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Jason Brickner - Related publications

Affiliations: 
Northwestern University, Evanston, IL 
Area:
Gene gating
Website:
http://www.ibis.northwestern.edu/faculty/brickner.html
NOTE: We are testing a new system for identifying relevant work based on semantic analysis that identifies similarities between recently published papers and the current author's publications. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches.
50 most relevant papers in past 60 days:
Year Citation  Score
2020 Partridge EC, Chhetri SB, Prokop JW, Ramaker RC, Jansen CS, Goh ST, Mackiewicz M, Newberry KM, Brandsmeier LA, Meadows SK, Messer CL, Hardigan AA, Coppola CJ, Dean EC, Jiang S, et al. Occupancy maps of 208 chromatin-associated proteins in one human cell type. Nature. 583: 720-728. PMID 32728244 DOI: 10.1038/s41586-020-2023-4   
2020 , Snyder MP, Gingeras TR, Moore JE, Weng Z, Gerstein MB, Ren B, Hardison RC, Stamatoyannopoulos JA, Graveley BR, Feingold EA, Pazin MJ, Pagan M, Gilchrist DA, Hitz BC, et al. Perspectives on ENCODE. Nature. 583: 693-698. PMID 32728248 DOI: 10.1038/s41586-020-2449-8   
2020 Wang J, Shi K, Wu Z, Zhang C, Li Y, Deng H, Zhao S, Deng W. Disruption of the interaction between TFIIAαβ and TFIIA recognition element inhibits RNA polymerase II gene transcription in a promoter context-dependent manner. Biochimica Et Biophysica Acta. Gene Regulatory Mechanisms. 194611. PMID 32745626 DOI: 10.1016/j.bbagrm.2020.194611   
2020 Bakker R, Mani M, Carthew RW. The Wg and Dpp morphogens regulate gene expression by modulating the frequency of transcriptional bursts. Elife. 9. PMID 32568073 DOI: 10.7554/eLife.56076   
2020 Roth SJ, Heinz S, Benner C. ARTDeco: automatic readthrough transcription detection. Bmc Bioinformatics. 21: 214. PMID 32456667 DOI: 10.1186/s12859-020-03551-0   
2020 Schmitz JF, Chain FJJ, Bornberg-Bauer E. Evolution of novel genes in three-spined stickleback populations. Heredity. PMID 32499660 DOI: 10.1038/s41437-020-0319-7   
2020 Amante SM, Montibus B, Cowley M, Barkas N, Setiadi J, Saadeh H, Giemza J, Contreras-Castillo S, Fleischanderl K, Schulz R, Oakey RJ. Transcription of intragenic CpG islands influences spatiotemporal host gene pre-mRNA processing. Nucleic Acids Research. PMID 32621610 DOI: 10.1093/nar/gkaa556   
2020 Grubert F, Srivas R, Spacek DV, Kasowski M, Ruiz-Velasco M, Sinnott-Armstrong N, Greenside P, Narasimha A, Liu Q, Geller B, Sanghi A, Kulik M, Sa S, Rabinovitch M, Kundaje A, et al. Landscape of cohesin-mediated chromatin loops in the human genome. Nature. 583: 737-743. PMID 32728247 DOI: 10.1038/s41586-020-2151-x   
2020 Saripalli G, Singh K, Gautam T, Kumar S, Raghuvanshi S, Prasad P, Jain N, Sharma PK, Balyan HS, Gupta PK. Genome-wide analysis of H3K4me3 and H3K27me3 modifications due to Lr28 for leaf rust resistance in bread wheat (Triticum aestivum). Plant Molecular Biology. PMID 32627097 DOI: 10.1007/s11103-020-01029-4   
2020 Wu M, Karadoulama E, Lloret-Llinares M, Rouviere JO, Vaagensø CS, Moravec M, Li B, Wang J, Wu G, Gockert M, Pelechano V, Jensen TH, Sandelin A. The RNA exosome shapes the expression of key protein-coding genes. Nucleic Acids Research. PMID 32710631 DOI: 10.1093/nar/gkaa594   
2020 Liu M, Zhu Y, Xing F, Liu S, Xia Y, Jiang Q, Qin J. The polycomb group protein PCGF6 mediates germline gene silencing by recruiting histone-modifying proteins to target gene promoters. The Journal of Biological Chemistry. PMID 32482889 DOI: 10.1074/jbc.RA119.012121   
