2022
Native FISH: A low- and high-throughput assay to analyze the alternative lengthening of telomere (ALT) pathway
Azeroglu B, Ozbun L, Pegoraro G, Lazzerini Denchi E.
Methods in Cell Biology. Academic Press; 2022.
HiFENS: high-throughput FISH detection of endogenous pre-mRNA splicing isoforms
Shilo A, Pegoraro G, Misteli T.
Nucleic Acids Res [Internet]. 2022 Oct 16;dx.doi.org/10.1093/nar/gkac869 PMID: 36243969
Nuclear position modulates long-range chromatin interactions
Finn EH, Misteli T
PLoS Genet. 2022 Oct;18(10): e1010451. PMCID: PMC9581366
High-throughput imaging of mRNA at the single-cell level in human primary immune cells
Gadkari M, Sun J, Carcamo A, Alessi H, Hu Z, Fraser IDC, Pegoraro G, Franco LM
NURF301 contributes to gypsy chromatin insulator-mediated nuclear organization
Chen S, Rosin LF, Pegoraro G, Moshkovich N, Murphy PJ, Yu G, Lei EP
Nucleic Acids Res. 2022 Aug 12;50(14):7906–7924. PMCID: PMC9371915
Large-scale mapping of positional changes of hypoxia-responsive genes upon activation
Nakayama K, Shachar S, Finn EH, Sato H, Hirakawa A, Misteli T
Mol Biol Cell. 2022 Jul 1;33(8):ar72. PMCID: PMC9635277
Identification of epigenetic modulators as determinants of nuclear size and shape
Schibler A, Jevtic P, Pegoraro G, Levy DL, Misteli T
[Internet]. bioRxiv. 2022 [cited 2022 Dec 21]. p. 2022.05.28.493845. Available from:https://www.biorxiv.org/content/biorxiv/early/2022/05/29/2022.05.28.493845
Activation of endoplasmic reticulum stress via clustering of the inner nuclear membrane protein SUN2
Vidak S, Serebryannyy LA, Pegoraro G, Misteli T
bioRxiv. 2022 [cited 2022 Dec 21]. p. 2021.09.14.460295. Available from: https://www.biorxiv.org/content/10.1101/2021.09.14.460295v2
HiIDDD: a high-throughput imaging pipeline for the quantitative detection of DNA damage in primary human immune cells
Gallant K, Bektas A, Kaileh M, Lustig A, Ferrucci L, Pegoraro G, Misteli T
Sci Rep. Nature Publishing Group; 2022 Apr 15;12(1):6335. PMCID: PMC9022135
Chondroitin Sulfate Proteoglycans Are De Facto Cellular Receptors for Human Papillomavirus 16 under High Serum Conditions
Fons NR, Kines RC, Thompson CD, Day PM, Lowy DR, Schiller JT
J Virol. 2022 Apr 13;96(7): e0185721. PMCID: PMC9006963
The glucocorticoid receptor associates with the cohesin loader NIPBL to promote long-range gene regulation
Rinaldi L, Fettweis G, Kim S, Garcia DA, Fujiwara S, Johnson TA, Tettey TT, Ozbun L, Pegoraro G, Puglia M, Blagoev B, Upadhyaya A, Stavreva DA, Hager GL
Sci Adv. 2022 Apr;8(13): eabj8360. PMCID: PMC8967222
MYC amplifies gene expression through global changes in transcription factor dynamics
Patange S, Ball DA, Wan Y, Karpova TS, Girvan M, Levens D, Larson DR
Cell Rep. 2022 Jan 25;38(4):110292. PMCID: PMC8849550
High-Throughput DNA FISH (hiFISH)
Finn E, Misteli T, Pegoraro G
In: Sexton T, editor. Spatial Genome Organization: Methods and Protocols. New York, NY: Springer US; 2022. p. 245–274.
2021
The ETS transcription factor ERF controls the exit from the naïve pluripotent state in a MAPK-dependent manner
Vega-Sendino M, Olbrich T, Tillo D, Tran AD, Domingo CN, Franco M, FitzGerald PC, Kruhlak MJ, Ruiz S
Sci Adv. 2021 Oct;7(40): eabg8306. PMID: 34597136
CTCF is a barrier for 2C-like reprogramming
Olbrich T, Vega-Sendino M, Tillo D, Wu W, Zolnerowich N, Pavani R, Tran AD, Domingo CN, Franco M, Markiewicz-Potoczny M, Pegoraro G, FitzGerald PC, Kruhlak MJ, Lazzerini-Denchi E, Nora EP, Nussenzweig A, Ruiz S
Nat Commun. Nature Publishing Group; 2021 Aug 11;12(1):4856. PMCID: PMC8358036
Mapping multiple endocrine disrupting activities in Virginia rivers using effect-based assays
Stavreva DA, Collins M, McGowan A, Varticovski L, Raziuddin R, Brody DO, Zhao J, Lee J, Kuehn R, Dehareng E, Mazza N, Pegoraro G, Hager GL
Sci Total Environ. 2021 Jun 15; 773:145602. PMCID: PMC8026610
Dynamic imaging of nascent RNA reveals general principles of transcription dynamics and stochastic splice site selection
Wan Y, Anastasakis DG, Rodriguez J, Palangat M, Gudla P, Zaki G, Tandon M, Pegoraro G, Chow CC, Hafner M, Larson DR
Cell. 2021 May 27;184(11):2878–2895.e20. PMCID: PMC8183334
An intrinsically disordered region-mediated confinement state contributes to the dynamics and function of transcription factors
Garcia DA, Johnson TA, Presman DM, Fettweis G, Wagh K, Rinaldi L, Stavreva DA, Paakinaho V, Jensen RAM, Mandrup S, Upadhyaya A, Hager GL
Mol Cell. 2021 Apr 1;81(7):1484–1498.e6. PMCID: PMC9258326
Self-assembly of multi-component mitochondrial nucleoids via phase separation
Feric M, Demarest TG, Tian J, Croteau DL, Bohr VA, Misteli T
EMBO J. 2021 Mar 15;40(6): e107165. PMCID: PMC7957436
2020
A Deep Learning Pipeline for Nucleus Segmentation
Zaki G, Gudla PR, Lee K, Kim J, Ozbun L, Shachar S, Gadkari M, Sun J, Fraser IDC, Franco LM, Misteli T, Pegoraro G
Cytometry A. 2020 Dec;97(12):1248–1264. PMCID: PMC8914348
Epigenetic Regulation of DNA Repair Pathway Choice by MacroH2A1 Splice Variants Ensures Genome Stability
Sebastian R, Hosogane EK, Sun EG, Tran AD, Reinhold WC, Burkett S, Sturgill DM, Gudla PR, Pommier Y, Aladjem MI, Oberdoerffer P
Mol Cell. 2020 Sep 3;79(5):836–845.e7. PMCID: PMC7483679
