Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes

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1. The UCSC Genome Browser
   Donna Karolchik, Angie S. Hinrichs, William James Kent · 2009 · Current Protocols in Bioinformatics
2. Fast, scalable prediction of deleterious noncoding variants from functional and population genomic data
   Yi-Fei Huang, Brad Gulko, Adam C. Siepel · 2017 · Nature Genetics
3. Target enrichment of ultraconserved elements from arthropods provides a genomic perspective on relationships among H ymenoptera
   Brant C. Faircloth, Michael G. Branstetter, Noor D. White, Seán G. Brady · 2014 · Molecular Ecology Resources
4. Extensive translation of small Open Reading Frames revealed by Poly-Ribo-Seq
   Julie L. Aspden, Ying Chen Eyre‐Walker, Rose J Phillips, Unum Amin, Muhammad Ali Mumtaz, Michèle Brocard, Juan Pablo Couso · 2014 · eLife
5. FOXC2 controls formation and maturation of lymphatic collecting vessels through cooperation with NFATc1
   Norrmén, Camilla, Ivanov, Konstantin I., Cheng, Jianpin, Zangger, Nadine, Delorenzi, Mauro, Jaquet, Muriel, Miura, Naoyuki, Puolakkainen, Pauli, Horsley, Valerie, Hu, Junhao et al. · 2009 · Journal of Cell Biology
6. A Phylogeny of Birds Based on Over 1,500 Loci Collected by Target Enrichment and High-Throughput Sequencing
   John E. McCormack, Michael G. Harvey, Brant C. Faircloth, Nicholas G. Crawford, Travis C. Glenn, Robb Thomas Brumfield · 2013 · PLoS ONE
7. KLHL3 mutations cause familial hyperkalemic hypertension by impairing ion transport in the distal nephron
   Hélène Louis-Dit-Picard, Julien Barc, Daniel Trujillano, Stéphanie Miserey‐Lenkei, Nabila Bouatia‐Naji, Olena Pylypenko, Geneviève Beaurain, Amélie Bonnefond, Olivier Sand, Christophe Simian et al. · 2012 · Nature Genetics
8. Analysis of CDS-located miRNA target sites suggests that they can effectively inhibit translation
   Jean Hausser, Afzal P Syed, Biter Bilen, Mihaela Zavolan · 2013 · Genome Research
9. Posttranscriptional Regulation of miRNAs Harboring Conserved Terminal Loops
   Gracjan Michlewski, Sònia Guil, Colin A M Semple, Javier F. Cáceres · 2008 · Molecular Cell
10. Pervasive Natural Selection in the Drosophila Genome?
    Guy Sella, Dmitri A. Petrov, Molly Przeworski, Peter Andolfatto · 2009 · PLoS Genetics
11. 5mC Oxidation by Tet2 Modulates Enhancer Activity and Timing of Transcriptome Reprogramming during Differentiation
    Gary C. Hon, Chun‐Xiao Song, Tingting Du, Fulai Jin, Siddarth Selvaraj, Ah Young Lee, Chia‐An Yen, Zhen Ye, Shi-Qing Mao, Bang-An Wang et al. · 2014 · Molecular Cell
12. Genomic Flatlining in the Endangered Island Fox
    Jacqueline A. Robinson, Diego Ortega‐Del Vecchyo, Zhenxin Fan, Bernard Y. Kim, Bridgett M. vonHoldt, Clare Diana Marsden, Kirk E. Lohmueller, Robert K. Wayne · 2016 · Current Biology
13. Identification of rare-disease genes using blood transcriptome sequencing and large control cohorts
    Undiagnosed Diseases Network, Frésard, Laure, Care4Rare Canada Consortium, Smail, Craig, Ferraro, Nicole M., Teran, Nicole A., Li, Xin, Smith, Kevin S., Bonner, Devon, Kernohan, Kristin D. et al. · 2019 · Nature Medicine