2020 Barter MJ, Cheung K, Falk J, Panagiotopoulos AC, Cosimini C, O'Brien S, Teja-Putri K, Neill G, Deehan DJ, Young DA. Dynamic chromatin accessibility landscape changes following interleukin-1 stimulation. Epigenetics. 1-14. PMID 32741307 DOI: 10.1080/15592294.2020.1789266   
2020 Verzi MP, Shivdasani RA. Epigenetic regulation of intestinal stem cell differentiation. American Journal of Physiology. Gastrointestinal and Liver Physiology. PMID 32628072 DOI: 10.1152/ajpgi.00084.2020   
2020 Debarba JA, Sehabiague MPC, Monteiro KM, Gerber AL, Vasconcelos ATR, Ferreira HB, Zaha A. Transcriptomic Analysis of the Early Strobilar Development of . Pathogens (Basel, Switzerland). 9. PMID 32545493 DOI: 10.3390/pathogens9060465   
2020 Srinivasan A, Mishra RK. Lessons on gene regulation learnt from the Drosophila melanogaster bithorax complex. The International Journal of Developmental Biology. 64: 161-168. PMID 32659003 DOI: 10.1387/ijdb.190167rm   
2020 Duan M, Song H, Wang C, Zheng J, Xie H, He Y, Huang L, Zhou F. Detection and Independent Validation of Model-Based Quantitative Transcriptional Regulation Relationships Altered in Lung Cancers. Frontiers in Bioengineering and Biotechnology. 8: 582. PMID 32656193 DOI: 10.3389/fbioe.2020.00582   
2020 Fang C, Rao S, Crispino JD, Ntziachristos P. Determinants and role of chromatin organization in acute leukemia. Leukemia. PMID 32690881 DOI: 10.1038/s41375-020-0981-z   
2020 Ochiai H, Hayashi T, Umeda M, Yoshimura M, Harada A, Shimizu Y, Nakano K, Saitoh N, Liu Z, Yamamoto T, Okamura T, Ohkawa Y, Kimura H, Nikaido I. Genome-wide kinetic properties of transcriptional bursting in mouse embryonic stem cells. Science Advances. 6: eaaz6699. PMID 32596448 DOI: 10.1126/sciadv.aaz6699   
2020 Jiang Q, Lu B, Wang G, Ye H. Transcriptional Inhibition of by Crustacean Female Sex Hormone in the Mud Crab, . International Journal of Molecular Sciences. 21. PMID 32722594 DOI: 10.3390/ijms21155300   
2020 Gurdon JB, Javed K, Vodnala M, Garrett N. Long-term association of a transcription factor with its chromatin binding site can stabilize gene expression and cell fate commitment. Proceedings of the National Academy of Sciences of the United States of America. 117: 15075-15084. PMID 32532919 DOI: 10.1073/pnas.2000467117   
2020 Peng JJ, Wu YC, Wang SQ, Niu JF, Cao XY. SmbHLH53 Is Relevant to Jasmonate Signaling and Plays Dual Roles in Regulating the Genes for Enzymes in the Pathway for Salvianolic Acid B Biosynthesis in Salvia miltiorrhiza. Gene. 144920. PMID 32593720 DOI: 10.1016/j.gene.2020.144920   
2020 van Ouwerkerk AF, Hall AW, Kadow ZA, Lazarevic S, Reyat JS, Tucker NR, Nadadur RD, Bosada FM, Bianchi V, Ellinor PT, Fabritz L, Martin JF, de Laat W, Kirchhof P, Moskowitz IP, et al. Epigenetic and Transcriptional Networks Underlying Atrial Fibrillation. Circulation Research. 127: 34-50. PMID 32717170 DOI: 10.1161/CIRCRESAHA.120.316574   
2020 Chen Y, Wang Y, Liu X, Xu J, Zhang MQ. Model-based analysis of chromatin interactions from dCas9-Based CAPTURE-3C-seq. Plos One. 15: e0236666. PMID 32735574 DOI: 10.1371/journal.pone.0236666   
2020 Gažová I, Lefevre L, Bush SJ, Clohisey S, Arner E, de Hoon M, Severin J, van Duin L, Andersson R, Lengeling A, Hume DA, Summers KM. The Transcriptional Network That Controls Growth Arrest and Macrophage Differentiation in the Human Myeloid Leukemia Cell Line THP-1. Frontiers in Cell and Developmental Biology. 8: 498. PMID 32719792 DOI: 10.3389/fcell.2020.00498   
