pTXB1-Tn5 Citations (26)
Originally described in: Tn5 transposase and tagmentation procedures for massively-scaled sequencing projects.Picelli S, Bjorklund AK, Reinius B, Sagasser S, Winberg G, Sandberg R Genome Res. 2014 Jul 30. pii: gr.177881.114. PubMed Journal
Articles Citing pTXB1-Tn5
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| Single-cell RNA-sequencing: The future of genome biology is now. Picelli S. RNA Biol. 2016 Jul 21:1-14. PubMed |
| ATAC-see reveals the accessible genome by transposase-mediated imaging and sequencing. Chen X, Shen Y, Draper W, Buenrostro JD, Litzenburger U, Cho SW, Satpathy AT, Carter AC, Ghosh RP, East-Seletsky A, Doudna JA, Greenleaf WJ, Liphardt JT, Chang HY. Nat Methods. 2016 Dec;13(12):1013-1020. doi: 10.1038/nmeth.4031. Epub 2016 Oct 17. PubMed |
| Profiling of Single-Cell Transcriptomes. Chen W, Gardeux V, Meireles-Filho A, Deplancke B. Curr Protoc Mouse Biol. 2017 Sep 8;7(3):145-175. doi: 10.1002/cpmo.30. PubMed |
| EZH2 Represses the B Cell Transcriptional Program and Regulates Antibody-Secreting Cell Metabolism and Antibody Production. Guo M, Price MJ, Patterson DG, Barwick BG, Haines RR, Kania AK, Bradley JE, Randall TD, Boss JM, Scharer CD. J Immunol. 2018 Feb 1;200(3):1039-1052. doi: 10.4049/jimmunol.1701470. Epub 2017 Dec 29. PubMed |
| Next-generation sequencing library construction on a surface. Feng K, Costa J, Edwards JS. BMC Genomics. 2018 May 30;19(1):416. doi: 10.1186/s12864-018-4797-4. PubMed |
CUT&Tag for efficient epigenomic profiling of small samples and single cells.
Kaya-Okur HS, Wu SJ, Codomo CA, Pledger ES, Bryson TD, Henikoff JG, Ahmad K, Henikoff S.
Nat Commun. 2019 Apr 29;10(1):1930. doi: 10.1038/s41467-019-09982-5.
PubMed
Associated Plasmids |
| CoBATCH for High-Throughput Single-Cell Epigenomic Profiling. Wang Q, Xiong H, Ai S, Yu X, Liu Y, Zhang J, He A. Mol Cell. 2019 Oct 3;76(1):206-216.e7. doi: 10.1016/j.molcel.2019.07.015. Epub 2019 Aug 27. PubMed |
| Deficient histone H3 propionylation by BRPF1-KAT6 complexes in neurodevelopmental disorders and cancer. Yan K, Rousseau J, Machol K, Cross LA, Agre KE, Gibson CF, Goverde A, Engleman KL, Verdin H, De Baere E, Potocki L, Zhou D, Cadieux-Dion M, Bellus GA, Wagner MD, Hale RJ, Esber N, Riley AF, Solomon BD, Cho MT, McWalter K, Eyal R, Hainlen MK, Mendelsohn BA, Porter HM, Lanpher BC, Lewis AM, Savatt J, Thiffault I, Callewaert B, Campeau PM, Yang XJ. Sci Adv. 2020 Jan 22;6(4):eaax0021. doi: 10.1126/sciadv.aax0021. eCollection 2020 Jan. PubMed |
Highly Parallel Profiling of Cas9 Variant Specificity.
Schmid-Burgk JL, Gao L, Li D, Gardner Z, Strecker J, Lash B, Zhang F.
Mol Cell. 2020 Mar 17. pii: S1097-2765(20)30143-X. doi: 10.1016/j.molcel.2020.02.023.
