Combinatorial effects of multiple enhancer variants in linkage disequilibrium dictate levels of gene expression to confer susceptibility to common traits

Cited by (367)

Items 101–200 of 367

1. Modeling disease risk through analysis of physical interactions between genetic variants within chromatin regulatory circuitry
   Olivia Corradin, Andrea J. Cohen, Jennifer M. Luppino, Ian Bayles, Fredrick R. Schumacher, Peter C. Scacheri · 2016 · Nature Genetics
2. Identification of common non-coding variants at 1p22 that are functional for non-syndromic orofacial clefting
   Huan Liu, Elizabeth J. Leslie, Jenna C. Carlson, Terri H. Beaty, Mary L. Marazita, Andrew Carl Lidral, Robert A. Cornell · 2017 · Nature Communications
3. A Type 2 Diabetes–Associated Functional Regulatory Variant in a Pancreatic Islet Enhancer at the ADCY5 Locus
   Tamara S. Roman, Maren E. Cannon, Swarooparani Vadlamudi, Martin L. Buchkovich, Brooke N. Wolford, Ryan Welch, Mario A. Morken, Grace J. Kwon, Arushi Varshney, Romy Kursawe et al. · 2017 · Diabetes
4. The effect of genetic variation on promoter usage and enhancer activity
   Marco Garieri, Olivier Delaneau, Federico Andrea Santoni, Richard J. Fish, David Mull, Piero Carninci, Emmanouil T. Dermitzakis, Stylianos E. Antonarakis, Alexandre Fort · 2017 · Nature Communications
5. Multiple Hepatic Regulatory Variants at the GALNT2 GWAS Locus Associated with High-Density Lipoprotein Cholesterol
   Tamara S. Roman, Amanda F. Marvelle, Marie P. Fogarty, Swarooparani Vadlamudi, Arlene J. Gonzalez, Martin L. Buchkovich, Jeroen R. Huyghe, Christian Fuchsberger, Anne Jackson, Ying Wu et al. · 2015 · The American Journal of Human Genetics
6. Using What We Already Have: Uncovering New Drug Repurposing Strategies in Existing Omics Data
   Jill M. Pulley, Jillian P. Rhoads, Rebecca N Jerome, Anup P. Challa, Kevin Erreger, Meghan M. Joly, Robert R. Lavieri, Kelly E. Perry, Nicole M. Zaleski, Jana K. Shirey-Rice et al. · 2019 · The Annual Review of Pharmacology and Toxicology
7. Identifying noncoding risk variants using disease-relevant gene regulatory networks
   Long Gao, Yasin Uzun, Peng Gao, Bing He, Xiaoke Ma, Jiahui Wang, Shizhong Han, Kai Tan · 2018 · Nature Communications
8. Identification of independent association signals and putative functional variants for breast cancer risk through fine-scale mapping of the 12p11 locus
   on behalf of EMBRACE, Chenjie Zeng, behalf of GEMO Study Collaborators, on behalf of HEBON, on behalf of KConFab, AOCS Investigators, Xingyi Guo, Jirong Long, Karoline B. Kuchenbaecker, Arnaud Droit et al. · 2016 · Breast Cancer Research
9. AP001056.1, A Prognosis-Related Enhancer RNA in Squamous Cell Carcinoma of the Head and Neck
   Xiaolian Gu, Lixiao Wang, Linda Boldrup, Philip John Coates, Robin Fåhræus, Nicola Sgaramella, Torben Wilms, Karin Nylander · 2019 · Cancers
10. Allele-specific transcription factor binding to common and rare variants associated with disease and gene expression
    Marco Cavalli, Gang Pan, Helena Nord, Ola Wallerman, Emelie Wallén Arzt, Olof Berggren, Ingegerd Elvers, Maija‐Leena Eloranta, Lars Rönnblom, Kerstin Lindblad‐Toh et al. · 2016 · Human Genetics
11. Eukaryotic enhancers: common features, regulation, and participation in diseases
