John Reinitz - Related publications

Affiliations: 
Stony Brook University, Stony Brook, NY, United States 
Area:
segment determination, transcriptional regulation
Website:
http://flyex.ams.sunysb.edu/
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
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 Zinani OQH, Keseroğlu K, Özbudak EM. Regulatory mechanisms ensuring coordinated expression of functionally related genes. Trends in Genetics : Tig. PMID 34376301 DOI: 10.1016/j.tig.2021.07.008   
2021 Sun S, Roedelsperger C, Sommer RJ. Single worm transcriptomics identifies a developmental core network of oscillating genes with deep conservation across nematodes. Genome Research. PMID 34301622 DOI: 10.1101/gr.275303.121   
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 Ramos ML, Park D, Lim J, Park J, Tran K, Garcia EJ, Green E. Adaptive local false discovery rate procedures for highly spiky data and their application RNA sequencing data of yeast SET4 deletion mutants. Biometrical Journal. Biometrische Zeitschrift. PMID 34320248 DOI: 10.1002/bimj.202000256   
2021 Ramos ML, Park D, Lim J, Park J, Tran K, Garcia EJ, Green E. Adaptive local false discovery rate procedures for highly spiky data and their application RNA sequencing data of yeast SET4 deletion mutants. Biometrical Journal. Biometrische Zeitschrift. PMID 34320248 DOI: 10.1002/bimj.202000256   
2021 Das S, Rai SN. Statistical Approach of Gene Set Analysis with Quantitative Trait Loci for Crop Gene Expression Studies. Entropy (Basel, Switzerland). 23. PMID 34441085 DOI: 10.3390/e23080945   
2021 Sunaryo W. Protocol for screening and expression studies of T-DNA and tagging-based insertional mutants in . 3 Biotech. 11: 332. PMID 34194915 DOI: 10.1007/s13205-021-02868-8   
2021 Li G, Gu X, Gui S, Guo J, Yi T, Jin D. Transcriptome Analysis of Hormone-and Cuticle-Related Genes in the Development Process of Deutonymph in . Insects. 12. PMID 34442302 DOI: 10.3390/insects12080736   
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 Kim S, Park J, Kim D, Choi S, Moon H, Young Shin J, Kim JE, Son H. Development of a versatile copper-responsive gene expression system in the plant-pathogenic fungus Fusarium graminearum. Molecular Plant Pathology. PMID 34390122 DOI: 10.1111/mpp.13118   
2021 Sant DW, Sinclair M, Mungall CJ, Schulz S, Zerbino D, Lovering RC, Logie C, Eilbeck K. Sequence ontology terminology for gene regulation. Biochimica Et Biophysica Acta. Gene Regulatory Mechanisms. 194745. PMID 34389511 DOI: 10.1016/j.bbagrm.2021.194745   
2021 Ribeiro DM, Rubinacci S, Ramisch A, Hofmeister RJ, Dermitzakis ET, Delaneau O. The molecular basis, genetic control and pleiotropic effects of local gene co-expression. Nature Communications. 12: 4842. PMID 34376650 DOI: 10.1038/s41467-021-25129-x   
2021 Xie S, Zeng Q, Ouyang S, Liang Y, Xiao C. Bioinformatics analysis of epigenetic and SNP-related molecular markers in systemic lupus erythematosus. American Journal of Translational Research. 13: 6312-6329. PMID 34306371   
2021 Chey M, Jose AM. Heritable epigenetic changes at single genes: challenges and opportunities in Caenorhabditis elegans. Trends in Genetics : Tig. PMID 34493403 DOI: 10.1016/j.tig.2021.08.011   
2021 Yang D, Zhu X. Gene Correlation Guided Gene Selection for Microarray Data Classification. Biomed Research International. 2021: 6490118. PMID 34435048 DOI: 10.1155/2021/6490118   
