LIVIVO - The Search Portal for Life Sciences

zur deutschen Oberfläche wechseln
Advanced search

Search results

Result 1 - 10 of total 41

Search options

  1. Article ; Online: Protocol for detecting RBM33-binding sites in HEK293T cells using PAR-CLIP-seq.

    Yu, Fang / Liu, Shun / Zhu, Allen C / He, Chuan / Qian, Zhijian

    STAR protocols

    2024  Volume 5, Issue 1, Page(s) 102855

    Abstract: RNA-binding proteins (RBPs) regulate gene expression both co-transcriptionally and post-transcriptionally. Here, we provide a protocol for photoactivatable ribonucleoside-enhanced crosslinking and immunoprecipitation followed by next-generation ... ...

    Abstract RNA-binding proteins (RBPs) regulate gene expression both co-transcriptionally and post-transcriptionally. Here, we provide a protocol for photoactivatable ribonucleoside-enhanced crosslinking and immunoprecipitation followed by next-generation sequencing (PAR-CLIP-seq). PAR-CLIP-seq is a transcriptome-scale technique for identifying in vivo binding sites of RBPs at the single-nucleotide level. We detail procedures for the establishment of FLAG-RBM33 stable cell line, the sequencing library preparation, and the data analysis.
    MeSH term(s) Humans ; HEK293 Cells ; Chromatin Immunoprecipitation Sequencing ; Binding Sites ; RNA-Binding Proteins/metabolism ; Transcriptome
    Chemical Substances RNA-Binding Proteins
    Language English
    Publishing date 2024-01-31
    Publishing country United States
    Document type Journal Article
    ISSN 2666-1667
    ISSN (online) 2666-1667
    DOI 10.1016/j.xpro.2024.102855
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

    Order via subito

    This service is chargeable due to the Delivery terms set by subito. Orders including an article and supplementary material will be classified as separate orders. In these cases, fees will be demanded for each order.

    Inter-library loan at ZB MED

    Your chosen title can be delivered directly to ZB MED Cologne location if you are registered as a user at ZB MED Cologne.

  2. Article: Global Detection of RNA Methylation by Click Degradation.

    Zhu, Allen C / He, Chuan

    ACS central science

    2020  Volume 6, Issue 12, Page(s) 2126–2129

    Language English
    Publishing date 2020-11-11
    Publishing country United States
    Document type News
    ISSN 2374-7943
    ISSN 2374-7943
    DOI 10.1021/acscentsci.0c01449
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

    Order via subito

    This service is chargeable due to the Delivery terms set by subito. Orders including an article and supplementary material will be classified as separate orders. In these cases, fees will be demanded for each order.

    Inter-library loan at ZB MED

    Your chosen title can be delivered directly to ZB MED Cologne location if you are registered as a user at ZB MED Cologne.

  3. Article ; Online: REPIC: a database for exploring the N

    Liu, Shun / Zhu, Allen / He, Chuan / Chen, Mengjie

    Genome biology

    2020  Volume 21, Issue 1, Page(s) 100

    Abstract: The REPIC (RNA EPItranscriptome Collection) database records about 10 million peaks called from publicly available ... ...

    Abstract The REPIC (RNA EPItranscriptome Collection) database records about 10 million peaks called from publicly available m
    MeSH term(s) Adenosine/analogs & derivatives ; Adenosine/analysis ; Animals ; Cell Line ; Chromatin ; Databases, Nucleic Acid ; Epigenomics ; Histone Code ; Humans ; Mice ; Organ Specificity ; RNA/chemistry
    Chemical Substances Chromatin ; RNA (63231-63-0) ; N-methyladenosine (CLE6G00625) ; Adenosine (K72T3FS567)
    Language English
    Publishing date 2020-04-28
    Publishing country England
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ZDB-ID 2040529-7
    ISSN 1474-760X ; 1474-760X
    ISSN (online) 1474-760X
    ISSN 1474-760X
    DOI 10.1186/s13059-020-02012-4
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

    Order via subito

    This service is chargeable due to the Delivery terms set by subito. Orders including an article and supplementary material will be classified as separate orders. In these cases, fees will be demanded for each order.

