poo.bbl

\begin{thebibliography}{100}

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\newblock {\em The American Journal of Human Genetics}, 68(5):1302--1307, May
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\bibitem{Abramowitz2012}
Lara~K Abramowitz and Marisa~S Bartolomei.
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Holly~F Ainsworth, Jennifer Unwin, Deborah~L Jamison, and Heather~J Cordell.
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Hala Al~Adhami, Brendan Evano, Anne Le~Digarcher, Charlotte Gueydan, Emeric
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\newblock {HTSeq--a Python framework to work with high-throughput sequencing
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Martin~J Aryee, Andrew~E Jaffe, Hector Corrada-Bravo, Christine Ladd-Acosta,
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\bibitem{Babak2012}
Tomas Babak.
\newblock {Identification of imprinted loci by transcriptome sequencing.}
\newblock {\em Methods in molecular biology (Clifton, N.J.)}, 925:79--88, 2012.

\bibitem{Babak2008}
Tomas Babak, Brian DeVeale, Christopher Armour, Christopher Raymond, Michele~A
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\newblock {Global Survey of Genomic Imprinting by Transcriptome Sequencing}.
\newblock {\em Current Biology}, 18(22):1735--1741, November 2008.

\bibitem{Babak2015}
Tomas Babak, Brian DeVeale, Emily~K Tsang, Yiqi Zhou, Xin Li, Kevin~S Smith,
  Kim~R Kukurba, Rui Zhang, Jin~Billy Li, Derek van~der Kooy, Stephen~B
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\newblock {Genetic conflict reflected in tissue-specific maps of genomic
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\newblock {\em Nature genetics}, 47(5):544--549, May 2015.

\bibitem{Banovich:2014bn}
Nicholas~E Banovich, Xun Lan, Graham McVicker, Bryce van~de Geijn, Jacob~F
  Degner, John~D Blischak, Julien Roux, Jonathan~K Pritchard, and Yoav Gilad.
\newblock {Methylation QTLs are associated with coordinated changes in
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\newblock {\em PLoS genetics}, 10(9):e1004663, September 2014.

\bibitem{Baran:2015cx}
Yael Baran, Meena Subramaniam, Anne Biton, Taru Tukiainen, Emily~K Tsang,
  Manuel~A Rivas, Matti Pirinen, Maria Gutierrez-Arcelus, Kevin~S Smith, Kim~R
  Kukurba, Rui Zhang, Celeste Eng, Dara~G Torgerson, Cydney Urbanek, {GTEx
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  Max~A Seibold, Daniel~G MacArthur, Stephen~B Montgomery, Noah~A Zaitlen, and
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\newblock {The landscape of genomic imprinting across diverse adult human
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\newblock {\em Genome Research}, 25(7):927--936, July 2015.

\bibitem{Barlow:2014dv}
D~P Barlow and M~S Bartolomei.
\newblock {Genomic Imprinting in Mammals}.
\newblock {\em Cold Spring Harbor Perspectives in Biology},
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\bibitem{Benonisdottir:2016dz}
Stefania Benonisdottir, Asmundur Oddsson, Agnar Helgason, Ragnar~P
  Kristjansson, Gardar Sveinbjornsson, Arna Oskarsdottir, Gudmar Thorleifsson,
  Olafur~B Davidsson, Gudny~A Arnadottir, Gerald Sulem, Brynjar~O Jensson,
  Hilma Holm, Kristjan~F Alexandersson, Laufey Tryggvadottir, G~Bragi Walters,
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  Michael~L Frigge, Thorunn Rafnar, Augustine Kong, Gisli Masson, Hannes
  Helgason, Unnur Thorsteinsdottir, Daniel~F Gudbjartsson, Patrick Sulem, and
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\newblock {Epigenetic and genetic components of height regulation}.
\newblock {\em Nature Communications}, 7:13490, November 2016.

\bibitem{Boucher:2014gk}
Jeremie Boucher, Marika Charalambous, Kim Zarse, Marcelo~A Mori, Andre
  Kleinridders, Michael Ristow, Anne~C Ferguson-Smith, and C~Ronald Kahn.
\newblock {Insulin and insulin-like growth factor 1 receptors are required for
  normal expression of imprinted genes.}
\newblock {\em Proceedings of the National Academy of Sciences of the United
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\bibitem{Brideau:2010gz}
C~M Brideau, K~E Eilertson, J~A Hagarman, C~D Bustamante, and P~D Soloway.
\newblock {Successful Computational Prediction of Novel Imprinted Genes from
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\bibitem{Buiting:2010ci}
Karin Buiting.
\newblock {Prader-Willi syndrome and Angelman syndrome.}
\newblock {\em American journal of medical genetics. Part C, Seminars in
  medical genetics}, 154C(3):365--376, August 2010.

\bibitem{Canoy:2015ha}
D~Canoy, V~Beral, A~Balkwill, F~L Wright, M~E Kroll, G~K Reeves, J~Green, B~J
  Cairns, and {for the Million Women Study Collaborators*}.
\newblock {Age at Menarche and Risks of Coronary Heart and Other Vascular
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\bibitem{Chandra:1975tb}
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\bibitem{Chess:2016fs}
Andrew Chess.
\newblock {Monoallelic Gene Expression in Mammals}.
\newblock {\em Annual Review of Genetics}, 50(1):317--327, November 2016.