2021 Kang DR, Zhu Y, Li SL, Ai PH, Khan MA, Ding HX, Wang Y, Wang ZC. Transcriptome analysis of differentially expressed genes in chrysanthemum RNA interference lines. Physiology and Molecular Biology of Plants : An International Journal of Functional Plant Biology. 27: 1455-1468. PMID 34366589 DOI: 10.1007/s12298-021-01022-1   
2021 Leifer I, Sánchez-Pérez M, Ishida C, Makse HA. Predicting synchronized gene coexpression patterns from fibration symmetries in gene regulatory networks in bacteria. Bmc Bioinformatics. 22: 363. PMID 34238210 DOI: 10.1186/s12859-021-04213-5   
2021 Kumar M, Kherawat BS, Dey P, Saha D, Singh A, Bhatia SK, Ghodake GS, Kadam AA, Kim HU, Manorama, Chung SM, Kesawat MS. Genome-Wide Identification and Characterization of PIN-FORMED (PIN) Gene Family Reveals Role in Developmental and Various Stress Conditions in L. International Journal of Molecular Sciences. 22. PMID 34299014 DOI: 10.3390/ijms22147396   
2021 Kumar M, Kherawat BS, Dey P, Saha D, Singh A, Bhatia SK, Ghodake GS, Kadam AA, Kim HU, Manorama, Chung SM, Kesawat MS. Genome-Wide Identification and Characterization of PIN-FORMED (PIN) Gene Family Reveals Role in Developmental and Various Stress Conditions in L. International Journal of Molecular Sciences. 22. PMID 34299014 DOI: 10.3390/ijms22147396   
2021 Chun KH. Discovery of Cellular RhoA Functions by the Integrated Application of Gene Set Enrichment Analysis. Biomolecules & Therapeutics. PMID 34429388 DOI: 10.4062/biomolther.2021.075   
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 Wang Z, Yu F, Shi D, Wang Y, Xu F, Zeng S. Selection and validation of reference genes for RT-qPCR analysis in Merr. 3 Biotech. 11: 403. PMID 34458065 DOI: 10.1007/s13205-021-02954-x   
2021 Zhu Z, Gregg K, Zhou W. iRGvalid: A Robust Method for Optimal Reference Gene Validation. Frontiers in Genetics. 12: 716653. PMID 34422018 DOI: 10.3389/fgene.2021.716653   
2021 Xu GF, Gong CC, Lyu H, Deng HM, Zheng SC. Dynamic transcriptome analysis of Bombyx mori embryonic development. Insect Science. PMID 34388292 DOI: 10.1111/1744-7917.12934   
2021 Wen X, Zhang Y, Cheng H, An J, Guo Y, Wang L, Wang M. A CRISPR/dCas9-assisted system to clone toxic genes in Escherichia coli. Biochimica Et Biophysica Acta. General Subjects. 129994. PMID 34450195 DOI: 10.1016/j.bbagen.2021.129994   
2021 Ren J, Zhang N, Li X, Sun X, Song J. Identification of reference genes for gene expression studies among different developmental stages of murine hearts. Bmc Developmental Biology. 21: 13. PMID 34496746 DOI: 10.1186/s12861-021-00244-6   
2021 Natarajan P, Ahn E, Reddy UK, Perumal R, Prom LK, Magill C. RNA-Sequencing in Resistant (QL3) and Susceptible (Theis) Sorghum Cultivars Inoculated With Johnsongrass Isolates of . Frontiers in Genetics. 12: 722519. PMID 34456979 DOI: 10.3389/fgene.2021.722519   
2021 Zimmer WE, Schwartz RJ. Transient Transgenics: An Efficient Method to Identify Gene Regulatory Elements. Methods in Molecular Biology (Clifton, N.J.). 2319: 119-136. PMID 34331250 DOI: 10.1007/978-1-0716-1480-8_14   
2021 Yang AP, Wang YS, Huang C, Lv ZC, Liu WX, Bi SY, Wan FH, Wu Q, Zhang GF. Screening Potential Reference Genes in with Real-Time Quantitative PCR Analysis under Different Experimental Conditions. Genes. 12. PMID 34440427 DOI: 10.3390/genes12081253   
2021 Cheng M, Yuan H, Wang R, Zou J, Liang T, Yang F, Li S. Genome-Wide Identification and Analysis of the Metallothionein Genes in Genus. International Journal of Molecular Sciences. 22. PMID 34502554 DOI: 10.3390/ijms22179651   
2021 Wee Y, Liu Y, Zhao M. Identification of consistent post-translational regulatory triplets related to oncogenic and tumour suppressive modulators in childhood acute lymphoblastic leukemia. Peerj. 9: e11803. PMID 34316412 DOI: 10.7717/peerj.11803   
