Cis-regulatory elements: molecular mechanisms and evolutionary processes underlying divergence

Wittkopp, Patricia J., Kalay, Gizem·2012·Nature Reviews Genetics

Cited by (1,246)

Items 601–700 of 1,246

  1. Deciphering the Role of Rapidly Evolving Conserved Elements in Primate Brain Development and Exploring Their Potential Involvement in Alzheimer's Disease
    Benxia Hu, Xiao-Lin Zhuang, Long Zhou, Guojie Zhang, D.N. Cooper, Dong‐Dong Wu · 2024 · Molecular Biology and Evolution
  2. Genome-Wide Identification and Expression Pattern Analysis of GATA Gene Family in Orchidaceae
    Qinyao Zheng, Ye Huang, Xin He, Meng-Meng Zhang, Zhong‐Jian Liu · 2024 · Genes
  3. Synthetic directed evolution for targeted engineering of plant traits
    Ahad Moussa Kababji, Haroon Butt, Magdy M. Mahfouz · 2024 · Frontiers in Plant Science
  4. Genome-wide identification of CRF gene family members in four rice subspecies and expression analysis of OsCRF members in response to cold stress at seedling stage
    Lei Lei, Guohua Ding, Liangzi Cao, Jinsong Zhou, Yu Luo, Liangming Bai, Tianshu Xia, Lei Chen, Jiangxu Wang, Kai Liu et al. · 2024 · Scientific Reports
  5. Identification and characterization of GRAS genes in passion fruit (Passiflora edulis Sims) revealed their roles in development regulation and stress response
    Xinkai Cai, Denglin Li, Chaojia Liu, Jiayi Chen, Xiuqing Wei, Sitong Hu, Lin Lü, Shengzhen Chen, Qinglong Yao, Shiyu Xie et al. · 2025 · Plant Cell Reports
  6. Coupling CRISPR scanning with targeted chromatin accessibility profiling using a double-stranded DNA deaminase
    Heejin Roh, Simon P. Shen, Hu Yan, Hui Si Kwok, Allison P. Siegenfeld, Ceejay Lee, M. Lisandra Zepeda, C. Guo, Shelby A Roseman, Caroline Comenho et al. · 2025 · Nature Methods
  7. Single-cell chromatin accessibility and cis-regulatory element analyses in plants using the scPlantReg platform
    Haidong Yan, Yarong Jin, Chengran Wang, Xinxin Zhang, Jiyuan Jia, Xiaofang Cao, Alexandre P. Marand, Mao Xia, Xuan Zhang, Yun Zhong et al. · 2026 · Nature Plants
  8. Changing Faces of Transcriptional Regulation Reflected by Zic3
    Cecilia Lanny Winata, Igor Kondrychyn, Vladimir P. Korzh · 2015 · Current Genomics
  9. Capturing the rapidly evolving study of adaptation
    Carmelo Fruciano, Paolo Franchini, Julia C. Jones · 2021 · Journal of Evolutionary Biology
  10. Genome Editing and Designer Crops for the Future
    Sumi Rana, Pooja Aggarwal, Varsa Shukla, Urmi Giri, Shubham Verma, Mehanathan Muthamilarasan · 2022 · Methods in molecular biology
  11. PCRMS: a database of predicted cis-regulatory modules and constituent transcription factor binding sites in genomes
    Pengyu Ni, Zhengchang Su · 2022 · Database
  12. Comprehensive In Silico Analysis of RNA Silencing‐Related Genes and Their Regulatory Elements in Wheat (Triticum aestivum L.)
    Zobaer Akond, Hafizur Rahman, Md. Asif Ahsan, Md. Parvez Mosharaf, Munirul Alam, Md. Nurul Haque Mollah · 2022 · BioMed Research International
  13. Redundancy and the role of protein copy numbers in the cell polarization machinery of budding yeast
    Fridtjof Brauns, Leila Iñigo de la Cruz, Werner Karl-Gustav Daalman, Ilse J de Bruin, Jacob Halatek, Liedewij Laan, Erwin Frey · 2023 · Nature Communications
  14. A genome‐wide genetic association study reveals SNPs significantly associated with environmental variables and specific leaf area in European beech
    Markus Mueller, Christoph Leuschner, Greta Weithmann, Robert Weigel, Banzragch Bat‐Enerel, Wilfried Steiner, Oliver Gailing · 2024 · Physiologia Plantarum
