, including inflammatory response, regulation of transcription, regulation of apoptosis, and angiogenesis. Fibroblast culture confirmed an anti-viability effect of enoxaparin. Enoxaparin affects colon wound-related gene expression profiles, but further studies will resolve whether heparin treatment is a risk factor after intestinal surgery, at least in some patients.
Źródło:
Acta Biochimica Polonica; 2011, 58, 1; 79-87
0001-527X
Pojawia się w:
Acta Biochimica Polonica
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Guidelines of the Association of Polish Surgeons and the Polish Society of Surgical Oncology on the accreditation of healthcare centers providing cytoreductive surgery and HIPEC for primary and secondary peritoneal cancers
Autorzy:
Jastrzębski, Tomasz
Richter, Piotr
Zegarski, Wojciech
Dziki, Adam
Wallner, Grzegorz
Jeziorski, Arkadiusz
Wysocki, Wojciech
Jackowski, Marek
Bębenek, Marek
Olesiński, Tomasz
Polkowski, Wojciech
Wyrwicz, Lucjan
Wydra, Dariusz
Biernat, Wojciech
Czauderna, Piotr
Studniarek, Michał
Polec, Tomasz
Owczuk, Radosław
Sommer, Anna
Szewczyk, Krzysztof
Mielko, Jerzy
Powiązania:
https://bibliotekanauki.pl/articles/1391728.pdf
Data publikacji:
2020
Wydawca:
Index Copernicus International
Tematy:
accreditation
cytoreduction
HIPEC
peritoneal cancer
quality of treatment
Opis:
Surgical interventions in patients with peritoneal metastases combined with hyperthermic intraperitoneal chemotherapy (HIPEC) and systemic treatment are becoming more common and, when applied to selected patient groups, they reach 5-year survival rates of 32–52%. Good clinical outcomes require experienced and well-equipped healthcare centers, experienced surgical team and adequate patient qualification process. As a result of the discussion on the need for evaluation of quality of care and treatment outcomes and at the request of the Peritoneal Cancer Section of the Polish Society of Surgical Oncology, accreditation standards have been developed and the Accreditation Committee has been established for healthcare centers providing cytoreductive surgery and HIPEC for the management of primary and secondary peritoneal cancers.
Źródło:
Polish Journal of Surgery; 2020, 92, 4; 47-53
0032-373X
2299-2847
Pojawia się w:
Polish Journal of Surgery
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Wytyczne Towarzystwa Chirurgów Polskich i Polskiego Towarzystwa Chirurgii Onkologicznej w zakresie akredytacji dla ośrodków wykonujących zabiegi cytoredukcyjne oraz procedury HIPEC w leczeniu pierwotnych i wtórnych nowotworów otrzewnej
Autorzy:
Jastrzębski, Tomasz
Richter, Piotr
Zegarski, Wojciech
Dziki, Adam
Wallner, Grzegorz
Jeziorski, Arkadiusz
Wysocki, Wojciech
Jackowski, Marek
Bębenek, Marek
Olesiński, Tomasz
Polkowski, Wojciech
Wyrwicz, Lucjan
Wydra, Dariusz
Biernat, Wojciech
Czauderna, Piotr
Studniarek, Michał
Polec, Tomasz
Owczuk, Radosław
Sommer, Anna
Szewczyk, Krzysztof
Mielko, Jerzy
Powiązania:
https://bibliotekanauki.pl/articles/1391757.pdf
Data publikacji:
2020
Wydawca:
Index Copernicus International
Tematy:
akredytacja
cytoredukcja
HIPEC
jakość leczenia
nowotwory otrzewnej
Opis:
Chirurgiczne leczenie chorych z przerzutami do otrzewnej, w skojarzeniu z dootrzewnową chemioterapią perfuzyjną w hipertermii (HIPEC) oraz terapiami systemowymi, jest coraz powszechniej stosowane i przy właściwej kwalifikacji chorych pozwala uzyskać 5-letnie przeżycia na poziomie 32–52%. Niezbędnymi warunkami dobrych wyników takiego leczenia są: wysokie doświadczenie i infrastruktura ośrodka, doświadczenie zespołu operacyjnego oraz właściwa kwalifikacja do zabiegu. W następstwie dyskusji związanej z potrzebą oceny jakości i wyników leczenia, na wniosek Sekcji Nowotworów Otrzewnej Polskiego Towarzystwa Chirurgii Onkologicznej, opracowano warunki akredytacji i powołano Komisję Akredytacyjną dla ośrodków wykonujących zabiegi cytoredukcyjne oraz HIPEC w leczeniu pierwotnych i wtórnych nowotworów otrzewnej.
Źródło:
Polish Journal of Surgery; 2020, 92, 4; 47-53
0032-373X
2299-2847
Pojawia się w:
Polish Journal of Surgery
Dostawca treści:
Biblioteka Nauki
Artykuł
    Wyświetlanie 1-12 z 12

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