Michael E. Schaffer, Ph.D. - Related publications

Boston University, Boston, MA, United States 
Cancer Research
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35 most relevant papers in past 60 days:
Year Citation  Score
2021 Yeung TK, Lau HW, Ma HT, Poon RYC. One-step multiplex toolkit for efficient generation of conditional gene silencing human cell lines. Molecular Biology of the Cell. mbcE21020051. PMID 33979199 DOI: 10.1091/mbc.E21-02-0051   
2021 Panigrahi A, O'Malley BW. Mechanisms of enhancer action: the known and the unknown. Genome Biology. 22: 108. PMID 33858480 DOI: 10.1186/s13059-021-02322-1   
2021 Li S, Wen Z, Ghalandari B, Zhou T, Warden AR, Zhang T, Dai P, Yu Y, Guo W, Liu M, Xie H, Ding X. Single-Cell Immunoblotting based on a Photoclick Hydrogel Enables High-Throughput Screening and Accurate Profiling of Exogenous Gene Expression. Advanced Materials (Deerfield Beach, Fla.). e2101108. PMID 33899289 DOI: 10.1002/adma.202101108   
2021 Kim HJ, Tam PPL, Yang P. Defining cell identity beyond the premise of differential gene expression. Cell Regeneration (London, England). 10: 20. PMID 33931812 DOI: 10.1186/s13619-021-00083-7   
2021 Patel YD, Brown AJ, Zhu J, Rosignoli G, Gibson SJ, Hatton D, James DC. Control of Multigene Expression Stoichiometry in Mammalian Cells Using Synthetic Promoters. Acs Synthetic Biology. PMID 33939428 DOI: 10.1021/acssynbio.0c00643   
2021 Qiu Y, Wang J, Lei J, Roeder K. Identification of cell-type-specific marker genes from co-expression patterns in tissue samples. Bioinformatics (Oxford, England). PMID 33904573 DOI: 10.1093/bioinformatics/btab257   
2021 Åkesson J, Lubovac-Pilav Z, Magnusson R, Gustafsson M. ComHub: Community predictions of hubs in gene regulatory networks. Bmc Bioinformatics. 22: 58. PMID 33563211 DOI: 10.1186/s12859-021-03987-y   
2021 Akinci E, Hamilton MC, Khowpinitchai B, Sherwood RI. Using CRISPR to understand and manipulate gene regulation. Development (Cambridge, England). 148. PMID 33913466 DOI: 10.1242/dev.182667   
2021 Miao Z, Balzer MS, Ma Z, Liu H, Wu J, Shrestha R, Aranyi T, Kwan A, Kondo A, Pontoglio M, Kim J, Li M, Kaestner KH, Susztak K. Single cell regulatory landscape of the mouse kidney highlights cellular differentiation programs and disease targets. Nature Communications. 12: 2277. PMID 33859189 DOI: 10.1038/s41467-021-22266-1   
2021 Orsi RH, Chaturongakul S, Oliver HF, Ponnala L, Gaballa A, Wiedmann M. Alternative σ Factors Regulate Overlapping as Well as Distinct Stress Response and Metabolic Functions in under Stationary Phase Stress Condition. Pathogens (Basel, Switzerland). 10. PMID 33915780 DOI: 10.3390/pathogens10040411   
2021 Champion M, Chiquet J, Neuvial P, Elati M, Radvanyi F, Birmelé E. Identification of deregulation mechanisms specific to cancer subtypes. Journal of Bioinformatics and Computational Biology. 19: 2140003. PMID 33653235 DOI: 10.1142/S0219720021400035   
2021 Steinauer N, Zhang K, Guo C, Zhang J. Computational modeling of gene-specific transcriptional repression, activation and chromatin interactions in leukemogenesis by LASSO-regularized logistic regression. Ieee/Acm Transactions On Computational Biology and Bioinformatics. PMID 33961561 DOI: 10.1109/TCBB.2021.3078128   
2021 Chen Z, Yang Z, Yuan X, Zhang X, Hao P. scSensitiveGeneDefine: sensitive gene detection in single-cell RNA sequencing data by Shannon entropy. Bmc Bioinformatics. 22: 211. PMID 33888056 DOI: 10.1186/s12859-021-04136-1   
2021 Harris BD, Crow M, Fischer S, Gillis J. Single-cell co-expression analysis reveals that transcriptional modules are shared across cell types in the brain. Cell Systems. PMID 34015329 DOI: 10.1016/j.cels.2021.04.010   
2021 Li WF, Kang Y, Zhang Y, Zang QL, Qi LW. Concerted control of the LaRAV1-LaCDKB1;3 module by temperature during dormancy release and reactivation of larch. Tree Physiology. PMID 33847364 DOI: 10.1093/treephys/tpab052   
2021 Wuelling M, Neu C, Thiesen AM, Kitanovski S, Cao Y, Lange A, Westendorf AM, Hoffmann D, Vortkamp A. Epigenetic Mechanisms Mediating Cell State Transitions in Chondrocytes. Journal of Bone and Mineral Research : the Official Journal of the American Society For Bone and Mineral Research. PMID 33534175 DOI: 10.1002/jbmr.4263   