  15. Incorporating Chromatin Accessibility Data into Sequence-to-Expression Modeling
    Pei-Chen Peng, Md. Abul Hassan Samee, Saurabh Sinha · 2015 · Biophysical Journal
  16. Deciphering RNA regulatory elements in trypanosomatids: one piece at a time or genome-wide?
    Vahid Gazestani, Zhiquan Lu, Reza Salavati · 2014 · Trends in Parasitology
  17. Analysis of non-synonymous SNPs of the porcineSERPINA6gene as potential causal variants for a QTL affecting plasma cortisol levels on SSC7
    Andreas Görres, Siriluck Ponsuksili, Klaus Wimmers, Eduard Muráni · 2015 · Animal Genetics
  18. Identification of Lineage-SpecificCis-Regulatory Modules Associated with Variation in Transcription Factor Binding and Chromatin Activity Using Ornstein–Uhlenbeck Models
    Marina Naval-Sánchez, Delphine Potier, Gert J. Hulselmans, Valerie Christiaens, Stein Aerts · 2015 · Molecular Biology and Evolution
  19. Distinct genetic architectures underlie divergent thorax, leg, and wing pigmentation between Drosophila elegans and D. gunungcola
    Jonathan H. Massey, Jun Li, David L. Stern, Patricia Jean Wittkopp · 2021 · Heredity
  20. A synthetic synthesis to explore animal evolution and development
    Melinda Liu Perkins, Lautaro Gándara, Justin Crocker · 2022 · Philosophical Transactions of the Royal Society B Biological Sciences
  21. Evolutionary Changes in the Chromatin Landscape Contribute to Reorganization of a Developmental Gene Network During Rapid Life History Evolution in Sea Urchins
    Phillip L. Davidson, Maria Byrne, Gregory A. Wray · 2022 · Molecular Biology and Evolution
  22. A powerful approach reveals numerous expression quantitative trait haplotypes in multiple tissues
    Dingge Ying, Mulin Jun Li, Pak Chung Sham, Miaoxin Li · 2018 · Bioinformatics
  23. Testing Proximity of Genomic Regions to Transcription Start Sites and Enhancers Complements Gene Set Enrichment Testing
    Christopher Lee, Kai Wang, Tingting Qin, Maureen A. Sartor · 2020 · Frontiers in Genetics
  24. A genome‐wide investigation of adaptive signatures in protein‐coding genes related to tool behaviour in New Caledonian and Hawaiian crows
    Nicolás Dussex, Verena Esther Kutschera, R. Axel W. Wiberg, Darren James Parker, Gavin R. Hunt, Russell David Gray, Kim Rutherford, Hideaki Abe, Robert C. Fleischer, Michael Gordon Ritchie et al. · 2020 · Molecular Ecology
  25. Expression variation of the porcine ADRB2 has a complex genetic background
    Eduard Muráni, Siriluck Ponsuksili, Henry Reyer, Dörte Wittenburg, Klaus Wimmers · 2013 · Molecular Genetics and Genomics
  26. Genome-wide analysis of the GRAS gene family in Liriodendron chinense reveals the putative function in abiotic stress and plant development
    Yuhao Weng, Xinying Chen, Zhaodong Hao, Lu Lu, Xinru Wu, Jiaji Zhang, Jingxiang Wu, Jisen Shi, Jinhui Chen · 2023 · Frontiers in Plant Science
  27. Genome-Wide Identification, Characterization, and Expression Analysis of the Amino Acid Permease Gene Family in Soybean
    Yuan Clare Zhang, Le Wang, Bao‐Hua Song, Dan Zhang, Hengyou Zhang · 2023 · Agronomy
  28. Genome-Wide Analysis of Caffeoyl-CoA-O-methyltransferase (CCoAOMT) Family Genes and the Roles of GhCCoAOMT7 in Lignin Synthesis in Cotton
    Lina Ma, Jin Wang, Kaikai Qiao, Yuewei Quan, Fan Shuli, Liqiang Wu · 2024 · Plants
  29. Genome-wide identification of chitinase gene family in Hordeum vulgare: insights into stress response mechanisms and evolutionary dynamics