14. SMAUG Is a Major Regulator of Maternal mRNA Destabilization in Drosophila and Its Translation Is Activated by the PAN GU Kinase
    Tadros, Wael, Goldman, Aaron L., Babak, Tomas, Menzies, Fiona, Vardy, Leah, Orr-Weaver, Terry, Hughes, Timothy R., Westwood, J. Timothy, Smibert, Craig A., Lipshitz, Howard D. · 2007 · Developmental Cell
15. Tight Junction–associated MARVEL Proteins MarvelD3, Tricellulin, and Occludin Have Distinct but Overlapping Functions
    David Ronan Raleigh, Amanda M. Marchiando, Yong Zhang, Le Shen, Hiroyuki Sasaki, Yingmin Wang, Manyuan Long, Jerrold R. Turner · 2010 · Molecular Biology of the Cell
16. Ultraconservation identifies a small subset of extremely constrained developmental enhancers
    Axel Visel, Shyam Prabhakar, Jennifer A Akiyama, Malak Shoukry, Keith D Lewis, Amy Holt, Ingrid Plajzer-Frick, Veena Afzal, Edward M Rubin, Len A. Pennacchio · 2008 · Nature Genetics
17. Hepatitis B virus X protein (HBx)-related long noncoding RNA (lncRNA) down-regulated expression by HBx (Dreh) inhibits hepatocellular carcinoma metastasis by targeting the intermediate filament protein vimentin
    Jinfeng Huang, Yingjun Guo, Chenxi Zhao, Shengxian Yuan, Yue Wang, Guannan Tang, Weiping Zhou, Shuhan Sun · 2012 · Hepatology
18. The p53-p21-DREAM-CDE/CHR pathway regulates G 2 /M cell cycle genes
    Martin Fischer, Marianne Quaas, Lydia Steiner, Kurt Engeland · 2015 · Nucleic Acids Research
19. Græmlin: General and robust alignment of multiple large interaction networks
    Jason A. Flannick, Antal F. Novak, Balaji S. Srinivasan, Harley H. McAdams, Serafim Batzoglou · 2006 · Genome Research
20. Coordinated regulation of neuronal mRNA steady-state levels through developmentally controlled intron retention
    Yap, Karen, Lim, Zhao Qin, Khandelia, Piyush, Friedman, Brad, Makeyev, Eugene V. · 2012 · Genes & Development
21. The Genome 10K Project: A Way Forward
    Koepfli, Klaus-Peter, Paten, Benedict, the Genome 10K Community of Scientists, O’Brien, Stephen J. · 2015 · Annual Review of Animal Biosciences
22. Genome-wide de novo risk score implicates promoter variation in autism spectrum disorder
    An, Joon-Yong, Lin, Kevin, Zhu, Lingxue, Werling, Donna M., Dong, Shan, Brand, Harrison, Wang, Harold Z., Zhao, Xuefang, Schwartz, Grace B., Collins, Ryan L. et al. · 2018 · Science
23. Inferring and perturbing cell fate regulomes in human brain organoids
    Fleck, Jonas Simon, Jansen, Sophie Martina Johanna, Wollny, Damian, Zenk, Fides, Seimiya, Makiko, Jain, Akanksha, Okamoto, Ryoko, Santel, Malgorzata, He, Zhisong, Camp, J. Gray et al. · 2023 · Nature
24. Splicing factor SFRS1 recognizes a functionally diverse landscape of RNA transcripts
    Jeremy R. Sanford, Xin Wang, Matthew E. Mort, Natalia VanDuyn, D.N. Cooper, Sean David Mooney, Howard J. Edenberg, Yunlong Liu · 2008 · Genome Research
25. High-resolution genome-wide in vivo footprinting of diverse transcription factors in human cells
    Alan P. Boyle, Lingyun Song, Bum‐Kyu Lee, Darin London, Damian Keefe, Ewan Birney, Vishwanath R. Iyer, Gregory E. Crawford, Terrence S. Furey · 2010 · Genome Research
26. Gene regulatory networks
    Eric Davidson, Michael G. Levin · 2005 · Proceedings of the National Academy of Sciences