2021 Wu W, Liu Y, Dai Q, Yan X, Wang Z. G2S3: A gene graph-based imputation method for single-cell RNA sequencing data. Plos Computational Biology. 17: e1009029. PMID 34003861 DOI: 10.1371/journal.pcbi.1009029   
2021 Dwyer K, Agarwal N, Pile L, Ansari A. Gene Architecture Facilitates Intron-Mediated Enhancement of Transcription. Frontiers in Molecular Biosciences. 8: 669004. PMID 33968994 DOI: 10.3389/fmolb.2021.669004   
2021 Hossain SMM, Halsana AA, Khatun L, Ray S, Mukhopadhyay A. Discovering key transcriptomic regulators in pancreatic ductal adenocarcinoma using Dirichlet process Gaussian mixture model. Scientific Reports. 11: 7853. PMID 33846515 DOI: 10.1038/s41598-021-87234-7   
2021 Wang P, Yan Z, Zong X, Yan Q, Zhang J. Genome-Wide Analysis and Expression Profiles of the Dof Family in under Temperature, Salt and ABA Treatment. Plants (Basel, Switzerland). 10. PMID 33922432 DOI: 10.3390/plants10050850   
2021 Górska AM, Gouveia P, Borba AR, Zimmermann A, Serra TS, Carvalho P, Lourenço TF, Oliveira MM, Peterhänsel C, Saibo NJM. ZmOrphan94 Transcription Factor Downregulates Gene Expression in Maize Bundle Sheath Cells. Frontiers in Plant Science. 12: 559967. PMID 33897718 DOI: 10.3389/fpls.2021.559967   
2021 Simmons A, Palecek SP. Rational, unbiased selection of reference genes for pluripotent stem cell-derived cardiomyocytes. Tissue Engineering. Part C, Methods. PMID 33843289 DOI: 10.1089/ten.TEC.2021.0023   
2021 Fan K, Moore JE, Zhang XO, Weng Z. Genetic and epigenetic features of promoters with ubiquitous chromatin accessibility support ubiquitous transcription of cell-essential genes. Nucleic Acids Research. PMID 33978759 DOI: 10.1093/nar/gkab345   
2021 Wang Y, Liu A. Genomic Characterization and Expression Analysis of the SnRK Family Genes in Kimura et Migo (Orchidaceae). Plants (Basel, Switzerland). 10. PMID 33802577 DOI: 10.3390/plants10030479   
2021 Patel N, Bush WS. Modeling transcriptional regulation using gene regulatory networks based on multi-omics data sources. Bmc Bioinformatics. 22: 200. PMID 33874910 DOI: 10.1186/s12859-021-04126-3   
2021 Yadav M, Pradhan D, Singh RP. Integrated analysis and identification of nine-gene signature associated to oral squamous cell carcinoma pathogenesis. 3 Biotech. 11: 215. PMID 33928003 DOI: 10.1007/s13205-021-02737-4   
2021 Ing-Simmons E, Vaid R, Bing XY, Levine M, Mannervik M, Vaquerizas JM. Independence of chromatin conformation and gene regulation during Drosophila dorsoventral patterning. Nature Genetics. 53: 487-499. PMID 33795866 DOI: 10.1038/s41588-021-00799-x   
2021 Zhu W, Zhang M, Li J, Zhao H, Ge W, Zhang K. Identification and Analysis of Family in . Evolutionary Bioinformatics Online. 17: 1176934321994127. PMID 33953533 DOI: 10.1177/1176934321994127   
2021 Tang HY, Goldman AR, Zhang X, Speicher DW, Dang CV. Measuring MYC-Mediated Metabolism in Tumorigenesis. Methods in Molecular Biology (Clifton, N.J.). 2318: 231-239. PMID 34019293 DOI: 10.1007/978-1-0716-1476-1_11   
2021 Kim J, Han W. Fusion Genes in Breast Cancer. Advances in Experimental Medicine and Biology. 1187: 147-157. PMID 33983577 DOI: 10.1007/978-981-32-9620-6_7   
2021 Huang D, Kosentka PZ, Liu W. Synthetic biology approaches in regulation of targeted gene expression. Current Opinion in Plant Biology. 63: 102036. PMID 33930839 DOI: 10.1016/j.pbi.2021.102036   
2021 Golicz AA, Allu AD, Li W, Lohani N, Singh MB, Bhalla PL. A dynamic intron retention program regulates the expression of several hundred genes during pollen meiosis. Plant Reproduction. PMID 34019149 DOI: 10.1007/s00497-021-00411-6   
2021 Xue W, Zheng X, Hu X, Zhang Y. Research and Clinical Significance of the Differentially Expressed Genes TP63 and LMO4 in Human Immunodeficiency Virus-Related Penile Squamous Cell Carcinoma. American Journal of Men's Health. 15: 15579883211011380. PMID 33906487 DOI: 10.1177/15579883211011380   
2021 Yang Y, Cai Y, Zhang Y, Yi X, Xu Z. Identification of Molecular Subtypes and Key Genes of Atherosclerosis Through Gene Expression Profiles. Frontiers in Molecular Biosciences. 8: 628546. PMID 33996893 DOI: 10.3389/fmolb.2021.628546   
2021 Shen J, Zhang H, Lu C, Gu J, Zhang Y, Hu J. Microarray analysis of the time-dependent expression profiles of long non-coding RNAs in the progression of vein graft stenotic disease. Experimental and Therapeutic Medicine. 21: 635. PMID 33968166 DOI: 10.3892/etm.2021.10067