Max L. Birnstiel - Related publications

Molecular Biology Universität Zürich, Zürich, ZH, Switzerland 
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50 most relevant papers in past 60 days:
Year Citation  Score
2021 Nuñez JK, Chen J, Pommier GC, Cogan JZ, Replogle JM, Adriaens C, Ramadoss GN, Shi Q, Hung KL, Samelson AJ, Pogson AN, Kim JYS, Chung A, Leonetti MD, Chang HY, et al. Genome-wide programmable transcriptional memory by CRISPR-based epigenome editing. Cell. PMID 33838111 DOI: 10.1016/j.cell.2021.03.025   
2021 Tresenrider A, Morse K, Jorgensen V, Chia M, Liao H, Jacobus van Werven F, Ünal E. Integrated genomic analysis reveals key features of long undecoded transcript isoform-based gene repression. Molecular Cell. PMID 33826921 DOI: 10.1016/j.molcel.2021.03.013   
2021 Liu S, Punthambaker S, Iyer EPR, Ferrante T, Goodwin D, Fürth D, Pawlowski AC, Jindal K, Tam JM, Mifflin L, Alon S, Sinha A, Wassie AT, Chen F, Cheng A, et al. Barcoded oligonucleotides ligated on RNA amplified for multiplexed and parallel in situ analyses. Nucleic Acids Research. PMID 33693773 DOI: 10.1093/nar/gkab120   
2021 Mark KG, Rape M. Ubiquitin-dependent regulation of transcription in development and disease. Embo Reports. e51078. PMID 33779035 DOI: 10.15252/embr.202051078   
2021 Zhong RQ, Tian H, Gao XJ. [Epigenetic regulation in tooth development]. Zhonghua Kou Qiang Yi Xue Za Zhi = Zhonghua Kouqiang Yixue Zazhi = Chinese Journal of Stomatology. 56: 288-293. PMID 33663161 DOI: 10.3760/cma.j.cn112144-20200518-00283   
2021 Gajos M, Jasnovidova O, van Bömmel A, Freier S, Vingron M, Mayer A. Conserved DNA sequence features underlie pervasive RNA polymerase pausing. Nucleic Acids Research. PMID 33788942 DOI: 10.1093/nar/gkab208   
2021 Kim D, Hong SH, Han G, Cho C. Analysis of mouse male germ cell-specific or -predominant Tex13 family genes encoding proteins with transcriptional repressor activity. Molecular Biology Reports. PMID 33811575 DOI: 10.1007/s11033-021-06265-5   
2021 Martin SK, Tomida J, Wood RD. Disruption of DNA polymerase ζ engages an innate immune response. Cell Reports. 34: 108775. PMID 33626348 DOI: 10.1016/j.celrep.2021.108775   
2021 He W, Gong S, Wang X, Dong X, Cheng H. DNA methylation integratedly modulates the expression of Pit-Oct-Unt transcription factors in esophageal squamous cell carcinoma. Journal of Cancer. 12: 1634-1643. PMID 33613750 DOI: 10.7150/jca.49231   
2021 Martín L, Kamstra JH, Hurem S, Lindeman LC, Brede DA, Aanes H, Babiak I, Arenal A, Oughton D, Salbu B, Lyche JL, Aleström P. Altered non-coding RNA expression profile in F progeny 1 year after parental irradiation is linked to adverse effects in zebrafish. Scientific Reports. 11: 4142. PMID 33602989 DOI: 10.1038/s41598-021-83345-3   
2021 Xu L, Li Z, Wang S. Development of a Virus-Based Reporter System for Functional Analysis of Plant rRNA Gene Promoter. Frontiers in Microbiology. 12: 637347. PMID 33679673 DOI: 10.3389/fmicb.2021.637347   
2021 Zhang L, Zhao J, Bi H, Yang X, Zhang Z, Su Y, Li Z, Zhang L, Sanderson BJ, Liu J, Ma T. Bioinformatic analysis of chromatin organization and biased expression of duplicated genes between two poplars with a common whole-genome duplication. Horticulture Research. 8: 62. PMID 33750794 DOI: 10.1038/s41438-021-00494-2   
