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  1. Article ; Online: MIRA-seq for DNA methylation analysis of CpG islands.

    Jung, Marc / Kadam, Swati / Xiong, Wenying / Rauch, Tibor A / Jin, Seung-Gi / Pfeifer, Gerd P

    Epigenomics

    2015  Volume 7, Issue 5, Page(s) 695–706

    Abstract: ... using methyl-CpG-binding proteins. One of these methods, the methylated-CpG island recovery assay (MIRA ... a detailed description of MIRA and combine it with next generation sequencing platforms (MIRA-seq ... Results: We assessed the performance of MIRA-seq and compared the data with whole genome bisulfite ...

    Abstract Aim: To develop a reliable method for whole genome analysis of DNA methylation.
    Materials & methods: Genome-scale analysis of DNA methylation includes affinity-based approaches such as enrichment using methyl-CpG-binding proteins. One of these methods, the methylated-CpG island recovery assay (MIRA), is based on the high affinity of the MBD2b-MBD3L1 complex for CpG-methylated DNA. Here we provide a detailed description of MIRA and combine it with next generation sequencing platforms (MIRA-seq).
    Results: We assessed the performance of MIRA-seq and compared the data with whole genome bisulfite sequencing.
    Conclusion: MIRA-seq is a reliable, genome-scale DNA methylation analysis platform for scoring DNA methylation differences at CpG-rich genomic regions. The method is not limited by primer or probe design and is cost effective.
    MeSH term(s) Cell Line ; CpG Islands/genetics ; DNA Methylation ; Epigenomics/methods ; Fibroblasts/cytology ; Fibroblasts/metabolism ; Genome, Human/genetics ; High-Throughput Nucleotide Sequencing/methods ; Humans ; Models, Genetic ; Reproducibility of Results
    Language English
    Publishing date 2015-08
    Publishing country England
    Document type Journal Article ; Research Support, N.I.H., Extramural
    ISSN 1750-192X
    ISSN (online) 1750-192X
    DOI 10.2217/epi.15.33
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Macrophage-based therapeutic approaches for cardiovascular diseases.

    Sansonetti, Marida / Al Soodi, Bashar / Thum, Thomas / Jung, Mira

    Basic research in cardiology

    2024  Volume 119, Issue 1, Page(s) 1–33

    Abstract: Despite the advances in treatment options, cardiovascular disease (CVDs) remains the leading cause of death over the world. Chronic inflammatory response and irreversible fibrosis are the main underlying pathophysiological causes of progression of CVDs. ... ...

    Abstract Despite the advances in treatment options, cardiovascular disease (CVDs) remains the leading cause of death over the world. Chronic inflammatory response and irreversible fibrosis are the main underlying pathophysiological causes of progression of CVDs. In recent decades, cardiac macrophages have been recognized as main regulatory players in the development of these complex pathophysiological conditions. Numerous approaches aimed at macrophages have been devised, leading to novel prospects for therapeutic interventions. Our review covers the advancements in macrophage-centric treatment plans for various pathologic conditions and examines the potential consequences and obstacles of employing macrophage-targeted techniques in cardiac diseases.
    MeSH term(s) Humans ; Cardiovascular Diseases ; Myocardial Infarction/pathology ; Macrophages/pathology ; Heart ; Inflammation
    Language English
    Publishing date 2024-01-03
    Publishing country Germany
    Document type Journal Article ; Review
    ZDB-ID 189755-x
    ISSN 1435-1803 ; 0300-8428 ; 0175-9418
    ISSN (online) 1435-1803
    ISSN 0300-8428 ; 0175-9418
    DOI 10.1007/s00395-023-01027-9
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    In stock of ZB MED Cologne/Königswinter

    Ui IV Zs.30: Show issues Location:
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    bis Jg. 2021: Bestellungen von Artikeln über das Online-Bestellformular
    ab Jg. 2022: Lesesaal (EG)

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  3. Article ; Online: Transcriptomic Changes Induced by Low and High Concentrations of Heavy Metal Exposure in

    Seo, Do Yeon / Park, Mira / Park, Jeong-In / Kim, Jang K / Yum, Seungshic / Kim, Youn-Jung

    Toxics

    2023  Volume 11, Issue 7

    Abstract: The impact of sewage and wastewater pollution on marine ecosystems is of increasing concern due to the rapid accumulation of heavy metals in seaweeds inhabiting near-shore environments. Seaweeds can be severely damaged by heavy metals throughout their ... ...

