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Modelling stress-induced transposon activity

2012/06/M/ST6/00438

Keywords:

transposon environmental stress proliferation stochastic model

Descriptors:

  • ST6_13: Bioinformatics, biocomputing, DNA and molecular computation
  • ST6_12: Scientific computing, simulation and modelling tools
  • ST6_11: Machine learning, statistical data processing and applications using signal processing (e.g. speech, image, video)

Panel:

ST6 - Computer science and informatics: informatics and information systems, computer science, scientific computing, intelligent systems

Host institution :

Uniwersytet Warszawski, Wydział Matematyki, Informatyki i Mechaniki

woj. mazowieckie

Other projects carried out by the institution 

Principal investigator (from the host institution):

prof. Anna Gambin 

Number of co-investigators in the project: 6

Call: HARMONIA 3 - announced on 2012-06-15

Amount awarded: 396 000 PLN

Project start date (Y-m-d): 2013-03-27

Project end date (Y-m-d): 2016-09-26

Project duration:: 42 months (the same as in the proposal)

Project status: Project settled

Information in the final report

  • Publication in academic press/journals (10)
  • Articles in post-conference publications (1)
  1. MuTAnT: a family of Mutator-like transposable elements targeting TA microsatellites in Medicago truncatula.
    Authors:
    Stawujak K, Startek M, Gambin A, Grzebelus D
    Academic press:
    Genetica (rok: 2015, tom: 143(4), strony: 433-440), Wydawca: Springer
    Status:
    Published
    DOI:
    10.1007/s10709-015-9842-5 - link to the publication
  2. Modelling the proliferation of transposable elements in populations under environmental stress
    Authors:
    K. Gogolewski, M. Startek, A. Gambin, A. Le Rouzic
    Academic press:
    eprint arXiv:1611.04812 , Wydawca: Cornell University
    Status:
    Submitted
    DOI:
    brak - link to the publication
  3. Moving optimum in Fisher's geometric model: an analytical approach
    Authors:
    Michał Startek
    Academic press:
    Evolution , Wydawca: Wiley
    Status:
    Submitted
    DOI:
    brak - link to the publication
  4. Leaf and Plant Age Affects Photosynthetic Performance and Photoprotective Capacity
    Authors:
    Ludwik W. Bielczynski, Mateusz K. Łącki, Iris Hoefnagels, Anna Gambin, Roberta Croce
    Academic press:
    Plant Physiology (rok: 2017, tom: 175(4), strony: 1634-1648), Wydawca: American Society of Plant Biologists
    Status:
    Published
    DOI:
    10.1104/pp.17.00904 - link to the publication
  5. Genomic parasites or symbionts? Modeling the effects of environmental pressure on transposition activity in asexual populations.
    Authors:
    Startek M, Le Rouzic A, Capy P, Grzebelus D, Gambin A.
    Academic press:
    Theoretical Population Biology (rok: 2013, tom: 90, strony: 145-151), Wydawca: Elsevier
    Status:
    Published
    DOI:
    10.1016/j.tpb.2013.07.004 - link to the publication
  6. Recurrent HERV-H-mediated 3q13.2-q13.31 deletions cause a syndrome of hypotonia and motor, language, and cognitive delays.
    Authors:
    Shuvarikov A, Campbell IM, Dittwald P, Neill NJ, Bialer MG, Moore C, Wheeler PG, Wallace SE, Hannibal MC, Murray MF, Giovanni MA, Terespolsky D, Sodhi S, Cassina M, Viskochil D, Moghaddam B, Herman K, Brown CW, Beck CR, Gambin A, Cheung SW, Patel A, Lamb AN, Shaffer LG, Ellison JW, Ravnan JB, Stankiewicz P, Rosenfeld JA.
    Academic press:
    Human Mutation (rok: 2013, tom: 34(10), strony: 1415-1423.), Wydawca: Wiley Online Library
    Status:
    Published
    DOI:
    10.1002/humu.22384. - link to the publication
  7. LINE and Alu genomic instability hotspot at 16q24.1 initiates recurrent DNA breaks leading to variably-sized CNV deletions causative for ACDMPV
    Authors:
    P. Szafranski E. Kośmider Q. Liu JA. Karolak L. Currie S. Parkash SG. Kahler E. Roeder RO. Littlejohn TS. DeNapoli FR. Shardonofsky C. Henderson G. Powers V. Poisson JL. Michaud S. Janssens K. De Coen Jo Van Dorpe A. Dheedene M.T. Harting M.D. Weaver A. M. Khan N. Tatevian J. Wambach E. Popek A. Gambin P. Stankiewicz
    Academic press:
    Human Mutation , Wydawca: Wiley Online Library
    Status:
    Submitted
    DOI:
    brak - link to the publication
  8. Genome-wide analyses of LINE-LINE-mediated nonallelic homologous recombination
    Authors:
    Startek M, Szafranski P, Gambin T, Campbell IM, Hixson P, Shaw CA, Stankiewicz P, Gambin A.
    Academic press:
    Nucleic Acids Res (rok: 2015, tom: 43(4), strony: 2188-98), Wydawca: Oxford University Press
    Status:
    Published
    DOI:
    10.1093/nar/gku1394 - link to the publication
  9. Inferring transposons activity chronology by TRANScendence: TEs database and de-novo mining tool
    Authors:
    M. Startek, J. Nogły, A. Gromadka, D. Grzebelus, A. Gambin
    Academic press:
    BMC Bioinformatics (rok: 2017, tom: 18 (suppl 12), strony: 422), Wydawca: Springer
    Status:
    Published
    DOI:
    10.1186/s12859-017-1824-4 - link to the publication
  10. An asymptotically optimal, online algorithm for weighted random sampling with replacement
    Authors:
    Michał Startek
    Academic press:
    Journal of the ACM , Wydawca: Association for Computing Machinery
    Status:
    Submitted
    DOI:
    brak - link to the publication
  1. TRANScendence: transposable elements database and de-novo mining tool allows inferring TEs activity chronology
    Authors:
    Michał Startek, Jakub Nogł􏰀y, Dariusz Grzebelus, Anna Gambin
    Conference:
    The International Symposium on Bioinformatics Research and Applications (rok: 2016, ), Wydawca: Springer
    Data:
    konferencja Jun 5, 2016 - Jun 8, 2016
    Status:
    Published

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