2021 Freewoman JM, Snape R, Cui F. Temporal gene regulation by p53 is associated with the rotational setting of its binding sites in nucleosomes. Cell Cycle (Georgetown, Tex.). 1-16. PMID 33764853 DOI: 10.1080/15384101.2021.1904554   
2021 Choi J, Lysakovskaia K, Stik G, Demel C, Söding J, Tian TV, Graf T, Cramer P. Evidence for additive and synergistic action of mammalian enhancers during cell fate determination. Elife. 10. PMID 33770473 DOI: 10.7554/eLife.65381   
2021 Zhang Y, Ding W, Wang Z, Zhao H, Shi S. Development of Host-Orthogonal Genetic Systems for Synthetic Biology. Advanced Biology. 5: e2000252. PMID 33729696 DOI: 10.1002/adbi.202000252   
2021 Zhang Y, Ding W, Wang Z, Zhao H, Shi S. Development of Host-Orthogonal Genetic Systems for Synthetic Biology. Advanced Biology. 5: e2000252. PMID 33729696 DOI: 10.1002/adbi.202000252   
2021 Yeo GHT, Juez O, Chen Q, Banerjee B, Chu L, Shen MW, Sabry M, Logister I, Sherwood RI, Gifford DK. Detection of gene cis-regulatory element perturbations in single-cell transcriptomes. Plos Computational Biology. 17: e1008789. PMID 33711017 DOI: 10.1371/journal.pcbi.1008789   
2021 Yeo GHT, Juez O, Chen Q, Banerjee B, Chu L, Shen MW, Sabry M, Logister I, Sherwood RI, Gifford DK. Detection of gene cis-regulatory element perturbations in single-cell transcriptomes. Plos Computational Biology. 17: e1008789. PMID 33711017 DOI: 10.1371/journal.pcbi.1008789   
2021 Du H, Zaman S, Hu S, Che S. Single-Molecule Long-Read Sequencing of Purslane () and Differential Gene Expression Related with Biosynthesis of Unsaturated Fatty Acids. Plants (Basel, Switzerland). 10. PMID 33808162 DOI: 10.3390/plants10040655   
2021 Hansen J, von Melchner H, Wurst W. Mutant non-coding RNA resource in mouse embryonic stem cells. Disease Models & Mechanisms. 14. PMID 33729986 DOI: 10.1242/dmm.047803   
2021 Goszczynski DE, Halstead MM, Islas-Trejo AD, Zhou H, Ross PJ. Transcription initiation mapping in 31 bovine tissues reveals complex promoter activity, pervasive transcription, and tissue-specific promoter usage. Genome Research. 31: 732-744. PMID 33722934 DOI: 10.1101/gr.267336.120   
2021 Wu B, Jiang X, Huang Y, Ying X, Zhang H, Liu B, Li Z, Qi D, Ji W, Cai X. Integrated Analysis of mRNA-mA-protein Profiles Reveals Novel Insights into the Mechanisms for Cadmium-induced Urothelial Transformation. Biomarkers : Biochemical Indicators of Exposure, Response, and Susceptibility to Chemicals. 1-23. PMID 33830842 DOI: 10.1080/1354750X.2021.1913513   
2021 Wang Y, Yuan P, Yan Z, Yang M, Huo Y, Nie Y, Zhu X, Qiao J, Yan L. Single-cell multiomics sequencing reveals the functional regulatory landscape of early embryos. Nature Communications. 12: 1247. PMID 33623021 DOI: 10.1038/s41467-021-21409-8   
2021 He K, Zhang J, Liu J, Cui Y, Liu LG, Ye S, Ban Q, Pan R, Liu D. Functional genomics study of protein inhibitor of activated STAT1 in mouse hippocampal neuronal cells revealed by RNA sequencing. Aging. 13. PMID 33759814 DOI: 10.18632/aging.202749   
