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For: Belyaeva A, Venkatachalapathy S, Nagarajan M, Shivashankar GV, Uhler C. Network analysis identifies chromosome intermingling regions as regulatory hotspots for transcription. Proc Natl Acad Sci U S A 2017;114:13714-9. [PMID: 29229825 DOI: 10.1073/pnas.1708028115] [Cited by in Crossref: 27] [Cited by in F6Publishing: 24] [Article Influence: 5.4] [Reference Citation Analysis]
Number Citing Articles
1 Corvaisier M, Alvarado-Kristensson M. Non-Canonical Functions of the Gamma-Tubulin Meshwork in the Regulation of the Nuclear Architecture. Cancers (Basel) 2020;12:E3102. [PMID: 33114224 DOI: 10.3390/cancers12113102] [Cited by in Crossref: 4] [Cited by in F6Publishing: 4] [Article Influence: 2.0] [Reference Citation Analysis]
2 Tan ZW, Guarnera E, Berezovsky IN. Exploring chromatin hierarchical organization via Markov State Modelling. PLoS Comput Biol 2018;14:e1006686. [PMID: 30596637 DOI: 10.1371/journal.pcbi.1006686] [Cited by in Crossref: 6] [Cited by in F6Publishing: 4] [Article Influence: 1.5] [Reference Citation Analysis]
3 Pazos F, Garcia-Moreno A, Oliveros JC. Automatic detection of genomic regions with informative epigenetic patterns. BMC Genomics 2018;19:847. [PMID: 30486775 DOI: 10.1186/s12864-018-5286-5] [Reference Citation Analysis]
4 Diament A, Tuller T. Modeling three-dimensional genomic organization in evolution and pathogenesis. Semin Cell Dev Biol 2019;90:78-93. [PMID: 30030143 DOI: 10.1016/j.semcdb.2018.07.008] [Cited by in Crossref: 6] [Cited by in F6Publishing: 5] [Article Influence: 1.5] [Reference Citation Analysis]
5 Peter M, Aschauer DF, Rose R, Sinning A, Grössl F, Kargl D, Kraitsy K, Burkard TR, Luhmann HJ, Haubensak W, Rumpel S. Rapid nucleus-scale reorganization of chromatin in neurons enables transcriptional adaptation for memory consolidation. PLoS One 2021;16:e0244038. [PMID: 33951054 DOI: 10.1371/journal.pone.0244038] [Cited by in F6Publishing: 1] [Reference Citation Analysis]
6 Salem NA, Mahnke AH, Wells AB, Tseng AM, Yevtushok L, Zymak-Zakutnya N, Wertlecki W, Chambers CD, Miranda RC; Collaborative Initiative on Fetal Alcohol Spectrum Disorders (CIFASD). Association between fetal sex and maternal plasma microRNA responses to prenatal alcohol exposure: evidence from a birth outcome-stratified cohort. Biol Sex Differ 2020;11:51. [PMID: 32912312 DOI: 10.1186/s13293-020-00327-2] [Cited by in Crossref: 2] [Cited by in F6Publishing: 2] [Article Influence: 1.0] [Reference Citation Analysis]
7 Uhler C, Shivashankar GV. Nuclear Mechanopathology and Cancer Diagnosis. Trends Cancer 2018;4:320-31. [PMID: 29606315 DOI: 10.1016/j.trecan.2018.02.009] [Cited by in Crossref: 53] [Cited by in F6Publishing: 45] [Article Influence: 13.3] [Reference Citation Analysis]
8 Zhou M, Li Y, Lin S, Chen Y, Qian Y, Zhao Z, Fan H. H3K9me3, H3K36me3, and H4K20me3 Expression Correlates with Patient Outcome in Esophageal Squamous Cell Carcinoma as Epigenetic Markers. Dig Dis Sci 2019;64:2147-57. [PMID: 30788686 DOI: 10.1007/s10620-019-05529-2] [Cited by in Crossref: 10] [Cited by in F6Publishing: 8] [Article Influence: 3.3] [Reference Citation Analysis]