27. Mapping and characterization of structural variation in 17,795 human genomes
    NHGRI Centers for Common Disease Genomics, Abel, Haley J., Larson, David E., Regier, Allison A., Chiang, Colby, Das, Indraniel, Kanchi, Krishna L., Layer, Ryan M., Neale, Benjamin M., Salerno, William J. et al. · 2020 · Nature
28. The RIDL hypothesis: transposable elements as functional domains of long noncoding RNAs
    Rory Johnson, Roderic Guigó · 2014 · RNA
29. MIWI and piRNA-mediated cleavage of messenger RNAs in mouse testes
    Peng Zhang, Jun-Yan Kang, Lan‐Tao Gou, Jiajia Wang, Yuanchao Xue, Geir Skogerboe, Peng Dai, Da‐Wei Huang, Runsheng Chen, Xiang‐Dong Fu et al. · 2015 · Cell Research
30. WormBase: a modern Model Organism Information Resource
    Todd W. Harris, Valerio Arnaboldi, Scott Cain, Juancarlos Chan, Wen J. Chen, Jaehyoung Cho, Paul Andrew Davis, Sibyl Gao, Christian A Grove, Ranjana Kishore et al. · 2019 · Nucleic Acids Research
31. UTRdb and UTRsite (RELEASE 2010): a collection of sequences and regulatory motifs of the untranslated regions of eukaryotic mRNAs
    Giorgio Grillo, Antonio Turi, Flavio Licciulli, Flavio Mignone, Sabino Liuni, Sandro Banfi, Vincenzo Alessandro Gennarino, David Stephen Horner, Giulio Pavesi, Ernesto Picardi et al. · 2009 · Nucleic Acids Research
32. Identification of novel peptide hormones in the human proteome by hidden Markov model screening
    Olivier Mirabeau, Emerald Perlas, Cinzia Severini, Enrica Audero, Olivier Gascuel, Roberta Possenti, Ewan Birney, Nadia A Rosenthal, Cornelius Thilo Gross · 2007 · Genome Research
33. Systematic discovery of regulatory motifs in conserved regions of the human genome, including thousands of CTCF insulator sites
    Xie, Xiaohui, Mikkelsen, Tarjei S., Gnirke, Andreas, Lindblad-Toh, Kerstin, Kellis, Manolis, Lander, Eric S. · 2007 · Proceedings of the National Academy of Sciences
34. CeNDR, the Caenorhabditis elegans natural diversity resource
    Daniel E. Cook, Stefan Zdraljevic, Joshua P. Roberts, Erik C. Andersen · 2016 · Nucleic Acids Research
35. Transcriptional diversity during lineage commitment of human blood progenitors
    Lu Chen, Myrto A. Kostadima, Joost H.A. Martens, Giovanni Canu, Sara P. Garcia, Ernest Turro, Kate Downes, Iain C. Macaulay, Ewa Bielczyk-Maczyńska, S. Coe et al. · 2014 · Science
36. m6A-Atlas: a comprehensive knowledgebase for unraveling theN6-methyladenosine (m6A) epitranscriptome
    Yujiao Tang, Kunqi Chen, Bowen Song, Jiongming Ma, Xiangyu Wu, Qingru Xu, Zhen Cheng Wei, Jionglong Su, Gang Liu, Rong Rong et al. · 2020 · Nucleic Acids Research
37. MicroRNA, mRNA, and protein expression link development and aging in human and macaque brain
    Somel, Mehmet, Guo, Song, Fu, Ning, Yan, Zheng, Hu, Hai Yang, Xu, Ying, Yuan, Yuan, Ning, Zhibin, Hu, Yuhui, Menzel, Corinna et al. · 2010 · Genome Research
38. Hidden layers of human small RNAs
    Hideya Kawaji, Mari Nakamura, Yukari Takahashi, Albin Sandelin, Shintaro Katayama, Shiro Fukuda, Carsten O. Daub, Chikatoshi Kai, Jun Kawai, Jun Yasuda et al. · 2008 · BMC Genomics
39. Whole-genome association study identifies <i>STK39</i> as a hypertension susceptibility gene