2020 Zhang F, Li JX, Champreda V, Liu CG, Bai FW, Zhao XQ. Global Reprogramming of Gene Transcription in by Overexpressing an Artificial Transcription Factor for Improved Cellulase Production and Identification of Ypr1 as an Associated Regulator. Frontiers in Bioengineering and Biotechnology. 8: 649. PMID 32719779 DOI: 10.3389/fbioe.2020.00649   
2020 Hu W, Wang Q, Wang S, Wang M, Wang C, Tian Z, Liu X, Ji W, Zhang H. Gene co-expression network analysis provides a novel insight into the dynamic response of wheat to powdery mildew stress. Journal of Genetics. 99. PMID 32529987   
2020 Hernández-Candia CN, Tucker CL. Optogenetic Control of Gene Expression Using Cryptochrome 2 and a Light-Activated Degron. Methods in Molecular Biology (Clifton, N.J.). 2173: 151-158. PMID 32651916 DOI: 10.1007/978-1-0716-0755-8_10   
2020 Song X, Zhong Q, Peng G, Ji Y, Zhang Y, Tang J, Xie J, Bi J, Feng F, Li B. Functional characterization of a special dicistronic transcription unit encoding histone methyltransferase su(var)3-9 and translation regulator eIF2γ in Tribolium castaneum. The Biochemical Journal. PMID 32749451 DOI: 10.1042/BCJ20200444   
2020 Metzl-Raz E, Kafri M, Yaakov G, Barkai N. Gene Transcription as a Limiting Factor in Protein Production and Cell Growth. G3 (Bethesda, Md.). PMID 32694199 DOI: 10.1534/g3.120.401303   
2020 Jin J, Tao YT, Ding XB, Guo WP, Ruan L, Yang QL, Chen PC, Yao H, Zhang HB, Chen X. Predicted yeast interactome and network-based interpretation of transcriptionally changed genes. Yeast (Chichester, England). PMID 32738156 DOI: 10.1002/yea.3516   
2020 Anchel D, Ching RW. Laser Targeted Oligo Ligation (LTOL) to Identify DNA Sequences in the Vicinity of a Single Subnuclear Structure in a Single Cell. Methods in Molecular Biology (Clifton, N.J.). 2175: 11-21. PMID 32681480 DOI: 10.1007/978-1-0716-0763-3_2   
2020 Yan L, Zhai X, Zhao Z, Fan G. Whole-genome landscape of H3K4me3, H3K36me3 and H3K9ac and their association with gene expression during Paulownia witches' broom disease infection and recovery processes. 3 Biotech. 10: 336. PMID 32670736 DOI: 10.1007/s13205-020-02331-0   
2020 Poudel S, Tsunemoto H, Seif Y, Sastry AV, Szubin R, Xu S, Machado H, Olson CA, Anand A, Pogliano J, Nizet V, Palsson BO. Revealing 29 sets of independently modulated genes in , their regulators, and role in key physiological response. Proceedings of the National Academy of Sciences of the United States of America. PMID 32616573 DOI: 10.1073/pnas.2008413117   
2020 Choi SH, Cho SY, Song J, Hur MW. KLHL4, a novel p53 target gene, inhibits cell proliferation by activating p21. Biochemical and Biophysical Research Communications. PMID 32753315 DOI: 10.1016/j.bbrc.2020.07.100   
2020 Syed AP, Greulich F, Ansari SA, Uhlenhaut NH. Anti-inflammatory glucocorticoid action: genomic insights and emerging concepts. Current Opinion in Pharmacology. 53: 35-44. PMID 32416533 DOI: 10.1016/j.coph.2020.03.003   
2020 Liu H, Zhang J. Higher germline mutagenesis of genes with stronger testis expressions refutes the transcriptional scanning hypothesis. Molecular Biology and Evolution. PMID 32638015 DOI: 10.1093/molbev/msaa168   
2020 Kim JS, Shin IS, Shin NR, Nam JY, Kim C. Genome‑wide analysis of DNA methylation and gene expression changes in an ovalbumin‑induced asthma mouse model. Molecular Medicine Reports. 22: 1709-1716. PMID 32705270 DOI: 10.3892/mmr.2020.11245   
