Eileen E. M. Furlong, Ph.D. - Related publications

Affiliations: 
Genome Biology European Molecular Biology 
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50 most relevant papers in past 60 days:
Year Citation  Score
2021 Meiler A, Marchiano F, Haering M, Weitkunat M, Schnorrer F, Habermann BH. AnnoMiner is a new web-tool to integrate epigenetics, transcription factor occupancy and transcriptomics data to predict transcriptional regulators. Scientific Reports. 11: 15463. PMID 34326396 DOI: 10.1038/s41598-021-94805-1   
2021 Goszczynski DE, Tinetti PS, Choi YH, Hinrichs K, Ross PJ. Genome activation in equine in vitro-produced embryos. Biology of Reproduction. PMID 34515744 DOI: 10.1093/biolre/ioab173   
2021 Thomas AL, Marsman J, Antony J, Schierding W, O'Sullivan JM, Horsfield JA. Transcriptional Regulation of : An Informatics Analysis. Genes. 12. PMID 34440349 DOI: 10.3390/genes12081175   
2021 Briggs P, Hunter AL, Yang SH, Sharrocks AD, Iqbal M. PEGS: An efficient tool for gene set enrichment within defined sets of genomic intervals. F1000research. 10: 570. PMID 34504687 DOI: 10.12688/f1000research.53926.1   
2021 Gaudet P, Logie C, Lovering RC, Kuiper M, Lægreid A, Thomas PD. Gene Ontology representation for transcription factor functions. Biochimica Et Biophysica Acta. Gene Regulatory Mechanisms. 194752. PMID 34461313 DOI: 10.1016/j.bbagrm.2021.194752   
2021 Meléndez-Ramírez C, Cuevas-Diaz Duran R, Barrios-García T, Giacoman-Lozano M, López-Ornelas A, Herrera-Gamboa J, Estudillo E, Soto-Reyes E, Velasco I, Treviño V. Dynamic landscape of chromatin accessibility and transcriptomic changes during differentiation of human embryonic stem cells into dopaminergic neurons. Scientific Reports. 11: 16977. PMID 34417498 DOI: 10.1038/s41598-021-96263-1   
2021 Xia S, Ventura IM, Blaha A, Sgromo A, Han S, Izaurralde E, Long M. Rapid Gene evolution in an ancient post-transcriptional and translational regulatory system compensates for meiotic X chromosomal inactivation. Molecular Biology and Evolution. PMID 34626117 DOI: 10.1093/molbev/msab296   
2021 Nair VD, Vasoya M, Nair V, Smith GR, Pincas H, Ge Y, Douglas CM, Esser KA, Sealfon SC. Differential analysis of chromatin accessibility and gene expression profiles identifies cis-regulatory elements in rat adipose and muscle. Genomics. 113: 3827-3841. PMID 34547403 DOI: 10.1016/j.ygeno.2021.09.013   
2021 Cuesta-Astroz Y, Gischkow Rucatti G, Murgas L, SanMartín CD, Sanhueza M, Martin AJM. Filtering of Data-Driven Gene Regulatory Networks Using as a Case Study. Frontiers in Genetics. 12: 649764. PMID 34394179 DOI: 10.3389/fgene.2021.649764   
2021 Singh NP. Gene regulation: Context is everything. Current Biology : Cb. 31: R1115-R1117. PMID 34637709 DOI: 10.1016/j.cub.2021.08.064   
2021 Stec N, Doerfel K, Hills-Muckey K, Ettorre VM, Ercan S, Keil W, Hammell CM. An Epigenetic Priming Mechanism Mediated by Nutrient Sensing Regulates Transcriptional Output during C. elegans Development. Current Biology : Cb. 31: 809-826.e6. PMID 33357451 DOI: 10.1016/j.cub.2020.11.060   