    Wang, Ying, O'Connell, Jeffrey R., McArdle, Patrick F., Wade, James B., Dorff, Sarah E., Shah, Sanjiv J., Shi, Xiaolian, Pan, Lin, Rampersaud, Evadnie, Shen, Haiqing et al. · 2009 · Proceedings of the National Academy of Sciences
40. Recessive mutations in a distal PTF1A enhancer cause isolated pancreatic agenesis
    Michael N. Weedon, Inês Cebola, Ann‐Marie Patch, Sarah Elizabeth Flanagan, Elisa De Franco, Richard C. Caswell, Santiago A. Rodríguez‐Seguí, Charles J Shaw-Smith, Candy H.-H. Cho, Hana Lango Allen et al. · 2013 · Nature Genetics
41. An analytical framework for whole-genome sequence association studies and its implications for autism spectrum disorder
    Werling, Donna M., Brand, Harrison, An, Joon-Yong, Stone, Matthew R., Zhu, Lingxue, Glessner, Joseph T., Collins, Ryan L., Dong, Shan, Layer, Ryan M., Markenscoff-Papadimitriou, Eirene et al. · 2018 · Nature Genetics
42. Noncoding RNAs and RNA Editing in Brain Development, Functional Diversification, and Neurological Disease
    Mark F. Mehler, John S. Mattick · 2007 · Physiological Reviews
43. A lncRNA regulates alternative splicing via establishment of a splicing-specific chromatin signature
    Inma González, Roberto Munita, Eneritz Agirre, Travis A. Dittmer, Katia Gysling, Tom Misteli, Reini F. Luco · 2015 · Nature Structural & Molecular Biology
44. Comprehensive discovery of endogenous Argonaute binding sites in Caenorhabditis elegans
    Dimitrios G. Zisoulis, Michael Lovci, Melissa L. Wilbert, Kasey R. Hutt, Tiffany Y Liang, Amy E. Pasquinelli, Gene Wei-Ming Yeo · 2010 · Nature Structural & Molecular Biology
45. SMARCB1 is required for widespread BAF complex–mediated activation of enhancers and bivalent promoters
    Robert T. Nakayama, John L. Pulice, Alfredo M. Valencia, Matthew J. McBride, Zachary M. McKenzie, Mark A. K. Gillespie, Wai Lim Ku, Mingxiang Teng, Kairong Cui, Robert T Williams et al. · 2017 · Nature Genetics
46. All SNPs Are Not Created Equal: Genome-Wide Association Studies Reveal a Consistent Pattern of Enrichment among Functionally Annotated SNPs
    Andrew Joseph Schork, Wesley Kurt Thompson, Phillip Pham, Ali Torkamani, J. Cooper Roddey, Patrick F. Sullivan, John R. Kelsoe, Michael C. O’Donovan, Helena Furberg, Nicholas J. Schork et al. · 2013 · PLoS Genetics
47. Purging of highly deleterious mutations through severe bottlenecks in Alpine ibex
    Christine Grossen, Frédéric Guillaume, Lukas F. Keller, Daniel Croll · 2020 · Nature Communications
48. Promoter-proximal CTCF binding promotes distal enhancer-dependent gene activation
    Kubo, Naoki, Ishii, Haruhiko, Xiong, Xiong, Bianco, Simona, Meitinger, Franz, Hu, Rong, Hocker, James D., Conte, Mattia, Gorkin, David, Yu, Miao et al. · 2021 · Nature Structural &amp; Molecular Biology
49. Transposable elements are the primary source of novelty in primate gene regulation
    Marco Trizzino, YoSon Park, Márcia Holsbach Beltrame, Katherine A Aracena, Katelyn M. Mika, Minal Çalışkan, George H. Perry, Vincent J. Lynch, Christopher D. Brown · 2017 · Genome Research
50. Sequence capture of ultraconserved elements from bird museum specimens
    John E. McCormack, Whitney L. E. Tsai, Brant C. Faircloth · 2015 · Molecular Ecology Resources
51. U2AF1 mutations alter splice site recognition in hematological malignancies
