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  1. Article ; Online: Long non-coding RNA SOX2-OT enhances cancer biological traits via sponging to tumor suppressor miR-122-3p and miR-194-5p in non-small cell lung carcinoma.

    Dodangeh, Fatemeh / Sadeghi, Zahra / Maleki, Parichehr / Raheb, Jamshid

    Scientific reports

    2023  Volume 13, Issue 1, Page(s) 12371

    Abstract: The oncogenic role of long non-coding RNA SOX2 overlapping transcript (SOX2-OT) has been demonstrated as a miRNA decay system that sponges tumor suppressor miRNA, including miR-122-3p in glioblastoma and miR-194-5p in glioblastoma, gastric, and ... ...

    Abstract The oncogenic role of long non-coding RNA SOX2 overlapping transcript (SOX2-OT) has been demonstrated as a miRNA decay system that sponges tumor suppressor miRNA, including miR-122-3p in glioblastoma and miR-194-5p in glioblastoma, gastric, and colorectal cancers. However, the molecular function of SOX2-OT remains unknown in most cancers, including lung cancer. In the current study, we aimed to evaluate the downstream regulatory function of SOX2-OT in A549 and Calu-3 lung cancer cell lines. We knocked down SOX2-OT expression using an RNA interference system, which significantly decreased expression in A549 and Calu-3 cells. The expression of down-regulating miRNAs (miR-122-3p and miR-194-5p) was evaluated, revealing increased expression of miR-122-3p and miR-194-5p. Additionally, the expression of miRNAs downstream mRNA, including FOXO1 (Forkhead Box O1) and FOXA1 (Forkhead Box O1), changed. Recently, critical roles of FOXO1 and FOXA1 proteins in pathways involved in proliferation, metastasis and apoptosis have been demonstrated. Downstream changes in cellular traits were assessed using MTT, flow cytometry, metastasis and apoptosis assays. These assessments confirmed that the biological behaviors of lung cancer cells were influenced after SOX2-OT knockdown. In summary, the present study highlights the oncogenic role of SOX2-OT through the regulation of miR-122-3p/FOXO1 and miR-194-5p/FOXA1 pathways.
    MeSH term(s) Humans ; Carcinoma, Non-Small-Cell Lung/genetics ; Carcinoma, Non-Small-Cell Lung/pathology ; RNA, Long Noncoding/genetics ; RNA, Long Noncoding/metabolism ; Glioblastoma/genetics ; Gene Expression Regulation, Neoplastic ; MicroRNAs/genetics ; MicroRNAs/metabolism ; Lung Neoplasms/genetics ; Lung Neoplasms/pathology ; Cell Line, Tumor ; Cell Proliferation/genetics ; SOXB1 Transcription Factors/genetics ; SOXB1 Transcription Factors/metabolism
    Chemical Substances RNA, Long Noncoding ; MicroRNAs ; SOX2 protein, human ; SOXB1 Transcription Factors ; MIRN122 microRNA, human ; MIRN194 microRNA, human
    Language English
    Publishing date 2023-07-31
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2615211-3
    ISSN 2045-2322 ; 2045-2322
    ISSN (online) 2045-2322
    ISSN 2045-2322
    DOI 10.1038/s41598-023-39000-0
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article: SOX2 Overlapping Transcript (

    Sadeghi, Zahra / Dodangeh, Fatemeh / Raheb, Jamshid

    Iranian journal of biotechnology

    2023  Volume 21, Issue 3, Page(s) e3530

    Abstract: Background: Lung cancer is one of the most common types of cancer and a leading cause of cancer-related deaths worldwide. Therefore, it is useful to know the biomarkers involved in the malignancy of lung cancer.: Objectives: This study aimed to show ... ...

    Abstract Background: Lung cancer is one of the most common types of cancer and a leading cause of cancer-related deaths worldwide. Therefore, it is useful to know the biomarkers involved in the malignancy of lung cancer.
    Objectives: This study aimed to show that
    Materials and methods: A549 cells transfected with siRNA-
    Results: After using siRNA-
    Conclusions: According to the results of the present study, an increase in
    Language English
    Publishing date 2023-07-01
    Publishing country Iran
    Document type Journal Article
    ZDB-ID 2223669-7
    ISSN 2322-2921 ; 1728-3043
    ISSN (online) 2322-2921
    ISSN 1728-3043
    DOI 10.30498/ijb.2023.364919.3530
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: Gap-com: general model selection criterion for sparse undirected gene networks with nontrivial community structure.

    Kuismin, Markku / Dodangeh, Fatemeh / Sillanpää, Mikko J

    G3 (Bethesda, Md.)

    2022  Volume 12, Issue 2

    Abstract: We introduce a new model selection criterion for sparse complex gene network modeling where gene co-expression relationships are estimated from data. This is a novel formulation of the gap statistic and it can be used for the optimal choice of a ... ...