    Abstract The impact of sewage and wastewater pollution on marine ecosystems is of increasing concern due to the rapid accumulation of heavy metals in seaweeds inhabiting near-shore environments. Seaweeds can be severely damaged by heavy metals throughout their life cycles. Although the physiological and ecological effects of heavy metal exposure have been studied, there is limited research on their molecular responses.
    Language English
    Publishing date 2023-06-22
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2733883-6
    ISSN 2305-6304 ; 2305-6304
    ISSN (online) 2305-6304
    ISSN 2305-6304
    DOI 10.3390/toxics11070549
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: Longitudinal changes in optic disc cupping from the baseline in chiasmal lesion optic neuropathy and glaucoma.

    Lee, Eun Jung / Han, Jong Chul / Kang, Mira / Kong, Doo-Sik / Hong, Sang Duk / Park, Kyung-Ah / Kee, Changwon

    Scientific reports

    2024  Volume 14, Issue 1, Page(s) 8889

    Abstract: We aimed to investigate the changes in cupping in chiasmal lesion optic neuropathy (chON) compared to baseline optic disc and glaucoma. We used a novel study design to enroll patients who had fundus photographs incidentally taken during routine health ... ...

    Abstract We aimed to investigate the changes in cupping in chiasmal lesion optic neuropathy (chON) compared to baseline optic disc and glaucoma. We used a novel study design to enroll patients who had fundus photographs incidentally taken during routine health check-ups prior to the onset of optic neuropathy. In 31 eyes (21 patients) with chON and 33 eyes (30 patients) with glaucoma, we investigated the change in cup-to-disc (C/D) area from the baseline to overt cupping using flicker analysis. Compared to the baseline, 23 eyes (74.2%) had increased cup size and 3 (9.7%) had vascular configuration changes in the chONgroup; in contrast, all glaucoma eyes exhibited changes in cup size and vascular configuration. The increase in C/D area ratio was significantly smaller in chON (0.04 ± 0.04) compared to glaucoma (0.10 ± 0.04, P < 0.001); the minimum residual neuroretinal rim width showed a more pronounced difference (29.7 ± 8.2% vs 7.1 ± 3.9%, P < 0.001). The changes distributed predominantly towards the nasal direction in chON, contrasting the changes to the arcuate fibers in glaucoma. In conclusion, our results provide the first longitudinal evidence of true pathological cupping in chONcompared to photographically disease-free baseline. The marked difference in the residual minimum rim width reaffirms the importance of rim obliteration in the differential diagnosis between the two diseases.
    MeSH term(s) Humans ; Optic Disk/pathology ; Glaucoma/pathology ; Optic Nerve Diseases/pathology ; Optic Chiasm/pathology ; Fundus Oculi ; Intraocular Pressure
    Language English
    Publishing date 2024-04-17
    Publishing country England
    Document type Journal Article
    ZDB-ID 2615211-3
    ISSN 2045-2322 ; 2045-2322
    ISSN (online) 2045-2322
    ISSN 2045-2322
    DOI 10.1038/s41598-024-59419-3
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: Prosocial spending encourages happiness: A replication of the only experiment reported in Dunn, Aknin, and Norton (2008).

    Kim, Garam / Adams, Ingrid / Diaw, Malik / Celly, Mira / Nelson, Leif D / Jung, Minah H

    PloS one

    2022  Volume 17, Issue 9, Page(s) e0272434

    Abstract: Spending money on one's self, whether to solve a problem, fulfill a need, or increase enjoyment, often heightens one's sense of happiness. It is therefore both surprising and important that people can be even happier after spending money on someone else. ...

    Abstract Spending money on one's self, whether to solve a problem, fulfill a need, or increase enjoyment, often heightens one's sense of happiness. It is therefore both surprising and important that people can be even happier after spending money on someone else. We conducted a close replication of a key experiment from Dunn, Aknin, and Norton (2008) to verify and expand upon their findings. Participants were given money and randomly assigned to either spend it on themselves or on someone else. Although the original study (N = 46) found that the latter group was happier, when we used the same analysis in our replication (N = 133), we did not observe a significant difference. However, we report an additional analysis, focused on a more direct measure of happiness, that does show a significant effect in the direction of the original. Follow-up analyses shed new insights into people's predictions about their own and others' happiness and their actual happiness when spending money for themselves or others.
    MeSH term(s) Emotions ; Happiness ; Humans ; Pleasure
    Language English
    Publishing date 2022-09-07
    Publishing country United States
    Document type Journal Article ; Randomized Controlled Trial ; Research Support, Non-U.S. Gov't
    ZDB-ID 2267670-3
    ISSN 1932-6203 ; 1932-6203
    ISSN (online) 1932-6203
    ISSN 1932-6203
    DOI 10.1371/journal.pone.0272434
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article ; Online: Oxidative Stress and DNA Damage in