    Janine O. Ilagan, Aravind Ramakrishnan, Brian J. Hayes, Michele E. Murphy, Ahmad S. Zebari, Philip H Bradley, Robert K. Bradley · 2014 · Genome Research
52. Convergent regulatory evolution and loss of flight in paleognathous birds
    Timothy B. Sackton, Phil Grayson, Alison Cloutier, Zhirui Hu, Jun S. Liu, Nicole E. Wheeler, Paul P. Gardner, Julia A. Clarke, Allan J. Baker, Michele E. Clamp et al. · 2019 · Science
53. G-Quadruplex DNA Sequences Are Evolutionarily Conserved and Associated with Distinct Genomic Features in Saccharomyces cerevisiae
    John A. Capra, Katrin Paeschke, Mona Singh, Virginia A. Zakian · 2010 · PLoS Computational Biology
54. Therapeutic base editing of human hematopoietic stem cells
    Jing Zeng, Yuxuan Wu, Chunyan Ren, Jasmine Bonanno, Anne H. Shen, Devlin N. Shea, Jason M. Gehrke, Kendell Clement, Kevin Luk, Qiuming Yao et al. · 2020 · Nature Medicine
55. Single-cell brain organoid screening identifies developmental defects in autism
    Li, Chong, Fleck, Jonas Simon, Martins-Costa, Catarina, Burkard, Thomas R., Themann, Jan, Stuempflen, Marlene, Peer, Angela Maria, Vertesy, Ábel, Littleboy, Jamie B., Esk, Christopher et al. · 2023 · Nature
56. A Family of Human MicroRNA Genes from Miniature Inverted-Repeat Transposable Elements
    Piriyapongsa, Jittima, Jordan, I. King · 2007 · PLoS ONE
57. A gene regulatory network in mouse embryonic stem cells
    Qing Zhou, Hiram Chipperfield, Douglas A. Melton, Wing Hung Wong · 2007 · Proceedings of the National Academy of Sciences
58. Global changes in the nuclear positioning of genes and intra- and interdomain genomic interactions that orchestrate B cell fate
    Lin, Yin C, Benner, Christopher, Mansson, Robert, Heinz, Sven, Miyazaki, Kazuko, Miyazaki, Masaki, Chandra, Vivek, Bossen, Claudia, Glass, Christopher K, Murre, Cornelis · 2012 · Nature Immunology
59. The UCSC genome browser database: update 2007
    Robert M. Kuhn, Donna Karolchik, Ann S. Zweig, Heather Trumbower, D. J. Thomas, A. Thakkapallayil, Charles W. Sugnet, Mario Stanke, Kayla E. Smith, Adam C. Siepel et al. · 2006 · Nucleic Acids Research
60. De novo mutations in regulatory elements in neurodevelopmental disorders
    Short, Patrick J., McRae, Jeremy F., Gallone, Giuseppe, Sifrim, Alejandro, Won, Hyejung, Geschwind, Daniel H., Wright, Caroline F., Firth, Helen V., FitzPatrick, David R., Barrett, Jeffrey C. et al. · 2018 · Nature
61. Association of a functional variant downstream of TNFAIP3 with systemic lupus erythematosus
    Adrianto, Indra, Wen, Feng, Templeton, Amanda, Wiley, Graham, King, Jarrod B, Lessard, Christopher J, Bates, Jared S, Hu, Yanqing, Kelly, Jennifer A, Kaufman, Kenneth M et al. · 2011 · Nature Genetics
62. A method for calculating probabilities of fitness consequences for point mutations across the human genome
    Brad Gulko, Melissa J. Hubisz, Ilan Gronau, Adam C. Siepel · 2015 · Nature Genetics
63. 28-Way vertebrate alignment and conservation track in the UCSC Genome Browser
    Webb Miller, Kate R. Rosenbloom, Ross C. Hardison, Minmei Hou, James Taylor, Brian J. Raney, Richard C. Burhans, David C. King, Robert Baertsch, Daniel J Blankenberg et al. · 2007 · Genome Research