9 Szczepińska T, Rusek AM, Plewczynski D. Intermingling of chromosome territories. Genes Chromosomes Cancer 2018;58:500-6. [DOI: 10.1002/gcc.22736] [Cited by in Crossref: 9] [Cited by in F6Publishing: 8] [Article Influence: 3.0] [Reference Citation Analysis]
10 MacPhillamy C, Pitchford WS, Alinejad-Rokny H, Low WY. Opportunity to improve livestock traits using 3D genomics. Anim Genet 2021;52:785-98. [PMID: 34494283 DOI: 10.1111/age.13135] [Reference Citation Analysis]
11 Yang KD, Damodaran K, Venkatachalapathy S, Soylemezoglu AC, Shivashankar GV, Uhler C. Predicting cell lineages using autoencoders and optimal transport. PLoS Comput Biol 2020;16:e1007828. [PMID: 32343706 DOI: 10.1371/journal.pcbi.1007828] [Cited by in Crossref: 8] [Cited by in F6Publishing: 4] [Article Influence: 4.0] [Reference Citation Analysis]
12 Amar K, Wei F, Chen J, Wang N. Effects of forces on chromatin. APL Bioeng 2021;5:041503. [PMID: 34661040 DOI: 10.1063/5.0065302] [Reference Citation Analysis]
13 Sahaf Naeini A, Farooq A, Bjørås M, Wang J. IGAP-integrative genome analysis pipeline reveals new gene regulatory model associated with nonspecific TF-DNA binding affinity. Comput Struct Biotechnol J 2020;18:1270-86. [PMID: 32612751 DOI: 10.1016/j.csbj.2020.05.024] [Reference Citation Analysis]
14 Foster WJ, Ayzel G, Münchmeyer J, Rettelbach T, Kitzmann NH, Isson TT, Mutti M, Aberhan M. Machine learning identifies ecological selectivity patterns across the end-Permian mass extinction. Paleobiology. [DOI: 10.1017/pab.2022.1] [Reference Citation Analysis]
15 Tian D, Zhang R, Zhang Y, Zhu X, Ma J. MOCHI enables discovery of heterogeneous interactome modules in 3D nucleome. Genome Res 2020;30:227-38. [PMID: 31907193 DOI: 10.1101/gr.250316.119] [Cited by in Crossref: 5] [Cited by in F6Publishing: 4] [Article Influence: 2.5] [Reference Citation Analysis]
16 Evers TMJ, Holt LJ, Alberti S, Mashaghi A. Reciprocal regulation of cellular mechanics and metabolism. Nat Metab 2021;3:456-68. [PMID: 33875882 DOI: 10.1038/s42255-021-00384-w] [Cited by in Crossref: 2] [Cited by in F6Publishing: 1] [Article Influence: 2.0] [Reference Citation Analysis]
17 Sun J, Chen J, Mohagheghian E, Wang N. Force-induced gene up-regulation does not follow the weak power law but depends on H3K9 demethylation. Sci Adv 2020;6:eaay9095. [PMID: 32270037 DOI: 10.1126/sciadv.aay9095] [Cited by in Crossref: 15] [Cited by in F6Publishing: 12] [Article Influence: 7.5] [Reference Citation Analysis]
18 Sandoval-Velasco M, Rodríguez JA, Perez Estrada C, Zhang G, Lieberman Aiden E, Marti-Renom MA, Gilbert MTP, Smith O. Hi-C chromosome conformation capture sequencing of avian genomes using the BGISEQ-500 platform. Gigascience 2020;9:giaa087. [PMID: 32845983 DOI: 10.1093/gigascience/giaa087] [Cited by in Crossref: 1] [Article Influence: 0.5] [Reference Citation Analysis]