2021 Lambert JT, Su-Feher L, Cichewicz K, Warren TL, Zdilar I, Wang Y, Lim KJ, Haigh JL, Morse SJ, Canales CP, Stradleigh TW, Castillo Palacios E, Haghani V, Moss SD, Parolini H, et al. Parallel functional testing identifies enhancers active in early postnatal mouse brain. Elife. 10. PMID 34605404 DOI: 10.7554/eLife.69479   
2021 Hajirnis N, Mishra RK. Homeotic Genes: Clustering, Modularity, and Diversity. Frontiers in Cell and Developmental Biology. 9: 718308. PMID 34458272 DOI: 10.3389/fcell.2021.718308   
2021 Wang L, Li JH, Huang HY, Wu Q. [Serial deletions of tandem reverse CTCF sites reveal balanced regulatory landscape of enhancers]. Yi Chuan = Hereditas. 43: 775-791. PMID 34413017 DOI: 10.16288/j.yczz.21-132   
2021 Graham PL, Fischer MD, Giri A, Pick L. The fushi tarazu zebra element is not required for Drosophila viability or fertility. G3 (Bethesda, Md.). PMID 34518886 DOI: 10.1093/g3journal/jkab300   
2021 Henderson S, Pullabhatla V, Hertweck A, de Rinaldis E, Herrero J, Lord GM, Jenner RG. The Th1 cell regulatory circuitry is largely conserved between human and mouse. Life Science Alliance. 4. PMID 34531288 DOI: 10.26508/lsa.202101075   
2021 Viswanathan R, Hartmann J, Pallares Cartes C, De Renzis S. Desensitisation of Notch signalling through dynamic adaptation in the nucleus. The Embo Journal. 40: e107245. PMID 34396565 DOI: 10.15252/embj.2020107245   
2021 Markus BM, Boydston EA, Lourido S. CRISPR-Mediated Transcriptional Repression in Toxoplasma gondii. Msphere. e0047421. PMID 34643425 DOI: 10.1128/mSphere.00474-21   
2021 LaBelle J, Woo S. Light-Induced GFP Expression in Zebrafish Embryos using the Optogenetic TAEL/C120 System. Journal of Visualized Experiments : Jove. PMID 34487118 DOI: 10.3791/62818   
2021 Laskar P, Bhattacharya S, Chaudhuri A, Kundu A. Exploring the GRAS gene family in common bean (Phaseolus vulgaris L.): characterization, evolutionary relationships, and expression analyses in response to abiotic stresses. Planta. 254: 84. PMID 34561734 DOI: 10.1007/s00425-021-03725-x   
2021 Giaimo BD, Friedrich T, Borggrefe T. A Comprehensive Toolbox to Analyze Enhancer-Promoter Functions. Methods in Molecular Biology (Clifton, N.J.). 2351: 3-22. PMID 34382181 DOI: 10.1007/978-1-0716-1597-3_1   
2021 Xia B, Yanai I. Gene expression levels modulate germline mutation rates through the compound effects of transcription-coupled repair and damage. Human Genetics. PMID 34482438 DOI: 10.1007/s00439-021-02355-3   
2021 Dai Z, Li R, Hou Y, Li Q, Zhao K, Li T, Li MJ, Wu X. Inducible CRISPRa screen identifies putative enhancers. Journal of Genetics and Genomics = Yi Chuan Xue Bao. PMID 34531148 DOI: 10.1016/j.jgg.2021.06.012   
2021 Villarroel CA, Bastías M, Canessa P, Cubillos FA. Uncovering Divergence in Gene Expression Regulation in the Adaptation of Yeast to Nitrogen Scarcity. Msystems. 6: e0046621. PMID 34427519 DOI: 10.1128/mSystems.00466-21   
2021 Han Y, Hou Z, He Q, Zhang X, Yan K, Han R, Liang Z. Genome-Wide Characterization and Expression Analysis of Gene Family Under Abiotic Stress in . Frontiers in Genetics. 12: 754237. PMID 34675967 DOI: 10.3389/fgene.2021.754237   
2021 Li C, Sun J, Liu Q, Dodlapati S, Ming H, Wang L, Li Y, Li R, Jiang Z, Francis J, Fu X. The landscape of accessible chromatin in quiescent cardiac fibroblasts and cardiac fibroblasts activated after myocardial infarction. Epigenetics. PMID 34551670 DOI: 10.1080/15592294.2021.1982158   