  4. Article ; Online: m6A RNA methylation regulates mitochondrial function.

    Kahl, Michael / Xu, Zhaofa / Arumugam, Saravanan / Edens, Brittany / Fischietti, Mariafausta / Zhu, Allen C / Platanias, Leonidas C / He, Chuan / Zhuang, Xiaoxi / Ma, Yongchao C

    Human molecular genetics

    2024  Volume 33, Issue 11, Page(s) 969–980

    Abstract: RNA methylation of N6-methyladenosine (m6A) is emerging as a fundamental regulator of every aspect of RNA biology. RNA methylation directly impacts protein production to achieve quick modulation of dynamic biological processes. However, whether RNA ... ...

    Abstract RNA methylation of N6-methyladenosine (m6A) is emerging as a fundamental regulator of every aspect of RNA biology. RNA methylation directly impacts protein production to achieve quick modulation of dynamic biological processes. However, whether RNA methylation regulates mitochondrial function is not known, especially in neuronal cells which require a high energy supply and quick reactive responses. Here we show that m6A RNA methylation regulates mitochondrial function through promoting nuclear-encoded mitochondrial complex subunit RNA translation. Conditional genetic knockout of m6A RNA methyltransferase Mettl14 (Methyltransferase like 14) by Nestin-Cre together with metabolomic analysis reveals that Mettl14 knockout-induced m6A depletion significantly downregulates metabolites related to energy metabolism. Furthermore, transcriptome-wide RNA methylation profiling of wild type and Mettl14 knockout mouse brains by m6A-Seq shows enrichment of methylation on mitochondria-related RNA. Importantly, loss of m6A leads to a significant reduction in mitochondrial respiratory capacity and membrane potential. These functional defects are paralleled by the reduced expression of mitochondrial electron transport chain complexes, as well as decreased mitochondrial super-complex assembly and activity. Mechanistically, m6A depletion decreases the translational efficiency of methylated RNA encoding mitochondrial complex subunits through reducing their association with polysomes, while not affecting RNA stability. Together, these findings reveal a novel role for RNA methylation in regulating mitochondrial function. Given that mitochondrial dysfunction and RNA methylation have been increasingly implicate in neurodegenerative disorders, our findings not only provide insights into fundamental mechanisms regulating mitochondrial function, but also open up new avenues for understanding the pathogenesis of neurological diseases.
    MeSH term(s) Animals ; Mitochondria/metabolism ; Mitochondria/genetics ; Mice ; Methylation ; Methyltransferases/genetics ; Methyltransferases/metabolism ; Adenosine/analogs & derivatives ; Adenosine/metabolism ; Adenosine/genetics ; Mice, Knockout ; RNA/genetics ; RNA/metabolism ; Humans ; Protein Biosynthesis ; Energy Metabolism/genetics ; Neurons/metabolism ; RNA Methylation
    Chemical Substances N-methyladenosine ; Mettl14 protein, mouse
    Language English
    Publishing date 2024-03-14
    Publishing country England
    Document type Journal Article
    ZDB-ID 1108742-0
    ISSN 1460-2083 ; 0964-6906
    ISSN (online) 1460-2083
    ISSN 0964-6906
    DOI 10.1093/hmg/ddae029
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

    In stock of ZB MED Cologne/Königswinter

    Zs.A 3469: 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)

    Order via subito

    This service is chargeable due to the Delivery terms set by subito. Orders including an article and supplementary material will be classified as separate orders. In these cases, fees will be demanded for each order.

  5. Article ; Online: KAS-seq: genome-wide sequencing of single-stranded DNA by N

    Lyu, Ruitu / Wu, Tong / Zhu, Allen C / West-Szymanski, Diana C / Weng, Xiaocheng / Chen, Mengjie / He, Chuan

    Nature protocols

    2022  Volume 17, Issue 2, Page(s) 402–420

    Abstract: Transcription and its dynamics are crucial for gene expression regulation. However, very few methods can directly read out transcriptional activity with low-input material and high temporal resolution. This protocol describes KAS-seq, a robust and ... ...

    Abstract Transcription and its dynamics are crucial for gene expression regulation. However, very few methods can directly read out transcriptional activity with low-input material and high temporal resolution. This protocol describes KAS-seq, a robust and sensitive approach for capturing genome-wide single-stranded DNA (ssDNA) profiles using N
    MeSH term(s) DNA, Single-Stranded
    Chemical Substances DNA, Single-Stranded
    Language English
    Publishing date 2022-01-10
    Publishing country England
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't ; Review
    ZDB-ID 2244966-8
    ISSN 1750-2799 ; 1754-2189
    ISSN (online) 1750-2799
    ISSN 1754-2189
    DOI 10.1038/s41596-021-00647-6
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

    Order via subito

    This service is chargeable due to the Delivery terms set by subito. Orders including an article and supplementary material will be classified as separate orders. In these cases, fees will be demanded for each order.