64. Amphioxus functional genomics and the origins of vertebrate gene regulation
    Ferdinand Marlétaz, Panos Firbas, Ignacio Maeso, Juan J. Tena, Ozren Bogdanović, Malcolm Perry, Christopher D. R. Wyatt, Elisa de la Calle‐Mustienes, Stéphanie Bertrand, Demián Burguera et al. · 2018 · Nature
65. Genetic Control of Expression and Splicing in Developing Human Brain Informs Disease Mechanisms
    Rebecca L. Walker, Gokul Ramaswami, Christopher Hartl, Nicholas Mancuso, Michael J. Gandal, Luis de la Torre-Ubieta, Bogdan Paşaniuc, Jason L. Stein, Daniel H. Geschwind · 2019 · Cell
66. Machine Learning in Genomic Medicine: A Review of Computational Problems and Data Sets
    Michael K. K. Leung, Andrew Delong, Babak Alipanahi, Brendan J. Frey · 2015 · Proceedings of the IEEE
67. NRED: a database of long noncoding RNA expression
    Marcel E. Dinger, Ken C. Pang, Tim R. Mercer, Mark Louis Crowe, Sean Michael Grimmond, John S. Mattick · 2008 · Nucleic Acids Research
68. Comparative Analysis of mRNA Targets for Human PUF-Family Proteins Suggests Extensive Interaction with the miRNA Regulatory System
    Alessia Galgano, Michael Forrer, Łukasz Jaśkiewicz, Alexander Kanitz, Mihaela Zavolan, André P. Gerber · 2008 · PLoS ONE
69. Prostate cancer reactivates developmental epigenomic programs during metastatic progression
    Mark M. Pomerantz, Xintao Qiu, Yanyun Zhu, David Yoshio Takeda, Wenting Pan, Sylvan C. Baca, Alexander Gusev, Keegan D. Korthauer, Tesa Severson, Gavin Ha et al. · 2020 · Nature Genetics
70. Patterns of coding variation in the complete exomes of three Neandertals
    Castellano, Sergi, Parra, Genís, Sánchez-Quinto, Federico A., Racimo, Fernando, Kuhlwilm, Martin, Kircher, Martin, Sawyer, Susanna, Fu, Qiaomei, Heinze, Anja, Nickel, Birgit et al. · 2014 · Proceedings of the National Academy of Sciences
71. MirSNP, a database of polymorphisms altering miRNA target sites, identifies miRNA-related SNPs in GWAS SNPs and eQTLs
    Liu, Chenxing, Zhang, Fuquan, Li, Tingting, Lu, Ming, Wang, Lifang, Yue, Weihua, Zhang, Dai · 2012 · BMC Genomics
72. Evolutionary constraint and innovation across hundreds of placental mammals
    Matthew J. Christmas, Irene M. Kaplow, Diane P. Genereux, Michael X. Dong, Graham M. Hughes, Xue Li, Patrick F. Sullivan, Allyson G. Hindle, Gregory Andrews, Joel C. Armstrong et al. · 2023 · Science
73. Saturation mutagenesis of twenty disease-associated regulatory elements at single base-pair resolution
    Kircher, Martin, Xiong, Chenling, Martin, Beth, Schubach, Max, Inoue, Fumitaka, Bell, Robert J. A., Costello, Joseph F., Shendure, Jay, Ahituv, Nadav · 2019 · Nature Communications
74. Dynamic incorporation of multiple in silico functional annotations empowers rare variant association analysis of large whole-genome sequencing studies at scale
    Xihao Li, Zilin Li, Hufeng Zhou, Sheila M. Gaynor, Yaowu Liu, Han Chen, Ryan Sun, Rounak Dey, Donna K. Arnett, Stella W. Aslibekyan et al. · 2020 · Nature Genetics
75. Hypoxia Promotes Glycogen Accumulation through Hypoxia Inducible Factor (HIF)-Mediated Induction of Glycogen Synthase 1
    Nuria Pescador, Diego Villar, Daniel Cifuentes, Mar Garcı́a-Rocha, Amaya Ortiz-Barahona, Silvia Vázquez, Ángel Ordóñez, Yolanda Cuevas, David Saez-Morales, Laura García‐Bermejo et al. · 2010 · PLoS ONE