    Abstract We introduce a new model selection criterion for sparse complex gene network modeling where gene co-expression relationships are estimated from data. This is a novel formulation of the gap statistic and it can be used for the optimal choice of a regularization parameter in graphical models. Our criterion favors gene network structure which differs from a trivial gene interaction structure obtained totally at random. We call the criterion the gap-com statistic (gap community statistic). The idea of the gap-com statistic is to examine the difference between the observed and the expected counts of communities (clusters) where the expected counts are evaluated using either data permutations or reference graph (the Erdős-Rényi graph) resampling. The latter represents a trivial gene network structure determined by chance. We put emphasis on complex network inference because the structure of gene networks is usually nontrivial. For example, some of the genes can be clustered together or some genes can be hub genes. We evaluate the performance of the gap-com statistic in graphical model selection and compare its performance to some existing methods using simulated and real biological data examples.
    MeSH term(s) Gene Regulatory Networks
    Language English
    Publishing date 2022-01-28
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2629978-1
    ISSN 2160-1836 ; 2160-1836
    ISSN (online) 2160-1836
    ISSN 2160-1836
    DOI 10.1093/g3journal/jkab437
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: Design of a new light curable starch-based hydrogel drug delivery system to improve the release rate of quercetin as a poorly water-soluble drug.

    Moghadam, Maryam / Seyed Dorraji, Mir Saeed / Dodangeh, Fatemeh / Ashjari, Hamid Reza / Mousavi, Seyedeh Neda / Rasoulifard, Mohammad Hossein

    European journal of pharmaceutical sciences : official journal of the European Federation for Pharmaceutical Sciences

    2022  Volume 174, Page(s) 106191

    Abstract: In spite of quercetin advantages, its utilization as a cancer drug is confined due to its very low water solubility and bioavailability. Accordingly, we prepared a biodegradable starch-based hydrogel, using a new technique to control and improve ... ...

    Abstract In spite of quercetin advantages, its utilization as a cancer drug is confined due to its very low water solubility and bioavailability. Accordingly, we prepared a biodegradable starch-based hydrogel, using a new technique to control and improve quercetin release and bioavailability. For this purpose, the molecular structure of starch was modified by polyethylene glycol/acrylate and Fe
    MeSH term(s) Drug Carriers/chemistry ; Drug Delivery Systems/methods ; Drug Liberation ; Hydrogels/chemistry ; Quercetin/chemistry ; Spectroscopy, Fourier Transform Infrared ; Starch/chemistry ; Water
    Chemical Substances Drug Carriers ; Hydrogels ; Water (059QF0KO0R) ; Starch (9005-25-8) ; Quercetin (9IKM0I5T1E)
    Language English
    Publishing date 2022-04-14
    Publishing country Netherlands
    Document type Journal Article
    ZDB-ID 1154366-8
    ISSN 1879-0720 ; 0928-0987
    ISSN (online) 1879-0720
    ISSN 0928-0987
    DOI 10.1016/j.ejps.2022.106191
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    In stock of ZB MED Cologne/Königswinter

    Zs.A 3705: Show issues Location:
    Je nach Verfügbarkeit (siehe Angabe bei Bestand)
    bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular
    Jg. 1995 - 2021: Lesesall (2.OG)
    ab Jg. 2022: Lesesaal (EG)

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  5. Article ; Online: Worldwide population genetic analysis and natural selection in the Plasmodium vivax Generative Cell Specific 1 (PvGCS1) as a transmission-blocking vaccine candidate.

    Mehrizi, Akram Abouie / Dodangeh, Fatemeh / Zakeri, Sedigheh / Djadid, Navid Dinparast

    Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases

    2016  Volume 43, Page(s) 50–57

    Abstract: GENERATIVE CELL SPECIFIC 1 (GCS1) is one of the Transmission Blocking Vaccine (TBV) candidate antigens, which is expressed on the surface of male gametocytes and gametes of Plasmodium species. Since antigenic diversity could inhibit the successful ... ...