  6. Article: Epitranscriptomic Reader YTHDF2 Regulates SEK1(

    Malovic, Emir / Ealy, Alyssa / Hsu, Phillip J / Sarkar, Souvarish / Miller, Cameron / Rokad, Dharmin / Goeser, Cody / Hartman, Aleah Kristen / Zhu, Allen / Palanisamy, Bharathi / Zenitsky, Gary / Jin, Huajun / Anantharam, Vellareddy / Kanthasamy, Arthi / He, Chuan / Kanthasamy, Anumantha G

    bioRxiv : the preprint server for biology

    2024  

    Abstract: As the most abundant glial cells in the CNS, astrocytes dynamically respond to neurotoxic stress, however, the key molecular regulators controlling the inflammatory status of these sentinels during neurotoxic stress have remained elusive. Herein, we ... ...

    Abstract As the most abundant glial cells in the CNS, astrocytes dynamically respond to neurotoxic stress, however, the key molecular regulators controlling the inflammatory status of these sentinels during neurotoxic stress have remained elusive. Herein, we demonstrate that the m6A epitranscriptomic mRNA modification tightly regulates the pro-inflammatory functions of astrocytes. Specifically, the astrocytic neurotoxic stresser, manganese (Mn), downregulated the m6A reader YTHDF2 in human and mouse astrocyte cultures and in the mouse brain. Functionally, YTHDF2 knockdown augmented, while its overexpression dampened, neurotoxic stress induced proinflammatory response, suggesting YTHDF2 serves as a key upstream regulator of inflammatory responses in astrocytes. Mechnistically, YTHDF2 RIP-sequencing identified
    Language English
    Publishing date 2024-01-26
    Publishing country United States
    Document type Preprint
    DOI 10.1101/2024.01.26.577106
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

    Inter-library loan at ZB MED

    Your chosen title can be delivered directly to ZB MED Cologne location if you are registered as a user at ZB MED Cologne.

  7. Article ; Online: RBM33 is a unique m

    Yu, Fang / Zhu, Allen C / Liu, Shun / Gao, Boyang / Wang, Yuzhi / Khudaverdyan, Nelli / Yu, Chunjie / Wu, Qiong / Jiang, Yunhan / Song, Jikui / Jin, Lingtao / He, Chuan / Qian, Zhijian

    Molecular cell

    2023  Volume 83, Issue 12, Page(s) 2003–2019.e6

    Abstract: Regulation of RNA substrate selectivity of ... ...

    Abstract Regulation of RNA substrate selectivity of m
    MeSH term(s) Humans ; Squamous Cell Carcinoma of Head and Neck/genetics ; AlkB Homolog 5, RNA Demethylase/genetics ; AlkB Homolog 5, RNA Demethylase/metabolism ; RNA, Messenger/genetics ; RNA, Messenger/metabolism ; RNA-Binding Proteins/genetics ; Head and Neck Neoplasms ; Carcinogenesis
    Chemical Substances AlkB Homolog 5, RNA Demethylase (EC 1.14.11.-) ; RNA, Messenger ; RNA-Binding Proteins ; ALKBH5 protein, human (EC 1.14.11.-)
    Language English
    Publishing date 2023-05-30
    Publishing country United States
    Document type Journal Article
    ZDB-ID 1415236-8
    ISSN 1097-4164 ; 1097-2765
    ISSN (online) 1097-4164
    ISSN 1097-2765
    DOI 10.1016/j.molcel.2023.05.010
    Database MEDical Literature Analysis and Retrieval System OnLINE

    Full text online

    More links

    Kategorien

    In stock of ZB MED Cologne/Königswinter

    Zs.A 5055: 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)

    Order via subito

    This service is chargeable due to the Delivery terms set by subito. Orders including an article and supplementary material will be classified as separate orders. In these cases, fees will be demanded for each order.