    Irfan Ali Sabir, Farhan Nabi, Muhammad Aamir Manzoor, Fazal Ullah, Muhammad Saeed, Abeer Hashem, Jawaher Alkahtani, Elsayed Fathi Abd-Allah, Muslim Qadir · 2025 · BMC Plant Biology
  30. Genome-Wide Identification of BPC Gene Family in Ten Cotton Species and Function Analysis of GhBPC4 Involved in Cold Stress Response
    Faren Zhu, XU Qing, Jiliang Fan, Lu Meng, Rong Wang, Jiahuan Niu, Jingru Wang, Ganggang Zhang, Shandang Shi, Fei Wang et al. · 2025 · International Journal of Molecular Sciences
  31. Evolvability: progress and key questions
    Christophe Pélabon, Gustavo A. Agudelo‐Cantero, Yimen G. Araya‐Ajoy, Geir H. Bolstad, Changde Cheng, Frietson F Galis, Frédéric Guillaume, Thomas R. Haaland, Benedikt Hallgrímsson, Thomas F. Hansen et al. · 2025 · BioScience
  32. DeepWheat: predicting the effects of genomic variants on gene expression and regulatory activities across tissues and varieties in wheat using deep learning
    Zhigang Ma, Jiazi Zhang, Hongcui Pei, Yanhong Liu, Hongning Tong, Lei Wang, Zefu Lu · 2025 · Genome biology
  33. Cis-regulated additively expressed genes play a fundamental role in the formation of triploid loquat (Eriobotrya japonica (Thunb.) Lindl.) Heterosis
    Chao Liu, Di Wu, Lingli Wang, Jiangbo Dang, Qiao He, Qigao Guo, Guolu Liang · 2018 · Molecular Genetics and Genomics
  34. Both Binding Strength and Evolutionary Accessibility Affect the Population Frequency of Transcription Factor Binding Sequences in Arabidopsis thaliana
    Gabriel Schweizer, Andreas Wagner · 2021 · Genome Biology and Evolution
  35. Evolution of isoform‐level gene expression patterns across tissues during lotus species divergence
    Yue Zhang, Xingyu Yang, Yves Van de Peer, Jinming Chen, Kathleen Marchal, Tao Shi · 2022 · The Plant Journal
  36. Diverse Gene Regulatory Mechanisms Alter Rattlesnake Venom Gene Expression at Fine Evolutionary Scales
    Siddharth S. Gopalan, Blair W. Perry, Yannick Z. Francioli, Drew R. Schield, Hannah D. Guss, Justin M. Bernstein, Kaas Ballard, Cara Francesca Smith, Anthony J. Saviola, Richard H. Jr. Adams et al. · 2024 · Genome Biology and Evolution
  37. An oncogenic enhancer promotes melanoma progression via regulating ETV4 expression
    Junyou Zhang, Qilin Wang, Sihan Qi, Yingying Duan, Zhaoshuo Liu, Jiaxin Liu, Ziyi Zhang, Chunyan Li · 2024 · Journal of Translational Medicine
  38. Genome-wide characterization of Related to ABI3/VP1 transcription factors among U's triangle Brassica species reveals a negative role for BnaA06.RAV3L in seed size
    Ali Shahzad, Yonghai Fan, Mingchao Qian, Shahid Ullah Khan, Umer Mahmood, Lijuan Wei, Cunmin Qu, Kun Lu · 2024 · Plant Physiology and Biochemistry
  39. Genome-Wide Identification and Role of the bHLH Gene Family in Dendrocalamus latiflorus Flowering Regulation
    Mei-Yin Zeng, Peng-Kai Zhu, Yu Tang, Yu-Han Lin, Tian-You He, Jundong Rong, Yushan Zheng, Lingyan Chen · 2024 · International Journal of Molecular Sciences
  40. Neutral transcriptome rewiring promotes quantitative disease resistance evolvability at the species level
    Florent Delplace, Mehdi Khafif, Remco Stam, Adelin Barbacci, Sylvain Raffaele · 2025 · The Plant Cell
  41. Cis-regulator runaway and divergence in asexuals
    Frédéric Fyon, Thomas Lenormand · 2018 · Evolution
  42. Genome-wide identification and expression pattern analysis of the ribonuclease T2 family in Eucommia ulmoides