76. Delay in Feedback Repression by Cryptochrome 1 Is Required for Circadian Clock Function
    Maki Ukai‐Tadenuma, Rikuhiro G. Yamada, Haiyan Xu, Jürgen A. Ripperger, Andrew C. Liu, Hiroki R. Ueda · 2011 · Cell
77. Cold-Inducible RNA-Binding Protein Modulates Circadian Gene Expression Posttranscriptionally
    Jörg Morf, Guillaume Rey, Kim Schneider, Markus Stratmann, Jun Fujita, Félix Naef, Ueli Schibler · 2012 · Science
78. Large-scale discovery of enhancers from human heart tissue
    Dalit May, Matthew J. Blow, Tommy Kaplan, David J. McCulley, Brian C. Jensen, Jennifer A. Akiyama, Amy Holt, Ingrid Plajzer-Frick, Malak I. Shoukry, Crystal Wright et al. · 2011 · Nature Genetics
79. A Recent Evolutionary Change Affects a Regulatory Element in the Human FOXP2 Gene
    Tomislav Maričić, Viola Günther, Oleg Georgiev, Sabine Gehre, Marija Ćurlin, Christiane Schreiweis, Ronald Naumann, Hernán A. Burbano, Matthias Meyer, Carles Lalueza‐Fox et al. · 2012 · Molecular Biology and Evolution
80. Cactus: Algorithms for genome multiple sequence alignment
    Paten, Benedict, Earl, Dent, Nguyen, Ngan, Diekhans, Mark, Zerbino, Daniel, Haussler, David · 2011 · Genome Research
81. Clinical whole-genome sequencing in severe early-onset epilepsy reveals new genes and improves molecular diagnosis
    Hilary C. Martin, Grace J. Kim, Alistair T. Pagnamenta, Yoshiko Murakami, Gemma L. Carvill, Esther Meyer, Richard R. Copley, Andy Rimmer, Giulia Barcia, Matthew R. Fleming et al. · 2014 · Human Molecular Genetics
82. The impact of rare variation on gene expression across tissues
    Xin Li, Yungil Kim, Emily K. Tsang, Joe R. Davis, Farhan N. Damani, Colby Chiang, Gaelen T. Hess, Zachary Zappala, Benjamin J. Strober, Alexandra J. Scott et al. · 2017 · Nature
83. FoxO1 regulates Tlr4 inflammatory pathway signalling in macrophages
    WuQiang Fan, Hidetaka Morinaga, Jane J. Kim, Eunju Bae, Nathanael J. Spann, Sven Heinz, Christopher K. Glass, Jerrold M. Olefsky · 2010 · The EMBO Journal
84. Mouse regulatory DNA landscapes reveal global principles of cis-regulatory evolution
    Jeff D. Vierstra, Eric Rynes, Richard S. Sandstrom, Miaohua Zhang, Theresa K. Canfield, R. Scott Hansen, Sandra Stehling-Sun, Peter J. Sabo, Rachel Byron, Richard Humbert et al. · 2014 · Science
85. Genome-wide computational prediction of transcriptional regulatory modules reveals new insights into human gene expression
    Mathieu Blanchette, Alain R. Bataille, Xiaoyu Chen, Christian Poitras, Josée Laganière, Céline Lefèbvre, Geneviève Deblois, Vincent Giguère, Vincent Ferretti, Dominique Bergeron et al. · 2006 · Genome Research
86. A High-Resolution Enhancer Atlas of the Developing Telencephalon
    Visel, Axel, Taher, Leila, Girgis, Hani, May, Dalit, Golonzhka, Olga, Hoch, Renee V., McKinsey, Gabriel L., Pattabiraman, Kartik, Silberberg, Shanni N., Blow, Matthew J. et al. · 2013 · Cell
87. Sequence Capture versus Restriction Site Associated DNA Sequencing for Shallow Systematics
    Michael G. Harvey, Brian Tilston Smith, Travis C. Glenn, Brant C. Faircloth, Robb Thomas Brumfield · 2016 · Systematic Biology