PubMed
Associated Plasmids |
| Accurate SNV detection in single cells by transposon-based whole-genome amplification of complementary strands. Xing D, Tan L, Chang CH, Li H, Xie XS. Proc Natl Acad Sci U S A. 2021 Feb 23;118(8). pii: 2013106118. doi: 10.1073/pnas.2013106118. PubMed |
| Comprehensive analysis of single cell ATAC-seq data with SnapATAC. Fang R, Preissl S, Li Y, Hou X, Lucero J, Wang X, Motamedi A, Shiau AK, Zhou X, Xie F, Mukamel EA, Zhang K, Zhang Y, Behrens MM, Ecker JR, Ren B. Nat Commun. 2021 Feb 26;12(1):1337. doi: 10.1038/s41467-021-21583-9. PubMed |
| Profiling chromatin accessibility in formalin-fixed paraffin-embedded samples. Zhang H, Polavarapu VK, Xing P, Zhao M, Mathot L, Zhao L, Rosen G, Swartling FJ, Sjoblom T, Chen X. Genome Res. 2022 Jan;32(1):150-161. doi: 10.1101/gr.275269.121. Epub 2021 Jul 14. PubMed |
| FACT-seq: profiling histone modifications in formalin-fixed paraffin-embedded samples with low cell numbers. Zhao L, Xing P, Polavarapu VK, Zhao M, Valero-Martinez B, Dang Y, Maturi N, Mathot L, Neves I, Yildirim I, Swartling FJ, Sjoblom T, Uhrbom L, Chen X. Nucleic Acids Res. 2021 Dec 2;49(21):e125. doi: 10.1093/nar/gkab813. PubMed |
| PIWI-mediated control of tissue-specific transposons is essential for somatic cell differentiation. Li D, Taylor DH, van Wolfswinkel JC. Cell Rep. 2021 Oct 5;37(1):109776. doi: 10.1016/j.celrep.2021.109776. PubMed |
| Chromatin Velocity reveals epigenetic dynamics by single-cell profiling of heterochromatin and euchromatin. Tedesco M, Giannese F, Lazarevic D, Giansanti V, Rosano D, Monzani S, Catalano I, Grassi E, Zanella ER, Botrugno OA, Morelli L, Panina Bordignon P, Caravagna G, Bertotti A, Martino G, Aldrighetti L, Pasqualato S, Trusolino L, Cittaro D, Tonon G. Nat Biotechnol. 2022 Feb;40(2):235-244. doi: 10.1038/s41587-021-01031-1. Epub 2021 Oct 11. PubMed |
| Cell-type specialization is encoded by specific chromatin topologies. Winick-Ng W, Kukalev A, Harabula I, Zea-Redondo L, Szabo D, Meijer M, Serebreni L, Zhang Y, Bianco S, Chiariello AM, Irastorza-Azcarate I, Thieme CJ, Sparks TM, Carvalho S, Fiorillo L, Musella F, Irani E, Torlai Triglia E, Kolodziejczyk AA, Abentung A, Apostolova G, Paul EJ, Franke V, Kempfer R, Akalin A, Teichmann SA, Dechant G, Ungless MA, Nicodemi M, Welch L, Castelo-Branco G, Pombo A. Nature. 2021 Nov;599(7886):684-691. doi: 10.1038/s41586-021-04081-2. Epub 2021 Nov 17. PubMed |
| Extensive evaluation of ATAC-seq protocols for native or formaldehyde-fixed nuclei. Zhang H, Rice ME, Alvin JW, Farrera-Gaffney D, Galligan JJ, Johnson MDL, Cusanovich DA. BMC Genomics. 2022 Mar 17;23(1):214. doi: 10.1186/s12864-021-08266-x. PubMed |
| Genetic, Genomic, and Imaging Approaches to Dissect the Role of Polycomb Group Epigenetic Regulators in Mice. Yakushiji-Kaminatsui N, Kondo T, Ohinata Y, Takano J, Koseki H. Methods Mol Biol. 2022;2529:207-228. doi: 10.1007/978-1-0716-2481-4_10. PubMed |
| Inflammaging is driven by upregulation of innate immune receptors and systemic interferon signaling and is ameliorated by dietary restriction. Rasa SMM, Annunziata F, Krepelova A, Nunna S, Omrani O, Gebert N, Adam L, Kappel S, Hohn S, Donati G, Jurkowski TP, Rudolph KL, Ori A, Neri F. Cell Rep. 2022 Jun 28;39(13):111017. doi: 10.1016/j.celrep.2022.111017. PubMed |
| Mycobacterium tuberculosis infection triggers epigenetic changes that are enriched in a type I IFN signature. Madden K, El Hamra R, Berton S, Felker J, Alvarez GG, Blais A, Sun J. Microlife. 2023 Feb 6;4:uqad006. doi: 10.1093/femsml/uqad006. eCollection 2023. PubMed |
| Analyzing genomic and epigenetic profiles in single cells by hybrid transposase (scGET-seq). Cittaro D, Lazarevic D, Tonon G, Giannese F. STAR Protoc. 2023 Mar 29;4(2):102176. doi: 10.1016/j.xpro.2023.102176. PubMed |
| Screening for functional regulatory variants in open chromatin using GenIE-ATAC. Cooper S, Schwartzentruber J, Coomber EL, Wu Q, Bassett A. Nucleic Acids Res. 2023 Jun 23;51(11):e64. doi: 10.1093/nar/gkad332. PubMed |
| Simultaneous profiling of chromatin architecture and transcription in single cells. Qu J, Sun J, Zhao C, Liu X, Zhang X, Jiang S, Wei C, Yu H, Zeng X, Fan L, Ding J. Nat Struct Mol Biol. 2023 Sep;30(9):1393-1402. doi: 10.1038/s41594-023-01066-9. Epub 2023 Aug 14. PubMed |
| AP profiling resolves co-translational folding pathway and chaperone interactions in vivo. Chen X, Kaiser CM. bioRxiv [Preprint]. 2023 Sep 1:2023.09.01.555749. doi: 10.1101/2023.09.01.555749. PubMed |
| Chromatin analysis of adult pluripotent stem cells reveals a unique stemness maintenance strategy. Poulet A, Kratkiewicz AJ, Li D, van Wolfswinkel JC. Sci Adv. 2023 Oct 6;9(40):eadh4887. doi: 10.1126/sciadv.adh4887. Epub 2023 Oct 6. PubMed |
| Atypical heat shock transcription factor HSF5 is critical for male meiotic prophase under non-stress conditions. Yoshimura S, Shimada R, Kikuchi K, Kawagoe S, Abe H, Iisaka S, Fujimura S, Yasunaga KI, Usuki S, Tani N, Ohba T, Kondoh E, Saio T, Araki K, Ishiguro KI. Nat Commun. 2024 Apr 29;15(1):3330. doi: 10.1038/s41467-024-47601-0. PubMed |
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