    Maksim Erokhin, Yegor S Vassetzky, Pavel G Georgiev, Darya Chetverina · 2015 · Cellular and Molecular Life Sciences
12. Exploring 3D chromatin contacts in gene regulation: The evolution of approaches for the identification of functional enhancer-promoter interaction
    Hang Xu, Shijie Zhang, Xianfu Yi, Dariusz Plewczyński, Mulin Jun Li · 2020 · Computational and Structural Biotechnology Journal
13. Explaining the disease phenotype of intergenic SNP through predicted long range regulation
    Jingqi Chen, Weidong Tian · 2016 · Nucleic Acids Research
14. Epigenomic landscape of 5-hydroxymethylcytosine reveals its transcriptional regulation of lncRNAs in colorectal cancer
    Hanyang Hu, Maoguo Shu, Lin He, Xueyuan Yu, Xiangyu Liu, Yalin Lu, Yinghong Chen, Xiaoping Miao, Xiaohua Chen · 2017 · British Journal of Cancer
15. Impact of genetic risk loci for multiple sclerosis on expression of proximal genes in patients
    Tojo James, Magdalena Lindén, Hiromasa Morikawa, Sunjay Jude Fernandes, Sabrina Ruhrmann, Mikael Huss, Maya Brandi, Fredrik Piehl, Maja Jagodic, Jesper N. Tegner et al. · 2018 · Human Molecular Genetics
16. Functional regulatory mechanism of smooth muscle cell-restricted LMOD1 coronary artery disease locus
    Vivek Nanda, Ting Wang, Milos Pjanic, Boxiang Liu, Trieu Nguyen, Ljubica Perisic Matic, Ulf Hedin, Simon Koplev, Lijiang Ma, Oscar Franzén et al. · 2018 · PLoS Genetics
17. Understanding transcriptional regulatory networks using computational models
    Bing He, Kai Tan · 2016 · Current Opinion in Genetics & Development
18. A screen of 1,049 schizophrenia and 30 Alzheimer's‐associated variants for regulatory potential
    Leslie Myint, Ruihua Wang, Leandros Boukas, Kasper D. Hansen, Loyal A. Goff, Dimitrios Avramopoulos · 2019 · American Journal of Medical Genetics Part B Neuropsychiatric Genetics
19. Cell Type-Specific Intralocus Interactions Reveal Oligodendrocyte Mechanisms in MS
    Daniel C. Factor, Anna M. Barbeau, Kevin Cameron Allan, Lucille R. Hu, Mayur Madhavan, An T. Hoang, Kathryn E.A. Hazel, Parker A. Hall, Sagar Nisraiyya, Fadi J. Najm et al. · 2020 · Cell
20. Common variants in signaling transcription-factor-binding sites drive phenotypic variability in red blood cell traits
    Avik Choudhuri, Eirini Trompouki, Brian J. Abraham, Leandro Machado Colli, Kian Hong Kock, William Mallard, Min-Lee Yang, Divya S. Vinjamur, Alireza Ghamari, Audrey Sporrij et al. · 2020 · Nature Genetics
21. Deciphering ENCODE
    Adam G. Diehl, Alan P. Boyle · 2016 · Trends in Genetics
22. Computational Biology Solutions to Identify Enhancers-target Gene Pairs
    Judith Mary Hariprakash, Francesco Ferrari · 2019 · Computational and Structural Biotechnology Journal
23. Computational methods for the prediction of chromatin interaction and organization using sequence and epigenomic profiles
    Huan Tao, Hao Li, Kang Xu, Hao Hong, Shuai Jiang, Guifang Du, Junting Wang, Yu Sun, Xin Huang, Yang Ding et al. · 2020 · Briefings in Bioinformatics
24. Decoding the role of regulatory element polymorphisms in complex disease
    Christopher M. Vockley, Alejandro Barrera, Timothy E. Reddy · 2016 · Current Opinion in Genetics & Development
25. Enhancer RNAs: a missing regulatory layer in gene transcription
    Renfang Mao, Yuanyuan Wu, Yue Ming, Yuanpei Xu, Shouyan Wang, Xia Chen, Xiaoying Wang, Yihui Fan · 2018 · Science China Life Sciences