    Jun Qing, Qingxin Du, Yide Meng, Panfeng Liu, Hongyan Du, Lu Wang · 2021 · Scientific Reports
  43. Functional Variants Associated With CMPK2 and in ASB16 Influence Bovine Digital Dermatitis
    Diana Oelschlägel, Monika Wensch-Dorendorf, Grit Kopke, Roswitha Jungnickel, Benno Waurich, F. Rosner, Dörte Döpfer, Bertram Brenig, Hermann H. Swalve · 2022 · Frontiers in Genetics
  44. The Genetic Basis of Gene Expression Divergence in Antennae of Two Closely Related Moth Species, Helicoverpa armigera and Helicoverpa assulta
    Pingping Guo, Guo‐Cheng Li, Jun-Feng Dong, Xin-Lin Gong, Lingyu Wang, Ke Yang, Jun Yang, Ling‐Qiao Huang, Chen‐Zhu Wang · 2022 · International Journal of Molecular Sciences
  45. The role of non-additive gene action on gene expression variation in plant domestication
    Erik Díaz-Valenzuela, Daniel Hernández-Ríos, Angélica Cibrián‐Jaramillo · 2023 · EvoDevo
  46. Identification of epigenetic modifications that contribute to pathogenesis in therapy-related AML: Effective integration of genome-wide histone modification with transcriptional profiles
    Xinan Holly Yang, Bin Wang, John M. Cunningham · 2015 · BMC Medical Genomics
  47. Naturally occurring genetic mutations in the 5′‐upstream regulatory region of bovine FSHB generate a novel cis‐regulatory element that affects its expression
    Lisheng Dai, Yanli Xu, Wangyang Yu, Siyuan Liu, Yan Gao, Lianjiang Zhang, Bao Yuan, Jian Chen, Tenghe Ma, Jiabao Zhang · 2015 · Animal Genetics
  48. Transcriptional Interference Promotes Rapid Expression Divergence ofDrosophilaNested Genes
    Raquel Assis · 2016 · Genome Biology and Evolution
  49. Comparative Analysis of Gene Regulatory Network Components in the Auditory Hindbrain of Mice and Chicken
    Benjamin Pawlik, Tina Schlüter, Heiner Hartwich, Saskia Breuel, Lennart Heepmann, Hans Gerd Nothwang · 2016 · Brain Behavior and Evolution
  50. Defining cis-regulatory elements and transcription factors that control human cortical interneuron development
    Gareth Chapman, Julianna J. Determan, Haley Jetter, Komal Kaushik, Ramachandran Prakasam, Kristen L. Kroll · 2024 · iScience
  51. Integrated analysis of Populus deltoides PR1 genes uncovered a PdePR1 as a defense marker against foliar rust
    Suyun Wei, Baoyu Zheng, Siyu Wang, Xuan Yang, Yingnan Chen, Tongming Yin · 2025 · Plant Physiology and Biochemistry
  52. Genome-Wide Identification and Characterization of Basic Pentacysteine Transcription Factors in Brassica napus
    Huan Hu, Yuqin Jiang, Chiyuan Liu, Ying Zhang, Mingxun Chen, Zijin Liu · 2025 · Plants
  53. Characterization of DnaJ gene family in Castanea mollissima and functional analysis of CmDnaJ27 under cold and heat stresses
    Liyang Yu, Yujuan Tian, Jinxin Wang, Dongsheng Wang, Xuan Wang, Jingzheng Zhang, Jingzheng Zhang, Xiangyu Wang · 2025 · BMC Plant Biology
  54. Genome-wide characterization of NHX gene family in Medicago sativa under abiotic stress
    Yuqi Zhang, Xinyue Ma, Hao Liu, Li Zhao, Fei He, Mingna Li, Xue Wang, Ruicai Long, Junmei Kang, Qingchuan Yang et al. · 2025 · BMC Plant Biology
  55. Unraveling the start element and regulatory divergence of core promoters across the domain bacteria
    Syue-Ting Antony Kuo, Joshua Kevin Chang, Clara Chang, Wei-Yi Shen, Christine Hsu, Shinn-Juh Lai, Hsin-Hung David Chou · 2025 · Nucleic Acids Research
