Publications

@ARTICLE{Suen2020-sf,
title = "{DEPS-1} is required for {piRNA-dependent} silencing and {PIWI}
condensate organisation in Caenorhabditis elegans",
author = "Suen, Kin Man and Braukmann, Fabian and Butler, Richard and
Bensaddek, Dalila and Akay, Alper and Lin, Chi-Chuan and
Milonaityt{\.e}, Dovil{\.e} and Doshi, Neel and Sapetschnig,
Alexandra and Lamond, Angus and Ladbury, John Edward and Miska,
Eric Alexander",
journal = "Nature communications",
volume = 11,
number = 1,
pages = "4242",
month = aug,
year = 2020,
url = "http://dx.doi.org/10.1038/s41467-020-18089-1",
language = "en",
issn = "2041-1723",
pmid = "32843637",
doi = "10.1038/s41467-020-18089-1",
pmc = "PMC7447803"
}

@UNPUBLISHED{Kranse2020-sd,
title = "Towards genetic modification of plant-parasitic nematodes:
delivery of macromolecules to adults and expression of exogenous
{mRNA} in second stage juveniles",
author = "Kranse, Olaf and Beasley, Helen and Adams, Sally and da Silva,
Andre Pires and Bell, Chris and Lilley, Catherine and Urwin,
Peter and Bird, David and Miska, Eric and Smant, Geert and
Gheysen, Godelieve and Jones, John and Viney, Mark and Abad,
Pierre and Maier, Thomas R and Baum, Thomas J and Siddique,
Shahid and Williamson, Valerie and Akay, Alper and den Akker,
Sebastian Eves-van",
pages = "2020.07.15.193052",
month = jul,
year = 2020,
url = "https://www.biorxiv.org/content/10.1101/2020.07.15.193052v1.abstract",
language = "en",
doi = "10.1101/2020.07.15.193052"
}

@UNPUBLISHED{Berkyurek2020-yk,
title = "The {RNA} Polymerase {II} core subunit {RPB-9} directs
transcriptional elongation at {piRNA} loci in Caenorhabditis
elegans",
author = "Berkyurek, Ahmet C and Furlan, Giulia and Lampersberger, Lisa and
Beltran, Toni and Weick, Eva-Maria and Nischwitz, Emily and
Navarro, Isabela Cunha and Braukmann, Fabian and Akay, Alper and
Price, Jonathan and Butter, Falk and Sarkies, Peter and Miska,
Eric A",
journal = "bioRxiv",
pages = "2020.05.01.070433",
month = may,
year = 2020,
url = "https://www.biorxiv.org/content/10.1101/2020.05.01.070433v1.abstract",
language = "en",
doi = "10.1101/2020.05.01.070433"
}

@UNPUBLISHED{Navarro2020-vx,
title = "Translational adaptation to heat stress is mediated by
5-methylcytosine {RNA} modification in Caenorhabditis elegans",
author = "Navarro, Isabela Cunha and Tuorto, Francesca and Jordan, David
and Legrand, Carine and Price, Jonathan and Braukmann, Fabian and
Hendrick, Alan and Akay, Alper and Kotter, Annika and Helm, Mark
and Lyko, Frank and Miska, Eric Alexander",
journal = "bioRxiv",
pages = "2020.03.21.001735",
month = mar,
year = 2020,
url = "https://www.biorxiv.org/content/10.1101/2020.03.21.001735v1",
language = "en",
doi = "10.1101/2020.03.21.001735"
}

@ARTICLE{Akay2019-ce,
title = "Identification of functional long non-coding {RNAs} in C. elegans",
author = "Akay, Alper and Jordan, David and Navarro, Isabela Cunha and
Wrzesinski, Tomasz and Ponting, Chris P and Miska, Eric A and
Haerty, Wilfried",
journal = "BMC biology",
volume = 17,
number = 1,
pages = "14",
month = feb,
year = 2019,
url = "http://dx.doi.org/10.1186/s12915-019-0635-7",
language = "en",
issn = "1741-7007",
pmid = "30777050",
doi = "10.1186/s12915-019-0635-7",
pmc = "PMC6378714"
}

@TECHREPORT{Sarabipour2018-cz,
title = "Maintaining confidence in the reporting of scientific outputs",
author = "Sarabipour, Sarvenaz and Wissink, Erin M and Burgess, Steven J
and Hensel, Zach and Debat, Humberto and Emmott, Edward and
Akay, Alper and Akdemir, Kadir and Schwessinger, Benjamin",
publisher = "PeerJ Inc.",
number = "e27098v1",
institution = "PeerJ Preprints",
month = aug,
year = 2018,
url = "https://peerj.com/preprints/27098/",
language = "en",
issn = "2167-9843",
doi = "10.7287/peerj.preprints.27098v1"
}