26. Functional dissection of complex trait variants at single-nucleotide resolution
    Layla Siraj, Rodrigo I. Castro, Hannah B. Dewey, Susan Kales, John C. Butts, Thanh Thanh L. Nguyen, Masahiro Kanai, Daniel Berenzy, Kousuke Mouri, Qingbo S. Wang et al. · 2026 · Nature
27. Approaches for establishing the function of regulatory genetic variants involved in disease
    Julian Charles Knight · 2014 · Genome Medicine
28. Identifying causal regulatory SNPs in ChIP-seq enhancers
    Di Huang, Ivan Ovcharenko · 2014 · Nucleic Acids Research
29. Disruption of long-range gene regulation in human genetic disease: a kaleidoscope of general principles, diverse mechanisms and unique phenotypic consequences
    Shipra Bhatia, Dirk A. Kleinjan · 2014 · Human Genetics
30. Transcriptional enhancers: functional insights and role in human disease
    Irene Miguel-Escalada, Lorenzo Pasquali, Jorge P. Ferrer · 2015 · Current Opinion in Genetics & Development
31. A case-only study to identify genetic modifiers of breast cancer risk for BRCA1/BRCA2 mutation carriers
    Juliette Coignard, Michael J. Lush, Jonathan Beesley, Tracy A. O’Mara, Joe Dennis, Jonathan P. Tyrer, Daniel R. Barnes, Lesley McGuffog, Goska Leslie, Manjeet K. Bolla et al. · 2021 · Nature Communications
32. GWAS identifies population-specific new regulatory variants in FUT6 associated with plasma B12 concentrations in Indians
    Suraj Singh Nongmaithem, Charudatta Vaman Joglekar, Ghattu V. Krishnaveni, Sirazul Ameen Sahariah, Meraj Ahmad, Swetha Ramachandran, Meera Gandhi, Harsha Chopra, Anand Pandit, Ramesh D. Potdar et al. · 2017 · Human Molecular Genetics
33. EPIP: a novel approach for condition-specific enhancer–promoter interaction prediction
    Amlan Talukder, Samaneh Saadat, Xiaoman Li, Haiyan Hu · 2019 · Bioinformatics
34. Multiple Functional Risk Variants in a SMAD7 Enhancer Implicate a Colorectal Cancer Risk Haplotype
    Barbara K. Fortini, Stephanie Tring, Sarah J. Plummer, Christopher K. Edlund, Victor Rau Moreno, Robert S. Bresalier, Elizabeth L. Barry, Timothy R. Church, Jane C. Figueiredo, Graham Casey · 2014 · PLoS ONE
35. PETModule: a motif module based approach for enhancer target gene prediction
    Changyong Zhao, Xiao-Man Li, Hai-Yan Hu · 2016 · Scientific Reports
36. Identification and functional analysis of glycemic trait loci in the China Health and Nutrition Survey
    Cassandra Nichole Spracklen, Jinxiu Shi, Swarooparani Vadlamudi, Ying Wu, Meng Zou, Chelsea K. Raulerson, James P. Davis, Monica Zeynalzadeh, Kayla C. Jackson, Wentao Yuan et al. · 2018 · PLoS Genetics
37. Integration of Enhancer-Promoter Interactions with GWAS Summary Results Identifies Novel Schizophrenia-Associated Genes and Pathways
    Chong Wu, Wei Pan · 2018 · Genetics
38. Disease classification: from phenotypic similarity to integrative genomics and beyond
    Mikhail G. Dozmorov · 2018 · Briefings in Bioinformatics
39. Comprehensive functional annotation of susceptibility variants identifies genetic heterogeneity between lung adenocarcinoma and squamous cell carcinoma
    Na Qin, Yuancheng Li, Cheng Wang, Meng Zhu, Juncheng Dai, Tongtong Hong, Demetrius Albanes, Stephen C. Lam, Adonina Tardón, Chu Chen et al. · 2020 · Frontiers of Medicine
