These tools will no longer be maintained as of December 31, 2024. Archived website can be found here. PubMed4Hh GitHub repository can be found here. Contact NLM Customer Service if you have questions.


BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

124 related articles for article (PubMed ID: 38555493)

  • 1. A systematic analyses of different bioinformatics pipelines for genomic data and its impact on deep learning models for chromatin loop prediction.
    Kumar Halder A; Agarwal A; Jodkowska K; Plewczynski D
    Brief Funct Genomics; 2024 Mar; ():. PubMed ID: 38555493
    [TBL] [Abstract][Full Text] [Related]  

  • 2. The dynamic role of cohesin in maintaining human genome architecture.
    Agarwal A; Korsak S; Choudhury A; Plewczynski D
    Bioessays; 2023 Oct; 45(10):e2200240. PubMed ID: 37603403
    [TBL] [Abstract][Full Text] [Related]  

  • 3. CLNN-loop: a deep learning model to predict CTCF-mediated chromatin loops in the different cell lines and CTCF-binding sites (CBS) pair types.
    Zhang P; Wu Y; Zhou H; Zhou B; Zhang H; Wu H
    Bioinformatics; 2022 Sep; 38(19):4497-4504. PubMed ID: 35997565
    [TBL] [Abstract][Full Text] [Related]  

  • 4. A sequence-based deep learning approach to predict CTCF-mediated chromatin loop.
    Lv H; Dao FY; Zulfiqar H; Su W; Ding H; Liu L; Lin H
    Brief Bioinform; 2021 Sep; 22(5):. PubMed ID: 33634313
    [TBL] [Abstract][Full Text] [Related]  

  • 5. CTCF and cohesin regulate chromatin loop stability with distinct dynamics.
    Hansen AS; Pustova I; Cattoglio C; Tjian R; Darzacq X
    Elife; 2017 May; 6():. PubMed ID: 28467304
    [TBL] [Abstract][Full Text] [Related]  

  • 6. CCIP: predicting CTCF-mediated chromatin loops with transitivity.
    Wang W; Gao L; Ye Y; Gao Y
    Bioinformatics; 2021 Dec; 37(24):4635-4642. PubMed ID: 34289010
    [TBL] [Abstract][Full Text] [Related]  

  • 7. Cohesin and CTCF complexes mediate contacts in chromatin loops depending on nucleosome positions.
    Attou A; Zülske T; Wedemann G
    Biophys J; 2022 Dec; 121(24):4788-4799. PubMed ID: 36325618
    [TBL] [Abstract][Full Text] [Related]  

  • 8. Inferring CTCF-binding patterns and anchored loops across human tissues and cell types.
    Xu H; Yi X; Fan X; Wu C; Wang W; Chu X; Zhang S; Dong X; Wang Z; Wang J; Zhou Y; Zhao K; Yao H; Zheng N; Wang J; Chen Y; Plewczynski D; Sham PC; Chen K; Huang D; Li MJ
    Patterns (N Y); 2023 Aug; 4(8):100798. PubMed ID: 37602215
    [TBL] [Abstract][Full Text] [Related]  

  • 9. CTCF as a boundary factor for cohesin-mediated loop extrusion: evidence for a multi-step mechanism.
    Hansen AS
    Nucleus; 2020 Dec; 11(1):132-148. PubMed ID: 32631111
    [TBL] [Abstract][Full Text] [Related]  

  • 10. ESCO1 and CTCF enable formation of long chromatin loops by protecting cohesin
    Wutz G; Ladurner R; St Hilaire BG; Stocsits RR; Nagasaka K; Pignard B; Sanborn A; Tang W; Várnai C; Ivanov MP; Schoenfelder S; van der Lelij P; Huang X; Dürnberger G; Roitinger E; Mechtler K; Davidson IF; Fraser P; Lieberman-Aiden E; Peters JM
    Elife; 2020 Feb; 9():. PubMed ID: 32065581
    [TBL] [Abstract][Full Text] [Related]  