2021 Chung H, Parkhurst CN, Magee EM, Phillips D, Habibi E, Chen F, Yeung BZ, Waldman J, Artis D, Regev A. Joint single-cell measurements of nuclear proteins and RNA in vivo. Nature Methods. 18: 1204-1212. PMID 34608310 DOI: 10.1038/s41592-021-01278-1   
2021 Meurer L, Ferdman L, Belcher B, Camarata T. The SIX Family of Transcription Factors: Common Themes Integrating Developmental and Cancer Biology. Frontiers in Cell and Developmental Biology. 9: 707854. PMID 34490256 DOI: 10.3389/fcell.2021.707854   
2021 Das Roy R, Hallikas O, Christensen MM, Renvoisé E, Jernvall J. Chromosomal neighbourhoods allow identification of organ specific changes in gene expression. Plos Computational Biology. 17: e1008947. PMID 34506480 DOI: 10.1371/journal.pcbi.1008947   
2021 El-Sappah AH, Yan K, Huang Q, Islam MM, Li Q, Wang Y, Khan MS, Zhao X, Mir RR, Li J, El-Tarabily KA, Abbas M. Comprehensive Mechanism of Gene Silencing and Its Role in Plant Growth and Development. Frontiers in Plant Science. 12: 705249. PMID 34589097 DOI: 10.3389/fpls.2021.705249   
2021 Payankaulam S, Hickey SL, Arnosti DN. Cell cycle expression of polarity genes features Rb targeting of Vang. Cells & Development. 169: 203747. PMID 34583062 DOI: 10.1016/j.cdev.2021.203747   
2021 Kim DS, Risca VI, Reynolds DL, Chappell J, Rubin AJ, Jung N, Donohue LKH, Lopez-Pajares V, Kathiria A, Shi M, Zhao Z, Deep H, Sharmin M, Rao D, Lin S, et al. The dynamic, combinatorial cis-regulatory lexicon of epidermal differentiation. Nature Genetics. PMID 34650237 DOI: 10.1038/s41588-021-00947-3   
2021 Wang Y, Li Z, Yang G, Cai L, Yang F, Zhang Y, Zeng Y, Ma Q, Zeng F. The Study of Alternative Splicing Events in Human Induced Pluripotent Stem Cells From a Down's Syndrome Patient. Frontiers in Cell and Developmental Biology. 9: 661381. PMID 34660567 DOI: 10.3389/fcell.2021.661381   
2021 Huang J, Zhang Q, He Y, Liu W, Xu Y, Liu K, Xian F, Li J, Hu J. Genome-Wide Identification, Expansion Mechanism and Expression Profiling Analysis of   Gene Family in Gramineae Crops. International Journal of Molecular Sciences. 22. PMID 34445464 DOI: 10.3390/ijms22168758   
2021 Galfrè SG, Morandin F, Pietrosanto M, Cremisi F, Helmer-Citterich M. COTAN: scRNA-seq data analysis based on gene co-expression. Nar Genomics and Bioinformatics. 3: lqab072. PMID 34396096 DOI: 10.1093/nargab/lqab072   
2021 Duveau F, Vande Zande P, Metzger BP, Diaz CJ, Walker EA, Tryban S, Siddiq MA, Yang B, Wittkopp PJ. Mutational sources of -regulatory variation affecting gene expression in . Elife. 10. PMID 34463616 DOI: 10.7554/eLife.67806   
2021 Fang Z, Zhao Z, Eapen V, Clarke RA. siRNA Mediate RNA Interference Concordant with Early On-Target Transient Transcriptional Interference. Genes. 12. PMID 34440463 DOI: 10.3390/genes12081290   
2021 Li Z, Yang J, Peng J, Cheng Z, Liu X, Zhang Z, Bhadauria V, Zhao W, Peng YL. Transcriptional Landscapes of Long Non-coding RNAs and Alternative Splicing in Revealed by RNA-Seq. Frontiers in Plant Science. 12: 723636. PMID 34589103 DOI: 10.3389/fpls.2021.723636   