40. Are Interactions between cis-Regulatory Variants Evidence for Biological Epistasis or Statistical Artifacts?
    Alexandra E. Fish, John A. Capra, William S. Bush · 2016 · The American Journal of Human Genetics
41. The inherited variations of a p53-responsive enhancer in 13q12.12 confer lung cancer risk by attenuating TNFRSF19 expression
    Lipei Shao, Xianglin Zuo, Yin Yang, Yu Zhang, Nan Yang, Bin Shen, Jianying Wang, Xuchun Wang, Ruilei Li, Guangfu Jin et al. · 2019 · Genome biology
42. GenomeRunner web server: regulatory similarity and differences define the functional impact of SNP sets
    Mikhail G. Dozmorov, Lukas R. Cara, Cory B. Giles, Jonathan D. Wren · 2016 · Bioinformatics
43. GWAS identifies population-specific new regulatory variants in FUT6 associated with plasma B12 concentrations in Indians
    Suraj Singh Nongmaithem, Charudatta Vaman Joglekar, Ghattu V. Krishnaveni, Sirazul Ameen Sahariah, Meraj Ahmad, Swetha Ramachandran, Meera Gandhi, Harsha Chopra, Anand Pandit, Ramesh D. Potdar et al. · 2017 · Human Molecular Genetics
44. A survey of recently emerged genome-wide computational enhancer predictor tools
    Leonard Whye Kit Lim, Hung Hui Chung, Yee Ling Chong, Nung Kion Lee · 2018 · Computational Biology and Chemistry
45. A Mixed-Effects Model for Powerful Association Tests in Integrative Functional Genomics
    Yu‐Ru Su, Chongzhi Di, Stephanie A. Bien, Licai Huang, Xinyuan Dong, Gonçalo R. Abecasis, Sonja I. Berndt, Stéphane Bezieau, Hermann Brenner, Bette Jane Caan et al. · 2018 · The American Journal of Human Genetics
46. Integrative modeling reveals key chromatin and sequence signatures predicting super-enhancers
    Aziz Khan, Xuegong Zhang · 2019 · Scientific Reports
47. Characterisation of Genetic Variation in ST8SIA2 and Its Interaction Region in NCAM1 in Patients with Bipolar Disorder
    Alex D. Shaw, Yash Tiwari, Warren H. Kaplan, Anna Heath, Philip Bowden Mitchell, Peter R. Schofield, Janice M. Fullerton · 2014 · PLoS ONE
48. Integrative Genetic and Epigenetic Analysis Uncovers Regulatory Mechanisms of Autoimmune Disease
    Shooshtari, Parisa, Huang, Hailiang, Cotsapas, Chris · 2017 · The American Journal of Human Genetics
49. CRUP: a comprehensive framework to predict condition-specific regulatory units
    Anna Ramisch, Verena Heinrich, Laura V. Glaser, Alisa Fuchs, Xinyi Yang, Philipp Benner, Robert Schöpflin, Na Li, Sarah Kinkley, Anja Römer-Hillmann et al. · 2019 · Genome biology
50. Lymphocyte DNA methylation mediates genetic risk at shared immune-mediated disease loci
    Alexander D. Clark, Nisha Nair, Amy E. Anderson, Nishanthi Thalayasingam, Najib Naamane, Andrew J. Skelton, Julie Diboll, Anne C Barton, Stephen Eyre, John Dudley Isaacs et al. · 2020 · Journal of Allergy and Clinical Immunology
51. Genetic variation in histone modifications and gene expression identifies regulatory variants in the mammary gland of cattle
    Claire Prowse-Wilkins, Thomas Lopdell, Ruidong Xiang, Christy J. Vander Jagt, Mathew D. Littlejohn, Amanda Jane Chamberlain, Michael Edward Goddard · 2022 · BMC Genomics
52. The Role of NRG1 in the Predisposition to Papillary Thyroid Carcinoma
    Huiling He, Wei Li, Sandya Liyanarachchi, Yanqiang Wang, Lianbo Yu, Luke K. Genutis, Sophia E. Maharry, John E. Phay, Rulong Z. Shen, Pamela L. Brock et al. · 2017 · The Journal of Clinical Endocrinology & Metabolism
53. Functional effects of variation in transcription factor binding highlight long-range gene regulation by epromoters
