BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

165 related articles for article (PubMed ID: 32442297)

  • 1. 3D-GNOME 2.0: a three-dimensional genome modeling engine for predicting structural variation-driven alterations of chromatin spatial structure in the human genome.
    Wlasnowolski M; Sadowski M; Czarnota T; Jodkowska K; Szalaj P; Tang Z; Ruan Y; Plewczynski D
    Nucleic Acids Res; 2020 Jul; 48(W1):W170-W176. PubMed ID: 32442297
    [TBL] [Abstract][Full Text] [Related]  

  • 2. 3D-GNOME: an integrated web service for structural modeling of the 3D genome.
    Szalaj P; Michalski PJ; Wróblewski P; Tang Z; Kadlof M; Mazzocco G; Ruan Y; Plewczynski D
    Nucleic Acids Res; 2016 Jul; 44(W1):W288-93. PubMed ID: 27185892
    [TBL] [Abstract][Full Text] [Related]  

  • 3. 3D-GNOME 3.0: a three-dimensional genome modelling engine for analysing changes of promoter-enhancer contacts in the human genome.
    Wlasnowolski M; Kadlof M; Sengupta K; Plewczynski D
    Nucleic Acids Res; 2023 Jul; 51(W1):W5-W10. PubMed ID: 37158257
    [TBL] [Abstract][Full Text] [Related]  

  • 4. An integrated 3-Dimensional Genome Modeling Engine for data-driven simulation of spatial genome organization.
    Szałaj P; Tang Z; Michalski P; Pietal MJ; Luo OJ; Sadowski M; Li X; Radew K; Ruan Y; Plewczynski D
    Genome Res; 2016 Dec; 26(12):1697-1709. PubMed ID: 27789526
    [TBL] [Abstract][Full Text] [Related]  

  • 5. The effects of common structural variants on 3D chromatin structure.
    Shanta O; Noor A; ; Sebat J
    BMC Genomics; 2020 Jan; 21(1):95. PubMed ID: 32000688
    [TBL] [Abstract][Full Text] [Related]  

  • 6. Spring Model - Chromatin Modeling Tool Based on OpenMM.
    Kadlof M; Rozycka J; Plewczynski D
    Methods; 2020 Oct; 181-182():62-69. PubMed ID: 31790732
    [TBL] [Abstract][Full Text] [Related]  

  • 7. Spatial chromatin architecture alteration by structural variations in human genomes at the population scale.
    Sadowski M; Kraft A; Szalaj P; Wlasnowolski M; Tang Z; Ruan Y; Plewczynski D
    Genome Biol; 2019 Jul; 20(1):148. PubMed ID: 31362752
    [TBL] [Abstract][Full Text] [Related]  

  • 8. Structural variants drive context-dependent oncogene activation in cancer.
    Xu Z; Lee DS; Chandran S; Le VT; Bump R; Yasis J; Dallarda S; Marcotte S; Clock B; Haghani N; Cho CY; Akdemir KC; Tyndale S; Futreal PA; McVicker G; Wahl GM; Dixon JR
    Nature; 2022 Dec; 612(7940):564-572. PubMed ID: 36477537
    [TBL] [Abstract][Full Text] [Related]  

  • 9. TADeus2: a web server facilitating the clinical diagnosis by pathogenicity assessment of structural variations disarranging 3D chromatin structure.
    Poszewiecka B; Pienkowski VM; Nowosad K; Robin JD; Gogolewski K; Gambin A
    Nucleic Acids Res; 2022 Jul; 50(W1):W744-W752. PubMed ID: 35524567
    [TBL] [Abstract][Full Text] [Related]  

  • 10. From DNA human sequence to the chromatin higher order organisation and its biological meaning: Using biomolecular interaction networks to understand the influence of structural variation on spatial genome organisation and its functional effect.
    Chiliński M; Sengupta K; Plewczynski D
    Semin Cell Dev Biol; 2022 Jan; 121():171-185. PubMed ID: 34429265
    [TBL] [Abstract][Full Text] [Related]  