  • 11. Implications of Dosage Deficiencies in CTCF and Cohesin on Genome Organization, Gene Expression, and Human Neurodevelopment.
    Cummings CT; Rowley MJ
    Genes (Basel); 2022 Mar; 13(4):. PubMed ID: 35456389
    [TBL] [Abstract][Full Text] [Related]  

  • 12. Chromatin jets define the properties of cohesin-driven in vivo loop extrusion.
    Guo Y; Al-Jibury E; Garcia-Millan R; Ntagiantas K; King JWD; Nash AJ; Galjart N; Lenhard B; Rueckert D; Fisher AG; Pruessner G; Merkenschlager M
    Mol Cell; 2022 Oct; 82(20):3769-3780.e5. PubMed ID: 36182691
    [TBL] [Abstract][Full Text] [Related]  

  • 13. A Comparative Study of Supervised Machine Learning Algorithms for the Prediction of Long-Range Chromatin Interactions.
    Vanhaeren T; Divina F; García-Torres M; Gómez-Vela F; Vanhoof W; Martínez-García PM
    Genes (Basel); 2020 Aug; 11(9):. PubMed ID: 32847102
    [TBL] [Abstract][Full Text] [Related]  

  • 14. ZNF143 is a regulator of chromatin loop.
    Wen Z; Huang ZT; Zhang R; Peng C
    Cell Biol Toxicol; 2018 Dec; 34(6):471-478. PubMed ID: 30120652
    [TBL] [Abstract][Full Text] [Related]  

  • 15. On the choreography of genome folding: A grand pas de deux of cohesin and CTCF.
    van Ruiten MS; Rowland BD
    Curr Opin Cell Biol; 2021 Jun; 70():84-90. PubMed ID: 33545664
    [TBL] [Abstract][Full Text] [Related]  

  • 16. Depletion of the chromatin looping proteins CTCF and cohesin causes chromatin compaction: insight into chromatin folding by polymer modelling.
    Tark-Dame M; Jerabek H; Manders EM; van der Wateren IM; Heermann DW; van Driel R
    PLoS Comput Biol; 2014 Oct; 10(10):e1003877. PubMed ID: 25299688
    [TBL] [Abstract][Full Text] [Related]  

  • 17. CTCF is a DNA-tension-dependent barrier to cohesin-mediated loop extrusion.
    Davidson IF; Barth R; Zaczek M; van der Torre J; Tang W; Nagasaka K; Janissen R; Kerssemakers J; Wutz G; Dekker C; Peters JM
    Nature; 2023 Apr; 616(7958):822-827. PubMed ID: 37076620
    [TBL] [Abstract][Full Text] [Related]  

  • 18. A comprehensive review of bioinformatics tools for chromatin loop calling.
    Liu L; Han K; Sun H; Han L; Gao D; Xi Q; Zhang L; Lin H
    Brief Bioinform; 2023 Mar; 24(2):. PubMed ID: 36882016
    [TBL] [Abstract][Full Text] [Related]  

  • 19. Topologically associating domains and chromatin loops depend on cohesin and are regulated by CTCF, WAPL, and PDS5 proteins.
    Wutz G; Várnai C; Nagasaka K; Cisneros DA; Stocsits RR; Tang W; Schoenfelder S; Jessberger G; Muhar M; Hossain MJ; Walther N; Koch B; Kueblbeck M; Ellenberg J; Zuber J; Fraser P; Peters JM
    EMBO J; 2017 Dec; 36(24):3573-3599. PubMed ID: 29217591
    [TBL] [Abstract][Full Text] [Related]  

  • 20. Genomic Marks Associated with Chromatin Compartments in the CTCF, RNAPII Loop and Genomic Windows.
    Szczepińska T; Mollah AF; Plewczynski D
    Int J Mol Sci; 2021 Oct; 22(21):. PubMed ID: 34769020
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 7.