  56. Neural crest gene regulatory networks as drivers of development, diversification and disease
    Jan Štundl, Desingu Ayyappa Raja, Marianne E. Bronner-Fraser · 2026 · Nature Reviews Molecular Cell Biology
  57. Genomic incompatibilities are persistent barriers when speciation happens with gene flow in Formica ants
    Patrick Heidbreder, Noora Poikela, Pierre Nouhaud, Tuomas Puukko, Konrad Lohse, Jonna Kulmuni · 2026 · Molecular Biology and Evolution
  58. OsTBP2.1, a TATA-Binding Protein, Alters the Ratio of OsNRT2.3b to OsNRT2.3a and Improves Rice Grain Yield
    Yong Zhang, Muhammad Faseeh Iqbal, Yulong Wang, Kaiyun Qian, Jinxia Xiang, Guohua Xu, Xiaorong Fan · 2022 · International Journal of Molecular Sciences
  59. Species differences in hormonally mediated gene expression underlie the evolutionary loss of sexually dimorphic coloration inSceloporuslizards
    Christopher D. Robinson, Matthew D. Hale, Tyler N. Wittman, Christian L. Cox, Henry B. John‐Alder, Robert M. Cox · 2023 · Journal of Heredity
  60. Assessing next-generation sequencing-based computational methods for predicting transcriptional regulators with query gene sets
    Zeyu Lu, Xue Xiao, Qiang Zheng, Xinlei Wang, Lin Xu · 2024 · Briefings in Bioinformatics
  61. Comprehensive Genome-Wide Analysis and Expression Profiling of the HVA22 Gene Family Unveils Their Potential Roles in Soybean Responses to Abiotic Stresses
    Qiumin Chen, Liyue Huang, Xinxia Li, Yuan Ma, Zhenghao Wang, Chunyu Zhang, Feng Lin, Chen Liu · 2024 · Journal of Plant Growth Regulation
  62. Genome-Wide Characterization and Analysis of the bHLH Gene Family in Perilla frutescens
    Jian‐Kang Chen, Jiayi Xu, Ping Wang, Yihan Wang, Yumeng Wang, Junmei Lian, Yan Yan, Lin Cheng, Yingping Wang, Peng Di · 2024 · International Journal of Molecular Sciences
  63. Unveiling the role of OsSAP17: Enhancing plant resistance to drought and salt
    Wenjun Jiang, Yang Shi, Zhiye Du, Yingxu Zhou, Longying Wu, Ji Chen, Yanyan Huang, Lijuan Wu, Yueyang Liang, Zhonghui Zhang et al. · 2024 · Plant Physiology and Biochemistry
  64. Evolutionary analysis of DELLA proteins in sweet potato and related species reveals their roles in development and stress responses
    Zhidan Zuo, Haoqiang Zhao, Yue Fan, Yixuan Zhu, Wenpeng Song, Hong Zhai, Shaozhen He, Huan Zhang, Ning Zhao, Qingchang Liu et al. · 2025 · Frontiers in Plant Science
  65. BarH1 regulates the expression of conserved odorant-binding protein 22 from Dastarcus helophoroides
    Rui-Nan Yang, Dong-Zhen Li, Ao Liu, Yi Wei, Rui-Lin Zhang, Hazem Elewa Abdelnabby, Man‐Qun Wang · 2025 · Insect Biochemistry and Molecular Biology
  66. KEGNI: knowledge graph enhanced framework for gene regulatory network inference
    Pengxiao Li, Lin Li, Jingminjie Nan, Jiahuan Chen, Jielin Sun, Yanan Cao · 2025 · Genome biology
  67. Trans -acting genetic variation affects the expression of adjacent genes
    Krisna Van Dyke, Sheila Lutz, Gemechu Mekonnen, Chad L. Myers, Frank Wolfgang Albert · 2021 · Genetics
  68. Transcriptomic signatures of temperature adaptation in the eastern oyster Crassostrea virginica
    Kevin M. Johnson, Hollis R. Jones, Sandra M. Casas, Jérôme F. La Peyre, Morgan W. Kelly · 2021 · Journal of Evolutionary Biology
  69. Experimental Evolution of Anticipatory Regulation in Escherichia coli
    Anjali Mahilkar, Pavithra Venkataraman, Akshat Mall, Supreet Saini · 2022 · Frontiers in Microbiology