@ARTICLE{S_Sarabipour_EM_Wissink_SJ_Burgess_Z_Hensel_H_Debat_E_Emmott_A_Akay_KC_Akdemir_B_Schwessinger2018-fl,
title = "Preprints are good for science and good for the public",
author = "Sarabipour, Sarvenaz and Wissink, Erin M and Burgess, Steven J
and Hensel, Zach and Debat, Humberto and Emmott, Edward and
Akay, Alper and Akdemir, Kadir and Schwessinger, Benjamin",
journal = "Nature",
volume = 560,
number = 7720,
pages = "553",
month = aug,
year = 2018,
url = "http://dx.doi.org/10.1038/d41586-018-06054-4",
language = "en",
issn = "0028-0836, 1476-4687",
pmid = "30158619",
doi = "10.1038/d41586-018-06054-4"
}

@ARTICLE{Akay2017-jt,
title = "The Helicase {Aquarius/EMB-4} Is Required to Overcome Intronic
Barriers to Allow Nuclear {RNAi} Pathways to Heritably Silence
Transcription",
author = "Akay, Alper and Di Domenico, Tomas and Suen, Kin M and Nabih,
Amena and Parada, Guillermo E and Larance, Mark and Medhi, Ragini
and Berkyurek, Ahmet C and Zhang, Xinlian and Wedeles,
Christopher J and Rudolph, Konrad L M and Engelhardt, Jan and
Hemberg, Martin and Ma, Ping and Lamond, Angus I and Claycomb,
Julie M and Miska, Eric A",
journal = "Developmental cell",
volume = 42,
number = 3,
pages = "241--255.e6",
month = aug,
year = 2017,
url = "http://dx.doi.org/10.1016/j.devcel.2017.07.002",
language = "en",
issn = "1534-5807, 1878-1551",
pmid = "28787591",
doi = "10.1016/j.devcel.2017.07.002",
pmc = "PMC5554785"
}

@ARTICLE{Van_Delft2017-yp,
title = "The Profile and Dynamics of {RNA} Modifications in Animals",
author = "van Delft, Pieter and Akay, Alper and Huber, Sabrina M and
Bueschl, Christoph and Rudolph, Konrad L M and Di Domenico,
Tom{\'a}s and Schuhmacher, Rainer and Miska, Eric A and
Balasubramanian, Shankar",
journal = "Chembiochem: a European journal of chemical biology",
volume = 18,
number = 11,
pages = "979--984",
month = jun,
year = 2017,
url = "http://dx.doi.org/10.1002/cbic.201700093",
language = "en",
issn = "1439-4227, 1439-7633",
pmid = "28449301",
doi = "10.1002/cbic.201700093",
pmc = "PMC5784800"
}

@ARTICLE{Akay2015-ut,
title = "E. coli {OxyS} non-coding {RNA} does not trigger {RNAi} in C.
elegans",
author = "Akay, Alper and Sarkies, Peter and Miska, Eric A",
journal = "Scientific reports",
volume = 5,
pages = "9597",
month = apr,
year = 2015,
url = "http://dx.doi.org/10.1038/srep09597",
language = "en",
issn = "2045-2322",
pmid = "25873159",
doi = "10.1038/srep09597",
pmc = "PMC4397834"
}

@ARTICLE{Akay2013-so,
title = "{RNA-binding} protein {GLD-1/quaking} genetically interacts with
the mir-35 and the let-7 {miRNA} pathways in Caenorhabditis
elegans",
author = "Akay, Alper and Craig, Ashley and Lehrbach, Nicolas and Larance,
Mark and Pourkarimi, Ehsan and Wright, Jane E and Lamond, Angus
and Miska, Eric and Gartner, Anton",
journal = "Open biology",
volume = 3,
number = 11,
pages = "130151",
month = nov,
year = 2013,
url = "http://dx.doi.org/10.1098/rsob.130151",
language = "en",
issn = "2046-2441",
pmid = "24258276",
doi = "10.1098/rsob.130151",
pmc = "PMC3843822"
}

@ARTICLE{Gartner2013-jc,
title = "Stress response: anything that doesn't kill you makes you
stronger",
author = "Gartner, A and Akay, A",
journal = "Current biology: CB",
publisher = "Elsevier",
year = 2013,
url = "https://www.sciencedirect.com/science/article/pii/S0960982213011834",
issn = "0960-9822"
}

@ARTICLE{Feitsma2008-yf,
title = "Alkylation damage causes {MMR-dependent} chromosomal instability
in vertebrate embryos",
author = "Feitsma, Harma and Akay, Alper and Cuppen, Edwin",
journal = "Nucleic acids research",
volume = 36,
number = 12,
pages = "4047--4056",
month = jul,
year = 2008,
url = "http://dx.doi.org/10.1093/nar/gkn341",
language = "en",
issn = "0305-1048, 1362-4962",
pmid = "18522974",
doi = "10.1093/nar/gkn341",
pmc = "PMC2475609"
}