2021 Rodionova IA, Gao Y, Sastry A, Hefner Y, Lim HG, Rodionov DA, Saier MH, Palsson BO. Identification of a transcription factor, PunR, that regulates the purine and purine nucleoside transporter punC in E. coli. Communications Biology. 4: 991. PMID 34413462 DOI: 10.1038/s42003-021-02516-0   
2021 Allen AM, B Sokolowski M. Expression of the gene in adult . Journal of Neurogenetics. 1-21. PMID 34382904 DOI: 10.1080/01677063.2021.1941946   
2021 Lü BB, Wu GG, Sun Y, Zhang LS, Wu X, Jiang W, Li P, Huang YN, Wang JB, Zhao YC, Liu H, Song LL, Mo Q, Pan AH, Yang Y, et al. Comparative Transcriptome and Endophytic Bacterial Community Analysis of SH. Frontiers in Microbiology. 12: 682356. PMID 34354681 DOI: 10.3389/fmicb.2021.682356   
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 Wang X, Fu Y, Wang M, Niu G. Synthetic Cellobiose-Inducible Regulatory Systems Allow Tight and Dynamic Controls of Gene Expression in . Acs Synthetic Biology. PMID 34347449 DOI: 10.1021/acssynbio.1c00152   
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 Liang Y, Wang M, Liu Y, Wang C, Takahashi K, Naruse K. Meta-Analysis-Assisted Detection of Gravity-Sensitive Genes in Human Vascular Endothelial Cells. Frontiers in Cell and Developmental Biology. 9: 689662. PMID 34422812 DOI: 10.3389/fcell.2021.689662   
2021 Alatan H, Chen Y, Zhou J, Wang L. Extracellular Matrix-Related Hubs Genes Have Adverse Effects on Gastric Adenocarcinoma Prognosis Based on Bioinformatics Analysis. Genes. 12. PMID 34356118 DOI: 10.3390/genes12071104   
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 Zhang X, Liu G, Zhang N, Hua K. A time-resolved transcriptome landscape of the developing mouse ovary. Biochemical and Biophysical Research Communications. 572: 57-64. PMID 34343835 DOI: 10.1016/j.bbrc.2021.07.083   
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 AbuQamar SF, El-Tarabily KA, Sham A. Co-expression Networks in Predicting Transcriptional Gene Regulation. Methods in Molecular Biology (Clifton, N.J.). 2328: 1-11. PMID 34251616 DOI: 10.1007/978-1-0716-1534-8_1   
2021 Gong J, Shi T, Li Y, Wang H, Li F. Genome-Wide Identification and Characterization of Calcium Metabolism Related Gene Families in and Their Regulation by Under High Calcium Stress. Frontiers in Plant Science. 12: 707496. PMID 34456948 DOI: 10.3389/fpls.2021.707496   
2021 Martínez-Pinteño A, Gassó P, Prohens L, Segura AG, Parellada M, Saiz-Ruiz J, Cuesta MJ, Bernardo M, Lafuente A, Mas S, Rodríguez N. Identification of as a Key Gene Involved in Antipsychotic-Induced Metabolic Dysregulation Based on Integrative Bioinformatics Analysis of Multi-Tissue Gene Expression Data. Frontiers in Pharmacology. 12: 729474. PMID 34483940 DOI: 10.3389/fphar.2021.729474   
2021 Handzlik JE, Loh YL, Manu. Dynamic Modeling of Transcriptional Gene Regulatory Networks. Methods in Molecular Biology (Clifton, N.J.). 2328: 67-97. PMID 34251620 DOI: 10.1007/978-1-0716-1534-8_5   
2021 Handzlik JE, Loh YL, Manu. Dynamic Modeling of Transcriptional Gene Regulatory Networks. Methods in Molecular Biology (Clifton, N.J.). 2328: 67-97. PMID 34251620 DOI: 10.1007/978-1-0716-1534-8_5   
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 Zhang X, Kim K, Ye Z, Wu J, Qiao F, Zou Q. Clustering of genes from microarray data using hierarchical projective adaptive resonance theory: a case study of tuberculosis. Briefings in Functional Genomics. PMID 34369558 DOI: 10.1093/bfgp/elab034