    Shin, Yun Kyung / Seo, Do Yeon / Eom, Hye-Jin / Park, Mira / Lee, Minji / Choi, Young-Eun / Han, Young-Seok / Rhee, Jae-Sung / Kim, Youn-Jung

    Toxins

    2023  Volume 15, Issue 10

    Abstract: ... Karenia ... ...

    Abstract Karenia mikimotoi
    MeSH term(s) Animals ; Dinoflagellida/genetics ; Reactive Oxygen Species ; Harmful Algal Bloom ; Perciformes ; Oxidative Stress ; DNA Damage
    Chemical Substances Reactive Oxygen Species
    Language English
    Publishing date 2023-10-19
    Publishing country Switzerland
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2518395-3
    ISSN 2072-6651 ; 2072-6651
    ISSN (online) 2072-6651
    ISSN 2072-6651
    DOI 10.3390/toxins15100620
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  7. Article: Impact of preserved ratio impaired spirometry on coronary artery calcium score progression: a longitudinal cohort study.

    Im, Yunjoo / Park, Hye Yun / Lee, Jin-Young / Kim, Hyunsoo / Yoo, Hongseok / Kang, Mira / Cho, Soo Jin / Hwang, Jung Hye / Park, Yong Bum / Cho, Juhee / Kang, Danbee / Shin, Sun Hye

    ERJ open research

    2024  Volume 10, Issue 1

    Abstract: Background: Preserved ratio impaired spirometry (PRISm) is associated with increased cardiovascular disease (CVD) risk and mortality. However, a causal relationship between PRISm and CVD remains unclear. We investigated the progression of coronary ... ...

    Abstract Background: Preserved ratio impaired spirometry (PRISm) is associated with increased cardiovascular disease (CVD) risk and mortality. However, a causal relationship between PRISm and CVD remains unclear. We investigated the progression of coronary artery calcium (CAC) scores based on the presence of PRISm and reduced forced vital capacity (FVC).
    Methods: This retrospective cohort study included 11 420 participants aged ≥40 years with forced expiratory volume in 1 s (FEV
    Results: Of the 11 420 participants, 8536 (75%), 811 (7%) and 2073 (18%) had normal spirometry, PRISm with normal FVC and PRISm with low FVC, respectively. During the mean (range) follow-up of 6.0 (0.5-17.2) years, the multivariable adjusted ratio of 5-year CAC progression rates comparing participants with PRISm to those with normal spirometry was 1.08 (95% CI 1.04-1.13). This rate was higher in participants with PRISm with low FVC (1.21 (95% CI 1.12-1.30)) than in those with normal FVC.
    Conclusion: In this longitudinal cohort study of subjects without a history of CVD, PRISm was significantly associated with CAC progression, which was more evident in the group with PRISm and low FVC.
    Language English
    Publishing date 2024-01-22
    Publishing country England
    Document type Journal Article
    ZDB-ID 2827830-6
    ISSN 2312-0541
    ISSN 2312-0541
    DOI 10.1183/23120541.00819-2023
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  8. Article: Tumor-associated microbiome features of metastatic colorectal cancer and clinical implications.

    An, Ho Jung / Partha, Mira A / Lee, HoJoon / Lau, Billy T / Pavlichin, Dmitri S / Almeda, Alison / Hooker, Anna C / Shin, Giwon / Ji, Hanlee P

    Frontiers in oncology

    2024  Volume 13, Page(s) 1310054

    Abstract: Background: Colon microbiome composition contributes to the pathogenesis of colorectal cancer (CRC) and prognosis. We analyzed 16S rRNA sequencing data from tumor samples of patients with metastatic CRC and determined the clinical implications.: ... ...