    Abstract GENERATIVE CELL SPECIFIC 1 (GCS1) is one of the Transmission Blocking Vaccine (TBV) candidate antigens, which is expressed on the surface of male gametocytes and gametes of Plasmodium species. Since antigenic diversity could inhibit the successful development of a malaria vaccine, it is crucial to determine the diversity of gcs1 gene in global malaria-endemic areas. Therefore, gene diversity and selection of gcs1 gene were analyzed in Iranian Plasmodium vivax isolates (n=52) and compared with the corresponding sequences from worldwide clinical P. vivax isolates available in PlasmoDB database. Totally 12 SNPs were detected in the pvgcs1 sequences as compared to Sal-1 sequence. Five out of 12 SNPs including three synonymous (T797C, G1559A, and G1667T) and two amino acid replacements (Y133S and Q634P) were detected in Iranian pvgcs1 sequences. According to four amino acid replacements (Y133S, N575S, Q634P and D637N) observed in all world PvGCS1 sequences, totally 5 PvGCS1 haplotypes were detected in the world, that three of them observed in Iranian isolates including the PvGCS-A (133S/634Q, 92.3%), PvGCS-B (133Y/634Q, 5.8%), and PvGCS-C (133S/634P, 1.9%). The overall nucleotide diversity (π) for all 52 sequences of Iranian pvgcs1 gene was 0.00018±0.00006, and the value of dN-dS (-0.00031) were negative, however, it was not statistically significant. In comparison with global isolates, Iranian and PNG pvgcs1 sequences had the lowest nucleotide and haplotype diversity, while the highest nucleotide and haplotype diversity was observed in China population. Moreover, epitope prediction in this antigen showed that all B-cell epitopes were located in conserved regions. However, Q634P (in one Iranian isolate) and D637N (observed in Thailand, China, Vietnam and North Korea) mutations are involved in predicted IURs. The obtained results in this study could be used in development of PvGCS1 based malaria vaccine.
    MeSH term(s) Adolescent ; Adult ; Aged ; Antigens, Protozoan ; Child ; Female ; Genetic Variation ; Genetics, Population ; Humans ; Iran ; Malaria Vaccines ; Malaria, Vivax/prevention & control ; Male ; Middle Aged ; Plasmodium vivax/genetics ; Polymorphism, Single Nucleotide ; Selection, Genetic ; Young Adult
    Chemical Substances Antigens, Protozoan ; Malaria Vaccines
    Language English
    Publishing date 2016
    Publishing country Netherlands
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2037068-4
    ISSN 1567-7257 ; 1567-1348
    ISSN (online) 1567-7257
    ISSN 1567-1348
    DOI 10.1016/j.meegid.2016.05.015
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    In stock of ZB MED Cologne/Königswinter

    Zs.A 5645: Show issues Location:
    Je nach Verfügbarkeit (siehe Angabe bei Bestand)
    bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular
    Jg. 1995 - 2021: Lesesall (2.OG)
    ab Jg. 2022: Lesesaal (EG)

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  6. Article ; Online: Altered methylation and expression patterns of genes regulating placental nitric oxide pathway in patients with severe preeclampsia.

    Azizi, Faezeh / Omrani, Mir Davood / Amiri, Vahid / Mirfakhraie, Reza / Dodangeh, Fatemeh / Shahmirzadi, Sedigheh Asadi / Gargari, Soraya Saleh

    Human antibodies

    2018  Volume 27, Issue 2, Page(s) 117–124

    Abstract: Pre-eclampsia is a common pregnancy disorder syndrome whose molecular mechanism is not clear. Nitric oxide (NO) is a key regulator of placentation. Reduction of NO has previously been associated with endothelial dysfunction in pre-eclamptic women. ... ...

    Abstract Pre-eclampsia is a common pregnancy disorder syndrome whose molecular mechanism is not clear. Nitric oxide (NO) is a key regulator of placentation. Reduction of NO has previously been associated with endothelial dysfunction in pre-eclamptic women. Therefore, we measured expression and methylation of some placental genes that were involved in NO pathway like named ARG II, PRMT1 and DDAH2 in pre-eclampsia and normal pregnancies in order to determine whether impairment of expression of these genes in the pre-eclamptic placenta could contribute to development of disease. ARG II, PRMT1 expressions as well as DDAH2 expression and methylation, in placentas collected from 59 patients with preeclampsia and 40 normotensive pregnancies were measured using real-time PCR and methylation specific PCR, respectively. The relationship among ARG II, PRMT1 and DDAH2 expressions was analyzed statistically. ARG II expression was increased, PRMT1 expression was not significantly changed. DDAH2 expression was decreased and qualitative methylation patterns were 32/59 and 21/40 in placentas from patients with pre-eclampsia compared with control group, respectively. The alterations in ARG II and DDAH2 expressions in pre-eclampsia patients maybe correlated with decreased eNOS expression. These findings indicate that ARG II and DDAH2 may be involved in pre-eclampsia pathogenesis and could be potential therapeutic targets for this disease.
    MeSH term(s) Adult ; Female ; Humans ; Methylation ; Nitric Oxide/genetics ; Nitric Oxide Synthase Type III/genetics ; Placenta/pathology ; Placentation/genetics ; Pre-Eclampsia/genetics ; Pre-Eclampsia/pathology ; Pregnancy ; Pregnancy Complications/genetics ; Pregnancy Complications/pathology ; Young Adult
    Chemical Substances Nitric Oxide (31C4KY9ESH) ; Nitric Oxide Synthase Type III (EC 1.14.13.39)
    Language English
    Publishing date 2018-12-26
    Publishing country Netherlands
    Document type Journal Article
    ZDB-ID 1383468-x
    ISSN 1875-869X ; 1093-2607
    ISSN (online) 1875-869X
    ISSN 1093-2607
    DOI 10.3233/HAB-180356
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    In stock of ZB MED Cologne/Königswinter

    Zs.A 2936: Show issues Location:
    Je nach Verfügbarkeit (siehe Angabe bei Bestand)
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    Jg. 1995 - 2021: Lesesall (2.OG)
    ab Jg. 2022: Lesesaal (EG)

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