2021 Peña JM, Prezioso SM, McFarland KA, Kambara TK, Ramsey KM, Deighan P, Dove SL. Control of a programmed cell death pathway in Pseudomonas aeruginosa by an antiterminator. Nature Communications. 12: 1702. PMID 33731715 DOI: 10.1038/s41467-021-21941-7   
2021 Awadasseid A, Ma X, Wu Y, Zhang W. G-quadruplex stabilization via small-molecules as a potential anti-cancer strategy. Biomedicine & Pharmacotherapy = Biomedecine & Pharmacotherapie. 139: 111550. PMID 33831835 DOI: 10.1016/j.biopha.2021.111550   
2021 Li J, Li N, Zhu L, Zhang Z, Li X, Wang J, Xun H, Zhao J, Wang X, Wang T, Wang H, Liu B, Li Y, Gong L. Mutation of a major CG methylase alters genome-wide lncRNA expression in rice. G3 (Bethesda, Md.). PMID 33617633 DOI: 10.1093/g3journal/jkab049   
2021 Wang Y, Lin W, Brown JE, Chen L, Pandak WM, Hylemon PB, Ren S. 25-hydroxycholesterol 3-sulfate is an endogenous ligand of DNA methyltransferases in hepatocytes. Journal of Lipid Research. 100063. PMID 33705741 DOI: 10.1016/j.jlr.2021.100063   
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). PMID 33688075 DOI: 10.1242/dev.193565   
2021 Rashid M, Shah SG, Verma T, Chaudhary N, Sukanya, Patel VB, Gera PB, Smoot D, Ashaktorab H, Dalal SN, Gupta S. Tumor-specific overexpression of histone gene, H3C14 in gastric cancer is mediated through EGFR-FOXC1 axis. Biochimica Et Biophysica Acta. Gene Regulatory Mechanisms. 194703. PMID 33727172 DOI: 10.1016/j.bbagrm.2021.194703   
2021 Hargadon KM, Bushhouse DZ, Johnson CE, Williams CJ. Generation of Functional Gene Knockout Melanoma Cell Lines by CRISPR-Cas9 Gene Editing. Methods in Molecular Biology (Clifton, N.J.). 2265: 25-46. PMID 33704703 DOI: 10.1007/978-1-0716-1205-7_2   
2021 Kwik M, Hainzl S, Oppelt J, Tichy B, Koller U, Bernardinelli E, Steiner M, Zara G, Nofziger C, Weis S, Paulmichl M, Dossena S, Patsch W, Soyal SM. Selective Activation of CNS and Reference Promoters Is Associated with Distinct Gene Programs Relevant for Neurodegenerative Diseases. International Journal of Molecular Sciences. 22. PMID 33804860 DOI: 10.3390/ijms22073296   
2021 Pelayo MA, Yamaguchi N, Ito T. One factor, many systems: the floral homeotic protein AGAMOUS and its epigenetic regulatory mechanisms. Current Opinion in Plant Biology. 61: 102009. PMID 33640614 DOI: 10.1016/j.pbi.2021.102009   
2021 Rodríguez-Gómez G, Paredes-Villa A, Cervantes-Badillo MG, Gómez-Sonora JP, Jorge-Pérez JH, Cervantes-Roldán R, León-Del-Río A. Tristetraprolin: A cytosolic regulator of mRNA turnover moonlighting as transcriptional corepressor of gene expression. Molecular Genetics and Metabolism. PMID 33795191 DOI: 10.1016/j.ymgme.2021.03.015   
2021 Adhikari S, Erill I, Curtis PD. Transcriptional rewiring of the GcrA/CcrM bacterial epigenetic regulatory system in closely related bacteria. Plos Genetics. 17: e1009433. PMID 33705385 DOI: 10.1371/journal.pgen.1009433   
2021 Milne L, Bayer M, Rapazote-Flores P, Mayer CD, Waugh R, Simpson CG. EORNA, a barley gene and transcript abundance database. Scientific Data. 8: 90. PMID 33767193 DOI: 10.1038/s41597-021-00872-4   
2021 Bloemberg D, Sosa-Miranda CD, Nguyen T, Weeratna RD, McComb S. Self-Cutting and Integrating CRISPR Plasmids Enable Targeted Genomic Integration of Genetic Payloads for Rapid Cell Engineering. The Crispr Journal. 4: 104-119. PMID 33616439 DOI: 10.1089/crispr.2020.0090   