    Mitchelmore, Joanna, Grinberg, Nastasiya F, Wallace, Chris, Spivakov, Mikhail · 2020 · Nucleic Acids Research
54. Genetic insights into immune mechanisms of Alzheimer’s and Parkinson’s disease
    Alexi Nott, Inge R. Holtman · 2023 · Frontiers in Immunology
55. Haplotype hitchhiking promotes trait coselection in Brassica napus
    Lunwen Qian, Wei Qian, Rod J. Snowdon · 2016 · Plant Biotechnology Journal
56. GWAS meta-analysis of 16 852 women identifies new susceptibility locus for endometrial cancer
    Maxine M. Chen, Tracy A. O’Mara, Deborah J. Thompson, Jodie N. Painter, Georgia Chenevix‐Trench, John Attia, Amanda Black, Louise Annette Brinton, Stephen Jacob Chanock, Chu Chen et al. · 2016 · Human Molecular Genetics
57. New guidelines for DNA methylome studies regarding 5-hydroxymethylcytosine for understanding transcriptional regulation
    Le Li, Yuwei Gao, Qiong Wu, Alfred S.L. Cheng, Kevin Yuk-Lap Yip · 2019 · Genome Research
58. Downregulation of enhancer RNA EMX2OS is associated with poor prognosis in kidney renal clear cell carcinoma
    Huiming Jiang, Haibin Chen, Pei Wan, Shengda Song, Nanhui Chen · 2020 · Aging
59. DNA methylation dynamics during embryonic development and postnatal maturation of the mouse auditory sensory epithelium
    Ofer Yizhar Barnea, Cristina Valensisi, Naresh Doni Jayavelu, Kamal Kishore, Colin R. Andrus, Tal Koffler-Brill, Kathy Ushakov, Kobi Perl, Yael Noy, Yoni Bhonker et al. · 2018 · Scientific Reports
60. Triangulating Molecular Evidence to Prioritize Candidate Causal Genes at Established Atopic Dermatitis Loci
    Maria Sobczyk, Tom G. Richardson, Verena Zuber, Josine L. Min, GoDMC, Tom R. Gaunt, Lavinia Paternoster · 2021 · Journal of Investigative Dermatology
61. Motif signatures in stretch enhancers are enriched for disease-associated genetic variants
    Daniel X. Quang, Michael R. Erdos, Stephen C.J. Parker, Francis S. Collins · 2015 · Epigenetics & Chromatin
62. A Common Variant at the 14q32 Endometrial Cancer Risk Locus Activates AKT1 through YY1 Binding
    Jodie N. Painter, Susanne Kaufmann, Tracy A. O’Mara, Kristine M. Hillman, Haran Sivakumaran, Hatef Darabi, Timothy H. T. Cheng, John V. Pearson, Stephen H. Kazakoff, Nicola Waddell et al. · 2016 · The American Journal of Human Genetics
63. EAGLE: An algorithm that utilizes a small number of genomic features to predict tissue/cell type-specific enhancer-gene interactions
    Tianshun Gao, Jiang X. Qian · 2019 · PLoS Computational Biology
64. Predict long-range enhancer regulation based on protein–protein interactions between transcription factors
    Hao Wang, Binbin Huang, Jianrong Wang · 2021 · Nucleic Acids Research
65. Integrative genomics analyses unveil downstream biological effectors of disease-specific polymorphisms buried in intergenic regions
    Haiquan Li, Ikbel Achour, Lisa A. Bastarache, Joanne Berghout, Vincent Gardeux, Jianrong Li, Younghee Lee, Lorenzo L. Pesce, Xinan Holly Yang, Kenneth S. Ramos et al. · 2016 · npj Genomic Medicine
66. The Role of Noncoding Genetic Variation in Isolated Orofacial Clefts
    Frederic Thieme, Kerstin U. Ludwig · 2017 · Journal of Dental Research
67. A comprehensive integrated post-GWAS analysis of Type 1 diabetes reveals enhancer-based immune dysregulation
    Seungsoo Kim, Adam D. Hudgins, Jiping Yang, Yizhou Zhu, Zhidong Tu, Michael G. Rosenfeld, Teresa P. DiLorenzo, Yousin Suh · 2021 · PLoS ONE
68. Role of Enhancers in Development and Diseases
    Shailendra Shanker Maurya · 2021 · Epigenomes
69. Effects of Type 1 Diabetes Risk Alleles on Immune Cell Gene Expression