88. Evaluating the biological relevance of putative enhancers using Tol2 transposon-mediated transgenesis in zebrafish
    Shannon Fisher, Elizabeth A. Grice, Ryan M. Vinton, Seneca L. Bessling, Akihiro Urasaki, Koichi Kawakami, Andrew S. McCallion · 2006 · Nature Protocols
89. Catalogues of mammalian long noncoding RNAs: modest conservation and incompleteness
    Ana Claudia Marques, Chris Paul Ponting · 2009 · Genome biology
90. Pan-Cancer Analysis of lncRNA Regulation Supports Their Targeting of Cancer Genes in Each Tumor Context
    Hua‐Sheng Chiu, Sonal Somvanshi, Ektaben Patel, Ting-Wen Chen, Vivek Singh, Barry Zorman, Sagar L. Patil, Yinghong Pan, Sujash S. Chatterjee, Rory Johnson et al. · 2018 · Cell Reports
91. Long noncoding RNA genes: conservation of sequence and brain expression among diverse amniotes
    Rebecca A. Chodroff, Leo Goodstadt, Tamara Sirey, Peter L. Oliver, Kay Elizabeth Davies, Eric D. Green, Zoltán Molnár, Chris P. Ponting · 2010 · Genome biology
92. Genome-wide discovery of human splicing branchpoints
    Tim R. Mercer, Michael B. Clark, Stacey B. Andersen, Marion E. G. Brunck, Wilfried Haerty, Joanna Crawford, Ryan J. Taft, Lars Keld Nielsen, Marcel E. Dinger, John S. Mattick · 2015 · Genome Research
93. A beak size locus in Darwin’s finches facilitated character displacement during a drought
    Sangeet Lamichhaney, Han Fan, Jonas Berglund, Chao Wang, Markus Sällman Almén, Matthew T. Webster, B. Rosemary Grant, Peter Raymond Grant, Leif Andersson · 2016 · Science
94. Social insect genomes exhibit dramatic evolution in gene composition and regulation while preserving regulatory features linked to sociality
    Daniel F. Simola, Lothar Wissler, Greg Donahue, Robert Michael Waterhouse, Martin Helmkampf, Julien Roux, Sanne Nygaard, Karl M. Glastad, Darren E. Hagen, Lumi Viljakainen et al. · 2013 · Genome Research
95. Transcriptome-wide sequencing reveals numerous APOBEC1 mRNA-editing targets in transcript 3′ UTRs
    Brad R. Rosenberg, Claire Hamilton, Michael M. Mwangi, Scott B. Dewell, Fotini Nina Papavasiliou · 2011 · Nature Structural & Molecular Biology
96. 8.2% of the Human Genome Is Constrained: Variation in Rates of Turnover across Functional Element Classes in the Human Lineage
    Chris M. Rands, Stephen Meader, Chris P. Ponting, Gerton A. Lunter · 2014 · PLoS Genetics
97. Thousands of human mobile element fragments undergo strong purifying selection near developmental genes
    Craig B. Lowe, Gill Bejerano, David H. Haussler · 2007 · Proceedings of the National Academy of Sciences
98. Discriminative prediction of mammalian enhancers from DNA sequence
    Dongwon Lee, Rachel Karchin, M Beer · 2011 · Genome Research
99. Genome-wide identification of Ago2 binding sites from mouse embryonic stem cells with and without mature microRNAs
    Anthony K. L. Leung, Amanda G. Young, Arjun J. Bhutkar, Grace X. Y. Zheng, Andrew Bosson, Cydney B Nielsen, Phillip A. Sharp · 2011 · Nature Structural & Molecular Biology
100. Fine Tuning of Craniofacial Morphology by Distant-Acting Enhancers
     Catia Attanasio, Alex S. Nord, Yiwen Zhu, Matthew J. Blow, Zirong Li, Denise K. Liberton, Harris Morrison, Ingrid Plajzer-Frick, Amy Holt, Roya Hosseini et al. · 2013 · Science