  8. Article: Demarcation of Viral Shelters Results in Destruction by Membranolytic GTPases: Antiviral Function of Autophagy Proteins and Interferon‐Inducible GTPases

    Brown, Hailey M / Biering, Scott B / Zhu, Allen / Choi, Jayoung / Hwang, Seungmin

    BioEssays. 2018 June, v. 40, no. 6

    2018  

    Abstract: A hallmark of positive‐sense RNA viruses is the formation of membranous shelters for safe replication in the cytoplasm. Once considered invisible to the immune system, these viral shelters are now found to be antagonized through the cooperation of ... ...

    Abstract A hallmark of positive‐sense RNA viruses is the formation of membranous shelters for safe replication in the cytoplasm. Once considered invisible to the immune system, these viral shelters are now found to be antagonized through the cooperation of autophagy proteins and anti‐microbial GTPases. This coordinated effort of autophagy proteins guiding GTPases functions against not only the shelters of viruses but also cytoplasmic vacuoles containing bacteria or protozoa, suggesting a broad immune‐defense mechanism against disparate vacuolar pathogens. Fundamental questions regarding this process remain: how the host recognizes these membranous structures as a target, how the autophagy proteins bring the GTPases to the shelters, and how the recruited GTPases disrupt these shelters. In this review, these questions are discussed, the answers to which will significantly advance our understanding of the response to vacuole‐like structures of pathogens, thereby paving the way for the development of broadly effective anti‐microbial strategies for public health.
    Keywords Protozoa ; autophagy ; bacteria ; guanosinetriphosphatase ; immune system ; pathogens ; positive sense, single-stranded RNA viruses ; proteins ; public health ; vacuoles ; viruses
    Language English
    Dates of publication 2018-06
    Publishing place John Wiley & Sons, Ltd
    Document type Article
    Note REVIEW
    ZDB-ID 50140-2
    ISSN 1521-1878 ; 0265-9247
    ISSN (online) 1521-1878
    ISSN 0265-9247
    DOI 10.1002/bies.201700231
    Database NAL-Catalogue (AGRICOLA)

    Full text online

    More links

    Kategorien

    In stock of ZB MED Bonn / Germany

    Z 2009/501: Show issues

    Order via subito

    This service is chargeable due to the Delivery terms set by subito. Orders including an article and supplementary material will be classified as separate orders. In these cases, fees will be demanded for each order.

    Inter-library loan at ZB MED

    Your chosen title can be delivered directly to ZB MED Cologne location if you are registered as a user at ZB MED Cologne.

  9. Article ; Online: Paraventricular Calcitonin Receptor-Expressing Neurons Modulate Energy Homeostasis in Male Mice.

    Gonzalez, Ian E / Ramirez-Matias, Julliana / Lu, Chunxia / Pan, Warren / Zhu, Allen / Myers, Martin G / Olson, David P

    Endocrinology

    2020  Volume 162, Issue 6

    Abstract: The paraventricular nucleus of the hypothalamus (PVH) is a heterogeneous collection of neurons that play important roles in modulating feeding and energy expenditure. Abnormal development or ablation of the PVH results in hyperphagic obesity and defects ... ...

    Abstract The paraventricular nucleus of the hypothalamus (PVH) is a heterogeneous collection of neurons that play important roles in modulating feeding and energy expenditure. Abnormal development or ablation of the PVH results in hyperphagic obesity and defects in energy expenditure whereas selective activation of defined PVH neuronal populations can suppress feeding and may promote energy expenditure. Here, we characterize the contribution of calcitonin receptor-expressing PVH neurons (CalcRPVH) to energy balance control. We used Cre-dependent viral tools delivered stereotaxically to the PVH of CalcR2Acre mice to activate, silence, and trace CalcRPVH neurons and determine their contribution to body weight regulation. Immunohistochemistry of fluorescently-labeled CalcRPVH neurons demonstrates that CalcRPVH neurons are largely distinct from several PVH neuronal populations involved in energy homeostasis; these neurons project to regions of the hindbrain that are implicated in energy balance control, including the nucleus of the solitary tract and the parabrachial nucleus. Acute activation of CalcRPVH neurons suppresses feeding without appreciably augmenting energy expenditure, whereas their silencing leads to obesity that may be due in part due to loss of PVH melanocortin-4 receptor signaling. These data show that CalcRPVH neurons are an essential component of energy balance neurocircuitry and their function is important for body weight maintenance. A thorough understanding of the mechanisms by which CalcRPVH neurons modulate energy balance might identify novel therapeutic targets for the treatment and prevention of obesity.
    MeSH term(s) Animals ; Eating/physiology ; Energy Metabolism/genetics ; Energy Metabolism/physiology ; Feeding Behavior/physiology ; Homeostasis/physiology ; Hypothalamus/metabolism ; Hypothalamus/physiology ; Male ; Mice ; Mice, Transgenic ; Neurons/metabolism ; Neurons/physiology ; Paraventricular Hypothalamic Nucleus/metabolism ; Paraventricular Hypothalamic Nucleus/physiology ; Receptor, Melanocortin, Type 4/genetics ; Receptor, Melanocortin, Type 4/metabolism ; Receptor, Melanocortin, Type 4/physiology ; Receptors, Calcitonin/genetics ; Receptors, Calcitonin/metabolism ; Receptors, Calcitonin/physiology
    Chemical Substances MC4R protein, mouse ; Receptor, Melanocortin, Type 4 ; Receptors, Calcitonin
    Language English
    Publishing date 2020-06-08
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural
    ZDB-ID 427856-2
    ISSN 1945-7170 ; 0013-7227
    ISSN (online) 1945-7170
    ISSN 0013-7227
    DOI 10.1210/endocr/bqab072
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