    Ramesh Ram, Grant Morahan · 2017 · Genes
70. Integrative computational epigenomics to build data-driven gene regulation hypotheses
    Tyrone Chen, Sonika Tyagi · 2020 · GigaScience
71. Non-coding genome functions in diabetes
    Inês Cebola, Lorenzo Pasquali · 2015 · Journal of Molecular Endocrinology
72. Relationship between the IL12B (rs3212227) gene polymorphism and susceptibility to multiple autoimmune diseases: A meta-analysis
    Jun Li, Chao Zhang, Jie‐Bing Wang, Shuangshuang Chen, Tian‐Ping Zhang, Si Li, Hai‐Feng Pan, Dong‐Qing Ye · 2016 · Modern Rheumatology
73. Enhancer, epigenetics, and human disease
    Zhuojuan Luo, Chengqi Lin · 2016 · Current Opinion in Genetics & Development
74. Enrichment of Genetic Variants for Rheumatoid Arthritis within T-Cell and NK-Cell Enhancer Regions
    Jan Freudenberg, Peter K. Gregersen, Wentian Li · 2015 · Molecular Medicine
75. Transcriptional-regulatory convergence across functional MDD risk variants identified by massively parallel reporter assays
    Bernard Mulvey, Joseph D. Dougherty · 2021 · Translational Psychiatry
76. Identification of ATP2B4 Regulatory Element Containing Functional Genetic Variants Associated with Severe Malaria
    Samia Nisar, M. Torres, A. Thiam, B. Pouvelle, Florian Rosier, F. Gallardo, Oumar Ka, B. Mbengue, R. Diallo, Laura Brosseau et al. · 2021 · medRxiv
77. Trans-ancestry Fine Mapping and Molecular Assays Identify Regulatory Variants at the ANGPTL8 HDL-C GWAS Locus
    Maren E. Cannon, Qing Duan, Ying Wu, Monica Zeynalzadeh, Zheng Quan Xu, Antti J. Kangas, Pasi Soininen, Mika Ala‐Korpela, Mete Civelek, Aldons Jake Lusis et al. · 2017 · G3 Genes Genomes Genetics
78. T-Gene: improved target gene prediction
    Timothy O’Connor, Charles E. Grant, Mikael Bodén A, Timothy L. Bailey · 2020 · Bioinformatics
79. Allele-specific transcription factor binding in liver and cervix cells unveils many likely drivers of GWAS signals
    Marco Cavalli, Gang Pan, Helena Nord, Emelie Wallén Arzt, Ola Wallerman, Claes Wadelius · 2016 · Genomics
80. CisMapper: predicting regulatory interactions from transcription factor ChIP-seq data
    T. O'Connor, M. Bodén, T. Bailey · 2016 · Nucleic Acids Research
81. Functional impacts of non-coding RNA processing on enhancer activity and target gene expression
    Evgenia Ntini, Annalisa Marsico · 2019 · Journal of Molecular Cell Biology
82. Fine scale mapping of the 17q22 breast cancer locus using dense SNPs, genotyped within the Collaborative Oncological Gene-Environment Study (COGs)
    Hatef Darabi, Jonathan Beesley, Arnaud Droit, Siddhartha Kar, Silje Nord, Mahdi Moradi Marjaneh, Penny Soucy, Kyriaki Michailidou, Maya Ghoussaini, Hanna Fues Wahl et al. · 2016 · Scientific Reports
83. Inference of cell type specific regulatory networks on mammalian lineages
    Deborah A. Chasman, Sushmita Roy · 2017 · Current Opinion in Systems Biology
84. Variation in the Untranslated Genome and Susceptibility to Infections
    Veron Ramsuran, Rodger Ewy, Hoang Nguyen, Smita Kulkarni · 2018 · Frontiers in Immunology
85. Mechanistic Characterization of RASGRP1 Variants Identifies an hnRNP-K-Regulated Transcriptional Enhancer Contributing to SLE Susceptibility
    Julio E. Molineros, Bhupinder Singh, Chikashi C. Terao, Yukinori Okada, Jakub Kaplan, Barbara McDaniel, Shuji Akizuki, Celi Sun, Carol F. Webb, Loren L. Looger et al. · 2019 · Frontiers in Immunology
86. Cell Specificity of Human Regulatory Annotations and Their Genetic Effects on Gene Expression