2021 Gandhi S, Li Y, Tang W, Christensen JB, Urrutia HA, Vieceli FM, Piacentino ML, Bronner ME. A single-plasmid approach for genome editing coupled with long-term lineage analysis in chick embryos. Development (Cambridge, England). 148. PMID 34437692 DOI: 10.1242/dev.193565   
2021 Li-Leger E, Feichtinger R, Flibotte S, Holzkamp H, Schnabel R, Moerman DG. Identification of essential genes in Caenorhabditis elegans through whole genome sequencing of legacy mutant collections. G3 (Bethesda, Md.). PMID 34550348 DOI: 10.1093/g3journal/jkab328   
2021 Zhao K, Kong D, Jin B, Smolke CD, Rhee SY. A novel form of bivalent chromatin associates with rapid induction of camalexin biosynthesis genes in response to a pathogen signal in Arabidopsis. Elife. 10. PMID 34523419 DOI: 10.7554/eLife.69508   
2021 Wu Y, Kröller L, Miao B, Boekhoff H, Bauer AS, Büchler MW, Hackert T, Giese NA, Taipale J, Hoheisel JD. Promoter Hypermethylation Promotes the Binding of Transcription Factor NFATc1, Triggering Oncogenic Gene Activation in Pancreatic Cancer. Cancers. 13. PMID 34572796 DOI: 10.3390/cancers13184569   
2021 Channappa M, Sharma S, Kulshreshtha D, Singh K, Bhardwaj SC, Murugasamy S, Sindhu A, Vikas VK, Aggarwal R. Transcriptome profiling and differential gene expression analysis provides insights into 24-based resistance in wheat against . 3 Biotech. 11: 455. PMID 34631354 DOI: 10.1007/s13205-021-02972-9   
2021 Luo G, Shen L, Zhao S, Li R, Song Y, Song S, Yu K, Yang W, Li X, Sun J, Wang Y, Gao C, Liu D, Zhang A. Genome-wide identification of seed storage protein gene regulators in wheat through coexpression analysis. The Plant Journal : For Cell and Molecular Biology. PMID 34634158 DOI: 10.1111/tpj.15538   
2021 Liu X, Tang N, Xu F, Chen Z, Zhang X, Ye J, Liao Y, Zhang W, Kim SU, Wu P, Cao Z. SMRT and Illumina RNA sequencing reveal the complexity of terpenoid biosynthesis in Zanthoxylum armatum. Tree Physiology. PMID 34448876 DOI: 10.1093/treephys/tpab114   
2021 Huang X, Zhang X, Zong L, Gao Q, Zhang C, Wei R, Guan Y, Huang L, Zhang L, Lyu G, Tao W. Gene body methylation safeguards ribosomal DNA transcription by preventing PHF6-mediated enrichment of repressive histone mark H4K20me3. The Journal of Biological Chemistry. 101195. PMID 34520760 DOI: 10.1016/j.jbc.2021.101195   
2021 Fischer EK, Hauber ME, Bell AM. Back to the basics? Transcriptomics offers integrative insights into the role of space, time and the environment for gene expression and behaviour. Biology Letters. 17: 20210293. PMID 34520681 DOI: 10.1098/rsbl.2021.0293   
2021 Zogopoulos VL, Saxami G, Malatras A, Angelopoulou A, Jen CH, Duddy WJ, Daras G, Hatzopoulos P, Westhead DR, Michalopoulos I. Coexpression Tool: a tool for gene coexpression analysis in . Iscience. 24: 102848. PMID 34381973 DOI: 10.1016/j.isci.2021.102848   
2021 Mwapagha LM, Chibanga V, Shipanga H, Parker MI. New insights from Whole Genome Sequencing: BCLAF1 deletion as a structural variant that predisposes cells towards cellular transformation. Oncology Reports. 46. PMID 34490482 DOI: 10.3892/or.2021.8180   
2021 Sanson MA, Vega LA, Shah B, Regmi S, Cubria MB, Horstmann N, Shelburne SA, Flores AR. The LiaFSR transcriptome reveals an interconnected regulatory network in group A . Infection and Immunity. IAI0021521. PMID 34370508 DOI: 10.1128/IAI.00215-21