2021 Meijer WJJ, Boer DR, Ares S, Alfonso C, Rojo F, Luque-Ortega JR, Wu LJ. Multiple Layered Control of the Conjugation Process of the Plasmid pLS20. Frontiers in Molecular Biosciences. 8: 648468. PMID 33816561 DOI: 10.3389/fmolb.2021.648468   
2021 Cai X, Huang Y, Chen H, Qi Q, Xu M, Xu P, Wu X. Identification and functional characterization of the transcription factor coding gene in large yellow croaker . Heliyon. 7: e06299. PMID 33718639 DOI: 10.1016/j.heliyon.2021.e06299   
2021 Luo JH, Wang M, Jia GF, He Y. Transcriptome-wide analysis of epitranscriptome and translational efficiency associated with heterosis in maize. Journal of Experimental Botany. PMID 33606877 DOI: 10.1093/jxb/erab074   
2021 Wang L, Jia G, Jiang X, Cao S, Chen ZJ, Song Q. Altered chromatin architecture and gene expression during polyploidization and domestication of soybean. The Plant Cell. PMID 33730165 DOI: 10.1093/plcell/koab081   
2021 Tzani I, Herrmann N, Carillo S, Spargo CA, Hagan R, Barron N, Bones J, Shannon Dilmore W, Clarke C. Tracing production instability in a clonally-derived CHO cell line using single cell transcriptomics. Biotechnology and Bioengineering. PMID 33586781 DOI: 10.1002/bit.27715   
2021 Mehta SJK, Joshi PA, Mishra RK. Molecular and Phenotypic Characterization Following RNAi Mediated Knockdown in . Bio-Protocol. 11: e3924. PMID 33732811 DOI: 10.21769/BioProtoc.3924   
2021 Meng F, Zhao H, Zhu B, Zhang T, Yang M, Li Y, Han Y, Jiang J. Genomic Editing of Intronic Enhancers Unveils Their Role in Fine-Tuning Tissue-Specific Gene Expression in Arabidopsis thaliana. The Plant Cell. PMID 33764459 DOI: 10.1093/plcell/koab093   
2021 Chen H, Franklin Pugh B. What do transcription factors interact with? Journal of Molecular Biology. 166883. PMID 33621520 DOI: 10.1016/j.jmb.2021.166883   
2021 Tian H, Li Y, Wang C, Xu X, Zhang Y, Zeb Q, Zicola J, Fu Y, Turck F, Li L, Lu Z, Liu L. Photoperiod-responsive changes in chromatin accessibility in phloem companion and epidermis cells of Arabidopsis leaves. The Plant Cell. PMID 33684927 DOI: 10.1093/plcell/koaa043   
2021 Poon GMK. The Non-continuum Nature of Eukaryotic Transcriptional Regulation. Advances in Experimental Medicine and Biology. PMID 33616894 DOI: 10.1007/5584_2021_618   
2021 Emrich-Mills TZ, Yates G, Barrett J, Girr P, Grouneva I, Lau CS, Walker CE, Kwok TK, Davey JW, Johnson MP, Mackinder LCM. A recombineering pipeline to clone large and complex genes in Chlamydomonas. The Plant Cell. PMID 33723601 DOI: 10.1093/plcell/koab024   
2021 Tang D, Zhang Z, Zboril E, Wetzel MD, Xu X, Zhang W, Chen L, Liu Z. Pontin Functions as A Transcriptional Co-activator for Retinoic Acid-induced HOX Gene Expression. Journal of Molecular Biology. 166928. PMID 33713676 DOI: 10.1016/j.jmb.2021.166928   
2021 Shen GM, Ou SY, He C, Liu J, He L. Full length sequencing reveals novel transcripts of detoxification genes along with related alternative splicing events and lncRNAs in Phyllotreta striolata. Plos One. 16: e0248749. PMID 33760871 DOI: 10.1371/journal.pone.0248749