19 Baek J, Lopez PA, Lee S, Kim TS, Kumar S, Schaffer DV. Egr1 is a 3D matrix-specific mediator of mechanosensitive stem cell lineage commitment. Sci Adv 2022;8:eabm4646. [PMID: 35427160 DOI: 10.1126/sciadv.abm4646] [Reference Citation Analysis]
20 Rada-Iglesias A, Grosveld FG, Papantonis A. Forces driving the three-dimensional folding of eukaryotic genomes. Mol Syst Biol 2018;14:e8214. [PMID: 29858282 DOI: 10.15252/msb.20188214] [Cited by in Crossref: 51] [Cited by in F6Publishing: 44] [Article Influence: 12.8] [Reference Citation Analysis]
21 George P, Kinney NA, Liang J, Onufriev AV, Sharakhov IV. Three-dimensional Organization of Polytene Chromosomes in Somatic and Germline Tissues of Malaria Mosquitoes. Cells 2020;9:E339. [PMID: 32024176 DOI: 10.3390/cells9020339] [Cited by in Crossref: 6] [Cited by in F6Publishing: 5] [Article Influence: 3.0] [Reference Citation Analysis]
22 Shivashankar GV. Mechanical regulation of genome architecture and cell-fate decisions. Curr Opin Cell Biol 2019;56:115-21. [PMID: 30554028 DOI: 10.1016/j.ceb.2018.12.001] [Cited by in Crossref: 20] [Cited by in F6Publishing: 15] [Article Influence: 5.0] [Reference Citation Analysis]
23 Lee SH, Kim Y, Lee S, Durang X, Stenberg P, Jeon JH, Lizana L. Mapping the spectrum of 3D communities in human chromosome conformation capture data. Sci Rep 2019;9:6859. [PMID: 31048738 DOI: 10.1038/s41598-019-42212-y] [Cited by in Crossref: 3] [Cited by in F6Publishing: 2] [Article Influence: 1.0] [Reference Citation Analysis]
24 Umlauf D, Mourad R. The 3D genome: From fundamental principles to disease and cancer. Semin Cell Dev Biol. 2019;90:128-137. [PMID: 30030142 DOI: 10.1016/j.semcdb.2018.07.002] [Cited by in Crossref: 6] [Cited by in F6Publishing: 5] [Article Influence: 1.5] [Reference Citation Analysis]
25 Cacabelos R, Tellado I, Cacabelos P. The Epigenetic Machinery in the Life Cycle and Pharmacoepigenetics. Pharmacoepigenetics. Elsevier; 2019. pp. 1-100. [DOI: 10.1016/b978-0-12-813939-4.00001-2] [Cited by in Crossref: 3] [Article Influence: 1.0] [Reference Citation Analysis]
26 Venkatachalapathy S, Jokhun DS, Shivashankar GV. Multivariate analysis reveals activation-primed fibroblast geometric states in engineered 3D tumor microenvironments. Mol Biol Cell 2020;31:803-12. [PMID: 32023167 DOI: 10.1091/mbc.E19-08-0420] [Cited by in Crossref: 1] [Cited by in F6Publishing: 2] [Article Influence: 0.5] [Reference Citation Analysis]
27 Chai H, Xu F, Diadamo A, Grommisch B, Mao H, Li P, Ban Y. Cytogenomic Characterization of Giant Ring or Rod Marker Chromosome in Four Cases of Well-Differentiated and Dedifferentiated Liposarcoma. Case Reports in Genetics 2022;2022:1-6. [DOI: 10.1155/2022/6341207] [Reference Citation Analysis]
28 Lezcano ÓM, Sánchez-Polo M, Ruiz JL, Gómez-Díaz E. Chromatin Structure and Function in Mosquitoes. Front Genet 2020;11:602949. [PMID: 33365050 DOI: 10.3389/fgene.2020.602949] [Cited by in Crossref: 1] [Cited by in F6Publishing: 1] [Article Influence: 0.5] [Reference Citation Analysis]