    In stock of ZB MED Cologne/Königswinter

    Uh III Zs.72: Show issues Location:
    Je nach Verfügbarkeit (siehe Angabe bei Bestand)
    bis Jg. 2021: Bestellungen von Artikeln über das Online-Bestellformular
    ab Jg. 2022: Lesesaal (EG)

    Order via subito

    This service is chargeable due to the Delivery terms set by subito. Orders including an article and supplementary material will be classified as separate orders. In these cases, fees will be demanded for each order.

  10. Article ; Online: Lactational metformin exposure programs offspring white adipose tissue glucose homeostasis and resilience to metabolic stress in a sex-dependent manner.

    Carlson, Zach / Hafner, Hannah / Mulcahy, Molly / Bullock, Kaylie / Zhu, Allen / Bridges, Dave / Bernal-Mizrachi, Ernesto / Gregg, Brigid

    American journal of physiology. Endocrinology and metabolism

    2020  Volume 318, Issue 5, Page(s) E600–E612

    Abstract: We previously demonstrated that exposing mouse dams to metformin during gestation results in increased beta-cell mass at birth and increased beta-cell insulin secretion in adult male offspring. Given these favorable changes after a gestational maternal ... ...

    Abstract We previously demonstrated that exposing mouse dams to metformin during gestation results in increased beta-cell mass at birth and increased beta-cell insulin secretion in adult male offspring. Given these favorable changes after a gestational maternal metformin exposure, we wanted to understand the long-term metabolic impact on offspring after exposing dams to metformin during the postnatal window. The newborn period provides a feasible clinical window for intervention and is important for beta-cell proliferation and metabolic tissue development. Using a C57BL/6 model, we administered metformin to dams from the day of birth to postnatal
    MeSH term(s) Adipose Tissue, White/drug effects ; Adipose Tissue, White/metabolism ; Animals ; Cell Proliferation/drug effects ; Female ; Glucose/metabolism ; Homeostasis/drug effects ; Hypoglycemic Agents/pharmacology ; Male ; Maternal Exposure ; Metformin/pharmacology ; Mice ; Pregnancy ; Prenatal Exposure Delayed Effects/metabolism ; Sex Factors ; Stress, Physiological/drug effects ; Stress, Physiological/physiology
    Chemical Substances Hypoglycemic Agents ; Metformin (9100L32L2N) ; Glucose (IY9XDZ35W2)
    Language English
    Publishing date 2020-03-10
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ZDB-ID 603841-4
    ISSN 1522-1555 ; 0193-1849
    ISSN (online) 1522-1555
    ISSN 0193-1849
    DOI 10.1152/ajpendo.00473.2019
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

    In stock of ZB MED Cologne/Königswinter

    Uc I Zs.89: Show issues Location:
    Je nach Verfügbarkeit (siehe Angabe bei Bestand)
    bis Jg. 2021: Bestellungen von Artikeln über das Online-Bestellformular
    ab Jg. 2022: Lesesaal (EG)

    Order via subito

    This service is chargeable due to the Delivery terms set by subito. Orders including an article and supplementary material will be classified as separate orders. In these cases, fees will be demanded for each order.

To top