\bibitem{Choufani:2010ca}
Sanaa Choufani, Cheryl Shuman, and Rosanna Weksberg.
\newblock {Beckwith-Wiedemann syndrome.}
\newblock {\em American journal of medical genetics. Part C, Seminars in
  medical genetics}, 154C(3):343--354, August 2010.

\bibitem{Chuang:2017kp}
Trees-Juen Chuang, Yu-Hsiang Tseng, Chia-Ying Chen, and Yi-Da Wang.
\newblock {Assessment of imprinting- and genetic variation-dependent
  monoallelic expression using reciprocal allele descendants between human
  family trios}.
\newblock 7(1):1--12, July 2017.

\bibitem{Court:2014kc}
Franck Court, Chiharu Tayama, Valeria Romanelli, Alex Martin-Trujillo, Isabel
  Iglesias-Platas, Kohji Okamura, Naoko Sugahara, Carlos Sim{\'o}n, Harry
  Moore, Julie~V Harness, Hans Keirstead, Jose~Vicente Sanchez-Mut, Eisuke
  Kaneki, Pablo Lapunzina, Hidenobu Soejima, Norio Wake, Manel Esteller,
  Tsutomu Ogata, Kenichiro Hata, Kazuhiko Nakabayashi, and David Monk.
\newblock {Genome-wide parent-of-origin DNA methylation analysis reveals the
  intricacies of human imprinting and suggests a germline
  methylation-independent mechanism of establishment.}
\newblock {\em Genome Research}, 24(4):554--569, April 2014.

\bibitem{Crouse:1960vc}
H~V Crouse.
\newblock {The Controlling Element in Sex Chromosome Behavior in Sciara.}
\newblock {\em Genetics}, 45(10):1429--1443, October 1960.

\bibitem{Cusanovich:2016id}
Darren~A Cusanovich, Minal Caliskan, Christine Billstrand, Katelyn Michelini,
  Claudia Chavarria, Sherryl De~Leon, Amy Mitrano, Noah Lewellyn, Jack~A Elias,
  Geoffrey~L Chupp, Roberto~M Lang, Sanjiv~J Shah, Jeanne~M Decara, Yoav Gilad,
  and Carole Ober.
\newblock {Integrated analyses of gene expression and genetic association
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\newblock {\em Human Molecular Genetics}, 25(10):2104--2112, May 2016.

\bibitem{Daelemans:2010kc}
Caroline Daelemans, Matthew~E Ritchie, Guillaume Smits, Sayeda Abu-Amero, Ian~M
  Sudbery, Matthew~S Forrest, Susana Campino, Taane~G Clark, Philip Stanier,
  Dominic Kwiatkowski, Panos Deloukas, Emmanouil~T Dermitzakis, Simon
  Tavar{\'e}, Gudrun~E Moore, and Ian Dunham.
\newblock {High-throughput analysis of candidate imprinted genes and
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\newblock {\em BMC genetics}, 11(1):25, April 2010.

\bibitem{Demenais:2018hy}
Florence Demenais, Patricia Margaritte-Jeannin, Kathleen~C Barnes, William O~C
  Cookson, Janine Altm{\"u}ller, Wei Ang, R~Graham Barr, Terri~H Beaty, Allan~B
  Becker, John Beilby, Hans Bisgaard, Unnur~Steina Bjornsdottir, Eugene
  Bleecker, Klaus B{\o}nnelykke, Dorret~I Boomsma, Emmanuelle Bouzigon,
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  Vladimir Ivanov, Vincent W~V Jaddoe, Alan James, Christer Janson,
  Marjo-Riitta Jarvelin, Deborah Jarvis, Graham Jones, Ingileif Jonsdottir,
  Pekka Jousilahti, Michael Kabesch, Mika K{\"a}h{\"o}nen, David~B Kantor,
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  Arthur~W Musk, Rachel~A Myers, Maartje A~E Nieuwenhuis, Emiko Noguchi,
  George~T O{\textquoteright}Connor, Ludmila~M Ogorodova, Cameron~D Palmer,
  Aarno Palotie, Julie~E Park, Craig~E Pennell, G{\"o}ran Pershagen, Alexey
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  Kari Stefansson, David~P Strachan, Bruno~H Stricker, Atsushi Takahashi,
  Philip~J Thompson, Gudmar Thorleifsson, Unnur Thorsteinsdottir, Carla M~T
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  White, Magnus Wickman, Elisabeth Wid{\'e}n, Gonneke Willemsen, L~Keoki
  Williams, Inge~M Wouters, James~J Yang, Jing~Hua Zhao, Miriam~F Moffatt,
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\newblock {Multiancestry association study identifies new asthma risk loci that
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\newblock {\em Nature genetics}, 50(1):42--53, January 2018.