    Arushi Varshney, Hadley VanRenterghem, Peter Orchard, Alan P. Boyle, Michael L. Stitzel, Duygu Ucar, Stephen C.J. Parker · 2018 · Genetics
87. Machine and Deep Learning Methods for Predicting 3D Genome Organization
    Brydon P. G. Wall, My Nguyen, Joshua Chuck Harrell, Mikhail G. Dozmorov · 2024 · Methods in molecular biology
88. Validation of prostate cancer risk variants rs10993994 and rs7098889 by CRISPR/Cas9 mediated genome editing
    Xing Wang, James E. Hayes, Xing Xu, Xiaoni Gao, Dipti Mehta, Hans G. Lilja, Robert J. Klein · 2020 · Gene
89. Multi-omic and multi-species meta-analyses of nicotine consumption
    Rohan H. C. Palmer, Chelsie E. Benca‐Bachman, Spencer B. Huggett, Jason A. Bubier, John E. McGeary, Nikhil Ramgiri, Jenani Srijeyanthan, Jingjing Yang, Peter M. Visscher, Jian Yang et al. · 2021 · Translational Psychiatry
90. Functional FLT1 Genetic Variation is a Prognostic Factor for Recurrence in Stage I–III Non–Small-Cell Lung Cancer
    Dylan M. Glubb, Laia Paré, Eloisa Jantus Lewintre, Chen Jiang, Daniel James Crona, Amy S. Etheridge, Osman Mirza, Wei Zhang, Eric Seiser, Witold Rzyman et al. · 2015 · Journal of Thoracic Oncology
91. Chromatin Hubs: A biological and computational outlook
    Antonio Mora, Xiaowei Huang, Shaurya Jauhari, Qin Li Jiang, Xuri Li · 2022 · Computational and Structural Biotechnology Journal
92. Osteoarthritis as an Enhanceropathy: Gene Regulation in Complex Musculoskeletal Disease
    Jack B. Roberts, Sarah J. Rice · 2024 · Current Rheumatology Reports
93. Genetic variation in the developmental regulation of corticalavpr1aamong prairie voles
    Mariam Okhovat, I‐Cheng Chen, Zahra Dehghani, Da‐Jiang Zheng, J. E. Ikpatt, H. Momoh, Steven M. Phelps · 2017 · Genes Brain & Behavior
94. Predicting stimulation-dependent enhancer-promoter interactions from ChIP-Seq time course data
    Tomasz Dzida, Mudassar Iqbal, Iryna Charapitsa, George Reid, Henk G. Stunnenberg, Filomena Matarese, Korbinian Grote, Antti Honkela, Magnus Rattray · 2017 · PeerJ
95. Comprehensive enhancer-target gene assignments improve gene set level interpretation of genome-wide regulatory data
    Tingting Qin, Christopher Lee, Shiting Li, Raymond G. Cavalcante, Peter Orchard, Heming Yao, Hanrui Zhang, Shuze Wang, Snehal B. Patil, Alan P. Boyle et al. · 2022 · Genome biology
96. An evolving understanding of multiple causal variants underlying genetic association signals
    Erping Long, Jacob Williams, Haoyu Zhang, Jiyeon Choi · 2025 · The American Journal of Human Genetics
97. InTAD: chromosome conformation guided analysis of enhancer target genes
    Konstantin Okonechnikov, Serap Erkek, Jan O. Korbel, Stefan Michael Pfister, Lukas Chávez · 2019 · BMC Bioinformatics
98. Immunogenomic Profiling Demonstrate AC003092.1 as an Immune-Related eRNA in Glioblastoma Multiforme
    Xiaoyu Guo, Sheng Zhong, Zhen-Ning Wang, Tian Xie, Hao Duan, Jiayu Zhang, Guan-Hua Zhang, Lun Liang, Run Cui, Hongrong Hu et al. · 2021 · Frontiers in Genetics
99. Dense and accurate whole-chromosome haplotyping of individual genomes
    David Porubskỳ, Shilpa Garg, Ashley D. Sanders, Jan O. Korbel, Victor Guryev, Peter M. Lansdorp, Tobias Marschall · 2017 · bioRxiv (Cold Spring Harbor Laboratory)
100. A general framework for functionally informed set-based analysis: Application to a large-scale colorectal cancer study
     Xinyuan Dong, Yu‐Ru Su, Richard Barfield, Stephanie A. Bien, Qianchuan He, Tabitha A. Harrison, Jeroen R. Huyghe, Temitope O. Keku, Noralane M. Lindor, Clemens Schafmayer et al. · 2020 · PLoS Genetics