  70. Nodulin 26-like intrinsic protein CsNIP2;2 is a silicon influx transporter in Cucumis sativus L.
    Yaoke Duan, Yan Su, Rong HAN, Hao Sun, Haijun Gong · 2022 · Journal of Integrative Agriculture
  71. Role of CNSs Conserved Distal Cis-Regulatory Elements in CD4 + T Cell Development and Differentiation
    Xunyi Long, Chen Luo, Zhengming Zhu · 2022 · Frontiers in Immunology
  72. Exploring high-resolution chromatin interaction changes and functional enhancers of myogenic marker genes during myogenic differentiation
    Keren Long, Xiaokai Li, Duo Su, Sha Zeng, Hengkuan Li, Yu Zhang, Biwei Zhang, Wenying Yang, Penghao Li, Xuemin Li et al. · 2022 · Journal of Biological Chemistry
  73. A temporal gradient of cytonuclear coordination of chaperonins and chaperones during RuBisCo biogenesis in allopolyploid plants
    Changping Li, Baoxu Ding, Xintong Ma, Xuan Yang, Hongyan Wang, Yuefan Dong, Zhibin Zhang, Jinbin Wang, Xiaochong Li, Yanan Yu et al. · 2022 · Proceedings of the National Academy of Sciences
  74. Function and Constraint in Enhancer Sequences with Multiple Evolutionary Origins
    Sarah Fong, John A. Capra · 2022 · Genome Biology and Evolution
  75. Comprehensive genome-wide identification and expression profiling of ADF gene family in Citrus sinensis, induced by endophytic colonization of Beauveria bassiana
    Luis Carlos Ramos Aguila, Jessica Paola Sánchez Moreano, Komivi Senyo Akutse, Bamisope Steve Bamisile, Juxiu Liu, Fasih Ullah Haider, Hafiza Javaria Ashraf, Liande Wang · 2022 · International Journal of Biological Macromolecules
  76. Genome-wide identification of DCL, AGO and RDR gene families and their associated functional regulatory element analyses in sunflower (Helianthus annuus)
    Anamika Podder, Fee Faysal Ahmed, Md. Zahid Hasan Suman, Afsana Yeasmin Mim, Khadiza Hasan · 2023 · PLoS ONE
  77. Genome-wide identification, characterization and expression profile analysis of BBX gene family in Chinese chestnut (Castanea mollissima)
    Liyang Yu, Dongsheng Wang, Ruimin Huang, Fei Cao, Chunlei Guo, Jingzheng Zhang · 2023 · Plant Biotechnology Reports
  78. Genome-wide characterization of the role of the KCS gene family in Allium fistulosum L. as regulators of abiotic stress responses
    Jiayi Xing, Mingzhao Zhu, Huanhuan Xu, Huiying Liu, Yongqin Wang · 2023 · Scientia Horticulturae
  79. Exploring the role of FBXL gene family in Soybean: Implications for plant height and seed size regulation
    Aiman Hina, Nadeem Khan, Keke Kong, Wenhuan Lv, Benjamin Karikari, Asim Abbasi, Tuanjie Zhao · 2024 · Physiologia Plantarum
  80. Genome-Wide Comprehensive Identification and In Silico Characterization of Lectin Receptor-Like Kinase Gene Family in Barley (Hordeum vulgare L.)
    Fee Faysal Ahmed, Farah Sumaiya Dola, Md Shohel Ul Islam, Fatema Tuz Zohra, Nasrin Akter, Shaikh Mizanur Rahman, Md. Abdur Rauf Sarkar · 2024 · Genetics Research
  81. Rapid response of fly populations to gene dosage across development and generations
    Xueying Li, Lautaro Gándara, Måns Ekelöf, Kerstin Richter, Theodore Alexandrov, Justin Crocker · 2024 · Nature Communications
  82. Cytosine methylation in insects: new routes for the comprehension of insect complexity
    Mauro Mandrioli, Gian Carlo Manicardi · 2015 · AIMS Biophysics
  83. Reannotation of Yersinia pestis Strain 91001 Based on Omics Data
    Yiqing Mao, Xianwei Yang, Yang Liu, Yanfeng Yan, Zongmin Du, Yanping Han, Yajun Song, Lei Zhou, Yujun Cui, Ruifu Yang · 2016 · American Journal of Tropical Medicine and Hygiene
  84. Weak Polygenic Selection Drives the Rapid Adaptation of the Chemosensory System: Lessons from the Upstream Regions of the Major Gene Families
    Pablo Librado, Julio Rozas · 2016 · Genome Biology and Evolution