  • 11. Somatic structural variant formation is guided by and influences genome architecture.
    Sidiropoulos N; Mardin BR; Rodríguez-González FG; Bochkov ID; Garg S; Stütz AM; Korbel JO; Aiden EL; Weischenfeldt J
    Genome Res; 2022 Apr; 32(4):643-655. PubMed ID: 35177558
    [TBL] [Abstract][Full Text] [Related]  

  • 12. Chromosome conformation capture technologies as tools to detect structural variations and their repercussion in chromatin 3D configuration.
    Stephenson-Gussinye A; Furlan-Magaril M
    Front Cell Dev Biol; 2023; 11():1219968. PubMed ID: 37457299
    [TBL] [Abstract][Full Text] [Related]  

  • 13. Dynamic Interplay between Structural Variations and 3D Genome Organization in Pancreatic Cancer.
    Du Y; Gu Z; Li Z; Yuan Z; Zhao Y; Zheng X; Bo X; Chen H; Wang C
    Adv Sci (Weinh); 2022 Jun; 9(18):e2200818. PubMed ID: 35570408
    [TBL] [Abstract][Full Text] [Related]  

  • 14. Geographic distribution and adaptive significance of genomic structural variants: an anthropological genetics perspective.
    Eaaswarkhanth M; Pavlidis P; Gokcumen O
    Hum Biol; 2014; 86(4):260-75. PubMed ID: 25959693
    [TBL] [Abstract][Full Text] [Related]  

  • 15. svclassify: a method to establish benchmark structural variant calls.
    Parikh H; Mohiyuddin M; Lam HY; Iyer H; Chen D; Pratt M; Bartha G; Spies N; Losert W; Zook JM; Salit M
    BMC Genomics; 2016 Jan; 17():64. PubMed ID: 26772178
    [TBL] [Abstract][Full Text] [Related]  

  • 16. Predicting pathogenic non-coding SVs disrupting the 3D genome in 1646 whole cancer genomes using multiple instance learning.
    Nieboer MM; Nguyen L; de Ridder J
    Sci Rep; 2021 Jul; 11(1):14411. PubMed ID: 34257393
    [TBL] [Abstract][Full Text] [Related]  

  • 17. Integrative detection and analysis of structural variation in cancer genomes.
    Dixon JR; Xu J; Dileep V; Zhan Y; Song F; Le VT; Yardımcı GG; Chakraborty A; Bann DV; Wang Y; Clark R; Zhang L; Yang H; Liu T; Iyyanki S; An L; Pool C; Sasaki T; Rivera-Mulia JC; Ozadam H; Lajoie BR; Kaul R; Buckley M; Lee K; Diegel M; Pezic D; Ernst C; Hadjur S; Odom DT; Stamatoyannopoulos JA; Broach JR; Hardison RC; Ay F; Noble WS; Dekker J; Gilbert DM; Yue F
    Nat Genet; 2018 Oct; 50(10):1388-1398. PubMed ID: 30202056
    [TBL] [Abstract][Full Text] [Related]  

  • 18. GenomeFlow: a comprehensive graphical tool for modeling and analyzing 3D genome structure.
    Trieu T; Oluwadare O; Wopata J; Cheng J
    Bioinformatics; 2019 Apr; 35(8):1416-1418. PubMed ID: 30215673
    [TBL] [Abstract][Full Text] [Related]  

  • 19. Interpreting the impact of noncoding structural variation in neurodevelopmental disorders.
    D'haene E; Vergult S
    Genet Med; 2021 Jan; 23(1):34-46. PubMed ID: 32973355
    [TBL] [Abstract][Full Text] [Related]  

  • 20. Three-dimensional chromatin ensemble reconstruction via stochastic embedding.
    Guarnera E; Tan ZW; Berezovsky IN
    Structure; 2021 Jun; 29(6):622-634.e3. PubMed ID: 33567266
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 9.