\bibitem{Dobin:2002by}
Alexander Dobin and Thomas~R Gingeras.
\newblock {\em {Mapping RNA-seq Reads with STAR}}, volume~29 of {\em Mapping
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\newblock John Wiley {\&} Sons, Inc., Hoboken, NJ, USA, August 2002.

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Louise~E Docherty, Faisal~I Rezwan, Rebecca~L Poole, Hannah Jagoe, Hannah Lake,
  Gabrielle~A Lockett, Hasan Arshad, David~I Wilson, John~W Holloway, I~Karen
  Temple, and Deborah J~G Mackay.
\newblock {Genome-wide DNA methylation analysis of patients with imprinting
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\newblock {\em Journal of medical genetics}, 51(4):229--238, April 2014.

\bibitem{Du:2008ev}
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Thomas Eggermann.
\newblock {Russell-Silver syndrome.}
\newblock {\em American journal of medical genetics. Part C, Seminars in
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Evan~E Eichler, Jonathan Flint, Greg Gibson, Augustine Kong, Suzanne~M Leal,
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\newblock {Missing heritability and strategies for finding the underlying
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\newblock {\em Nature reviews. Genetics}, 11(6):446--450, June 2010.

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Francesca~Marta Elli, Agnes Linglart, Intza Garin, Luisa de~Sanctis, Paolo
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\newblock {The Prevalence of GNAS Deficiency-Related Diseases in a Large Cohort
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\newblock {\em The Journal of clinical endocrinology and metabolism},
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J~Greg Falls, David~J Pulford, Andrew~A Wylie, and Randy~L Jirtle.
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\newblock {\em The American Journal of Pathology}, 154(3):635--647, March 1999.

\bibitem{Fountain:2017dd}
Michael~D Fountain, Emmelien Aten, Megan~T Cho, Jane Juusola, Magdalena~A
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\newblock {\em Annual Review of Ecology and Systematics}, 31(1):9--32, November
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Ann-Kathrin Hoffmann, Xenia Naj, and Stefan Linder.
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Catherine Igartua, Sahar~V Mozaffari, Dan~L Nicolae, and Carole Ober.
\newblock {Rare non-coding variants are associated with plasma lipid traits in
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\newblock {\em Scientific reports}, 7(1):16415, November 2017.

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Yiannis Ioannides, Kemi Lokulo-Sodipe, Deborah J~G Mackay, Justin~H Davies, and
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\newblock {Temple syndrome: improving the recognition of an underdiagnosed
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\newblock {\em Journal of medical genetics}, 51(8):495--501, August 2014.

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\newblock {Imprinted and More Equal}.
\newblock {\em American Scientist}, 95(2):143, 2007.

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\bibitem{Joshi:2016bb}
Ricky~S Joshi, Paras Garg, Noah Zaitlen, Tuuli Lappalainen, Corey~T Watson,
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\newblock {DNA Methylation Profiling of Uniparental Disomy Subjects Provides a
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\newblock {\em American journal of human genetics}, 99(3):555--566, September
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Goo Jun, Matthew Flickinger, Kurt~N Hetrick, Jane~M Romm, Kimberly~F Doheny,
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\newblock {Detecting and Estimating Contamination of Human DNA Samples in
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\newblock {\em The American Journal of Human Genetics}, 91(5):839--848,
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\bibitem{Kagami:2015gn}
Masayo Kagami, Kenji Kurosawa, Osamu Miyazaki, Fumitoshi Ishino, Kentaro
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\newblock {Comprehensive clinical studies in 34 patients with molecularly
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\newblock {\em European Journal of Human Genetics}, 23(11):1488--1498, November
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\bibitem{Kagami:2017gp}
Masayo Kagami, Keiko Matsubara, Kazuhiko Nakabayashi, Akie Nakamura, Shinichiro
  Sano, {MD}, Kohji Okamura, {PhD1}, Kenichiro Hata, Maki Fukami, Tsutomu
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\newblock {Genome-wide multilocus imprinting disturbance analysis in Temple
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\newblock {\em Genetics in medicine : official journal of the American College
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\bibitem{Kalish:2014gd}
Jennifer~M Kalish, Connie Jiang, and Marisa~S Bartolomei.
\newblock {Epigenetics and imprinting in human disease.}
\newblock {\em The International journal of developmental biology},
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\bibitem{Kang:2015ko}
Lihua Kang, Jingnan Sun, Xue Wen, Jiuwei Cui, Guanjun Wang, Andrew~R Hoffman,
  Ji-Fan Hu, and Wei Li.
\newblock {Aberrant allele-switch imprinting of a novel IGF1R intragenic
  antisense non-coding RNA in breast cancers.}
\newblock {\em European journal of cancer (Oxford, England : 1990)},
  51(2):260--270, January 2015.

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Augustine Kong, Valgerdur Steinthorsdottir, Gisli Masson, Gudmar Thorleifsson,
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  Astradur~B Hreidarsson, Gunnar Sigurdsson, {DIAGRAM Consortium}, Anne~C
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\newblock {Parental origin of sequence variants associated with complex
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\newblock {\em Nature}, 462(7275):868--874, December 2009.

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