  85. DMRT1 and the road to masculinity
    Leslie L. Heckert, Valentine A. Agbor · 2014 · Elsevier eBooks
  86. Genetic basis of mycotoxin susceptibility differences between budding yeast isolates
    Xtopher Quispe, Sebastián M. Tapia, Carlos A. Villarroel, Christian I. Oporto, Valentina Abarca, Verónica García, Claudio Martı́nez, Francisco A. Cubillos · 2017 · Scientific Reports
  87. Characterization of gene promoters in pig: conservative elements, regulatory motifs and evolutionary trend
    Kai Wei, Lei Ma, Tingting Zhang · 2019 · PeerJ
  88. Mutations in Noncoding Cis -Regulatory Elements Reveal Cancer Driver Cistromes in Luminal Breast Cancer
    Samah El Ghamrasni, Rene Quevedo, James R. Hawley, Parisa Mazrooei, Youstina Hanna, Iulia Cirlan, Helen Zhu, Jeff Bruce, Leslie E. Oldfield, S. Y. Cindy Yang et al. · 2021 · Molecular Cancer Research
  89. Identification and Distribution of Anaerobic Responsive Elements (AREs) in Genes Functional Categorization of Arabidopsis thaliana
    Ehsan Sadeghnezhad, Hossein G. Askari, Sattar Soltani, Fatemeh Honarvar · 2015 · Journal of Applied Biotechnology Reports
  90. Reproductive barriers as a byproduct of gene network evolution
    Chia-Hung Yang, Samuel V. Scarpino · 2020 · bioRxiv (Cold Spring Harbor Laboratory)
  91. In Silico Dissection of Regulatory Regions of PHT Genes from Saccharum spp. Hybrid and Sorghum bicolor and Expression Analysis of PHT Promoters under Osmotic Stress Conditions in Tobacco
    Naveenarani Murugan, Ravinder Kumar, Shashi Pandey, Pooja Dhansu, Mahadevaiah Chennappa, Saranya Nallusamy, Hemaprabha Govindakurup, C. Appunu · 2023 · Sustainability
  92. regLM: Designing realistic regulatory DNA with autoregressive language models
    Lal, Avantika, Garfield, David, Biancalani, Tommaso, Eraslan, Gokcen · 2024
  93. Analysis of Gene Regulatory Network and Transcription Factors in Different Tissues of the Stropharia rugosoannulata Fruiting Body
    Jia Lu, Jing Yan, Na Lu, Jiling Song, Jiayao Lin, Xiaohua Zhou, Xu Ying, Zhen Li, Zufa Zhou, Fangjie Yao · 2025 · Journal of Fungi
  94. Genome-wide identification of CYP450 in Ganoderma lucidum and expression analysis of genes related to ganoderic acid synthesis
    Xiaolu Li, Dong Liu, Bangxing Han, Shiping Huang, Hui Deng · 2025 · Archives of Microbiology
  95. The Role of Alternative Splicing in Marine–Freshwater Divergence in Threespine Stickleback
    Carlos E. Rodríguez‐Ramírez, Catherine L. Peichel · 2025 · Genome Biology and Evolution
  96. Plant domestication revisited: Genomic insights into origins, mechanisms, and convergent evolution
    Yu Cao, Jianbing Yan, Jeffrey Ross‐Ibarra, Ning Yang · 2025 · iScience
  97. Cis‐regulatory evolution in a wild primate: Infection‐associated genetic variation drives differential expression of MHC ‐ DQA 1 in vitro
    Noah D. Simons, Geeta N. Eick, María José Ruiz‐López, Patrick A. Omeja, Colin A. Chapman, Tony L. Goldberg, Nelson Ting, Kirstin N. Sterner · 2017 · Molecular Ecology
  98. Sexual conflict, heterochrony and tissue specificity as evolutionary problems of adaptive plasticity in development
    Asher D. Cutter · 2023 · Proceedings of the Royal Society B Biological Sciences
  99. Genomic dissection of the correlation between milk yield and various health traits using functional and evolutionary information about imputed sequence variants of 34,497 German Holstein cows
    Helen Schneider, Ana-Marija Križanac, Clemens Falker‐Gieske, Johannes Heise, Jens Tetens, Georg Thaller, Jörn Bennewitz · 2024 · BMC Genomics
  100. Identification of DNase I hypersensitive sites in the human genome by multiple sequence descriptors
    Yan-Ting Jin, Yang Tan, Zhong-Hua Gan, Yu-Duo Hao, Tianyu Wang, Hao Lin, Bo Tang · 2024 · Methods