    Abstract Background: Colon microbiome composition contributes to the pathogenesis of colorectal cancer (CRC) and prognosis. We analyzed 16S rRNA sequencing data from tumor samples of patients with metastatic CRC and determined the clinical implications.
    Materials and methods: We enrolled 133 patients with metastatic CRC at St. Vincent Hospital in Korea. The V3-V4 regions of the 16S rRNA gene from the tumor DNA were amplified, sequenced on an Illumina MiSeq, and analyzed using the DADA2 package.
    Results: After excluding samples that retained <5% of the total reads after merging, 120 samples were analyzed. The median age of patients was 63 years (range, 34-82 years), and 76 patients (63.3%) were male. The primary cancer sites were the right colon (27.5%), left colon (30.8%), and rectum (41.7%). All subjects received 5-fluouracil-based systemic chemotherapy. After removing genera with <1% of the total reads in each patient, 523 genera were identified. Rectal origin, high CEA level (≥10 ng/mL), and presence of lung metastasis showed higher richness. Survival analysis revealed that the presence of
    Conclusion: Tumor microbiome features may be useful prognostic biomarkers for metastatic CRC.
    Language English
    Publishing date 2024-01-18
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2649216-7
    ISSN 2234-943X
    ISSN 2234-943X
    DOI 10.3389/fonc.2023.1310054
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  9. Article ; Online: Gene-Gene Interaction Analysis for the Survival Phenotype Based on the Kaplan-Meier Median Estimate

    Mira Park / Jung Wun Lee / Taesung Park / SeungYeoun Lee

    BioMed Research International, Vol

    2020  Volume 2020

    Abstract: In this study, we propose a simple and computationally efficient method based on the multifactor dimensional reduction algorithm to identify gene-gene interactions associated with the survival phenotype. The proposed method, referred to as KM-MDR, uses ... ...

    Abstract In this study, we propose a simple and computationally efficient method based on the multifactor dimensional reduction algorithm to identify gene-gene interactions associated with the survival phenotype. The proposed method, referred to as KM-MDR, uses the Kaplan-Meier median survival time as a classifier. The KM-MDR method classifies multilocus genotypes into a binary attribute for high- or low-risk groups using median survival time and replaces balanced accuracy with log-rank test statistics as a score to determine the best model. Through intensive simulation studies, we compared the power of KM-MDR with that of Surv-MDR, Cox-MDR, and AFT-MDR. It was found that KM-MDR has a similar power to that of Surv-MDR, with less computing time, and has comparable power to that of Cox-MDR and AFT-MDR, even when there is a covariate effect. Furthermore, we apply KM-MDR to a real dataset of ovarian cancer patients from The Cancer Genome Atlas (TCGA).
    Keywords Medicine ; R
    Language English
    Publishing date 2020-01-01T00:00:00Z
    Publisher Hindawi Limited
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  10. Article ; Online: Novel Paired Normal Prostate and Prostate Cancer Model Cell Systems Derived from African American Patients.

    Jung, Mira / Kowalczyk, Keith / Hankins, Ryan / Bandi, Gaurav / Kallakury, Bhaskar / Carrasquilla, Michael A / Banerjee, Partha P / Grindrod, Scott / Dritschilo, Anatoly

    Cancer research communications

    2022  Volume 2, Issue 12, Page(s) 1617–1625

    Abstract: Prostate cancer is the most frequently diagnosed solid malignancy in men. African American (AA) men are at greater risk for developing prostate cancer, and experience higher mortality rates, as compared with Caucasian American men. However, mechanistic ... ...

    Abstract Prostate cancer is the most frequently diagnosed solid malignancy in men. African American (AA) men are at greater risk for developing prostate cancer, and experience higher mortality rates, as compared with Caucasian American men. However, mechanistic studies to understand this health disparity have been limited by the lack of relevant
    Significance: Cells derived from prostatectomies of AA patients conferred a bimodal cellular phenotype, recapitulating clinical prostate cellular complexity in this model cell system. Comparisons of viability responses of tumor derived to normal epithelial cells offer the potential for screening therapeutic drugs. Therefore, these paired prostate epithelial cell cultures provide an
    MeSH term(s) Humans ; Male ; Prostate/surgery ; Black or African American/genetics ; Prostatic Neoplasms/genetics ; Epithelial Cells ; Cell Line, Tumor
    Language English
    Publishing date 2022-12-13
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural
    ISSN 2767-9764
    ISSN (online) 2767-9764
    DOI 10.1158/2767-9764.CRC-22-0203
    Database MEDical Literature Analysis and Retrieval System OnLINE

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