2020 Geigges M, Gubser PM, Unterstab G, Lecoultre Y, Paro R, Hess C. Reference Genes for Expression Studies in Human CD8 Naïve and Effector Memory T Cells under Resting and Activating Conditions. Scientific Reports. 10: 9411. PMID 32523060 DOI: 10.1038/s41598-020-66367-1   
2020 Vierstra J, Lazar J, Sandstrom R, Halow J, Lee K, Bates D, Diegel M, Dunn D, Neri F, Haugen E, Rynes E, Reynolds A, Nelson J, Johnson A, Frerker M, et al. Global reference mapping of human transcription factor footprints. Nature. 583: 729-736. PMID 32728250 DOI: 10.1038/s41586-020-2528-x   
2020 Stallcup MR, Poulard C. Gene-Specific Actions of Transcriptional Coregulators Facilitate Physiological Plasticity: Evidence for a Physiological Coregulator Code. Trends in Biochemical Sciences. 45: 497-510. PMID 32413325 DOI: 10.1016/j.tibs.2020.02.006   
2020 Ko DK, Brandizzi F. Network-based approaches for understanding gene regulation and function in plants. The Plant Journal : For Cell and Molecular Biology. PMID 32717108 DOI: 10.1111/tpj.14940   
2020 Seibt H, Aung KM, Ishikawa T, Sjöström A, Gullberg M, Atkinson GC, Wai SN, Shingler V. Elevated levels of VCA0117 (VasH) in response to external signals activate the type VI secretion system of Vibrio cholerae O1 El Tor A1552. Environmental Microbiology. PMID 32592280 DOI: 10.1111/1462-2920.15141   
2020 Tyagi S, Shumayla, Verma PC, Singh K, Upadhyay SK. Molecular characterization of ascorbate peroxidase (APX) and APX-related (APX-R) genes in Triticum aestivum L. Genomics. PMID 32681868 DOI: 10.1016/j.ygeno.2020.07.023   
2020 Wang G, Zhang ZR, Wang YF, Hong YQ, Liu XM, Yao N, Dong YY, Li HY. [Bioinformatics analysis of safflower WD40 transcription factor family genes]. Zhongguo Zhong Yao Za Zhi = Zhongguo Zhongyao Zazhi = China Journal of Chinese Materia Medica. 45: 3432-3440. PMID 32726059 DOI: 10.19540/j.cnki.cjcmm.20200506.107   
2020 Tan M, van Tol HTA, Mokry M, Stout TAE, Roelen BAJ. Microinjection induces changes in the transcriptome of bovine oocytes. Scientific Reports. 10: 11211. PMID 32641751 DOI: 10.1038/s41598-020-67603-4   
2020 Calviello L, Hirsekorn A, Ohler U. Quantification of translation uncovers the functions of the alternative transcriptome. Nature Structural & Molecular Biology. PMID 32601440 DOI: 10.1038/s41594-020-0450-4   
2020 Li J, Gao K, Yang X, Khan WU, Guo B, Guo T, An X. Identification and characterization of the CONSTANS-like gene family and its expression profiling under light treatment in Populus. International Journal of Biological Macromolecules. PMID 32531358 DOI: 10.1016/j.ijbiomac.2020.06.056   
2020 Misaki Y, Yamamoto S, Suzuki T, Iwakuni M, Sasaki H, Takahashi Y, Inada K, Kinashi H, Arakawa K. SrrB, a Pseudo-Receptor Protein, Acts as a Negative Regulator for Lankacidin and Lankamycin Production in . Frontiers in Microbiology. 11: 1089. PMID 32582072 DOI: 10.3389/fmicb.2020.01089   
2020 Nuthikattu S, Milenkovic D, Rutledge JC, Villablanca AC. Lipotoxic Injury Differentially Regulates Brain Microvascular Gene Expression in Male Mice. Nutrients. 12. PMID 32545722 DOI: 10.3390/nu12061771   
2020 Liu C, Xu X, Kan J, Cheng ZM, Chang Y, Lin J, Li H. Genome-wide analysis of the C3H zinc finger family reveals its functions in salt stress responses of . Peerj. 8: e9328. PMID 32566409 DOI: 10.7717/peerj.9328