| Published Application/Species/Sample/Dilution | Reference |
|---|
- chromatin immunoprecipitation; roundworm ; ; loading ...; fig 4a
| Das S, Ooi F, Cruz Corchado J, Fuller L, Weiner J, Prahlad V. Serotonin signaling by maternal neurons upon stress ensures progeny survival. elife. 2020;9: pubmed publisher |
- immunocytochemistry; mouse; 1:200; loading ...; fig 5a
- western blot; mouse; 1:500; loading ...; fig 3f
| Hartenian E, Gilbertson S, Federspiel J, Cristea I, Glaunsinger B. RNA decay during gammaherpesvirus infection reduces RNA polymerase II occupancy of host promoters but spares viral promoters. PLoS Pathog. 2020;16:e1008269 pubmed publisher |
- western blot; mouse; loading ...; fig 1g
| Nishioka K, Miyazaki H, Soejima H. Unbiased shRNA screening, using a combination of FACS and high-throughput sequencing, enables identification of novel modifiers of Polycomb silencing. Sci Rep. 2018;8:12128 pubmed publisher |
- western blot; brewer's yeast; fig 1c
| Sdano M, Fulcher J, Palani S, Chandrasekharan M, Parnell T, Whitby F, et al. A novel SH2 recognition mechanism recruits Spt6 to the doubly phosphorylated RNA polymerase II linker at sites of transcription. elife. 2017;6: pubmed publisher |
- western blot; brewer's yeast; loading ...; fig 3c
| Garavís M, González Polo N, Allepuz Fuster P, Louro J, Fernández Tornero C, Calvo O. Sub1 contacts the RNA polymerase II stalk to modulate mRNA synthesis. Nucleic Acids Res. 2017;45:2458-2471 pubmed publisher |
- western blot; human; fig 3
| Steingruber M, Kraut A, Socher E, Sticht H, Reichel A, Stamminger T, et al. Proteomic Interaction Patterns between Human Cyclins, the Cyclin-Dependent Kinase Ortholog pUL97 and Additional Cytomegalovirus Proteins. Viruses. 2016;8: pubmed publisher |
| Rialdi A, Campisi L, Zhao N, Lagda A, Pietzsch C, Ho J, et al. Topoisomerase 1 inhibition suppresses inflammatory genes and protects from death by inflammation. Science. 2016;352:aad7993 pubmed publisher |
- chromatin immunoprecipitation; mouse; loading ...; fig 1d
| Bailus B, Pyles B, McAlister M, O Geen H, Lockwood S, Adams A, et al. Protein Delivery of an Artificial Transcription Factor Restores Widespread Ube3a Expression in an Angelman Syndrome Mouse Brain. Mol Ther. 2016;24:548-55 pubmed publisher |
| Mannini L, C Lamaze F, Cucco F, Amato C, Quarantotti V, Rizzo I, et al. Mutant cohesin affects RNA polymerase II regulation in Cornelia de Lange syndrome. Sci Rep. 2015;5:16803 pubmed publisher |
- ChIP-Seq; mouse; fig 2
- immunoprecipitation; mouse; fig s5
| Masuda A, Takeda J, Okuno T, Okamoto T, Ohkawara B, Ito M, et al. Position-specific binding of FUS to nascent RNA regulates mRNA length. Genes Dev. 2015;29:1045-57 pubmed publisher |
- western blot; mouse; fig 2
| Ide S, Déjardin J. End-targeting proteomics of isolated chromatin segments of a mammalian ribosomal RNA gene promoter. Nat Commun. 2015;6:6674 pubmed publisher |
- western blot; human; fig 2
| Lama L, Seidl C, Ryan K. New insights into the promoterless transcription of DNA coligo templates by RNA polymerase III. Transcription. 2014;5:e27913 pubmed publisher |
- western blot; human; fig 2
| Liang K, Gao X, Gilmore J, Florens L, Washburn M, Smith E, et al. Characterization of human cyclin-dependent kinase 12 (CDK12) and CDK13 complexes in C-terminal domain phosphorylation, gene transcription, and RNA processing. Mol Cell Biol. 2015;35:928-38 pubmed publisher |
- chromatin immunoprecipitation; human
| Stubbs S, Conrad N. Depletion of REF/Aly alters gene expression and reduces RNA polymerase II occupancy. Nucleic Acids Res. 2015;43:504-19 pubmed publisher |
- chromatin immunoprecipitation; Saccharomycetales
| Rosado Lugo J, Hampsey M. The Ssu72 phosphatase mediates the RNA polymerase II initiation-elongation transition. J Biol Chem. 2014;289:33916-26 pubmed publisher |
- chromatin immunoprecipitation; human
| Moquet Torcy G, Tolza C, Piechaczyk M, Jariel Encontre I. Transcriptional complexity and roles of Fra-1/AP-1 at the uPA/Plau locus in aggressive breast cancer. Nucleic Acids Res. 2014;42:11011-24 pubmed publisher |
- western blot; fission yeast
| Karakasili E, Burkert Kautzsch C, Kieser A, Sträßer K. Degradation of DNA damage-independently stalled RNA polymerase II is independent of the E3 ligase Elc1. Nucleic Acids Res. 2014;42:10503-15 pubmed publisher |
- chromatin immunoprecipitation; Saccharomycetales
- immunoprecipitation; Saccharomycetales
- chromatin immunoprecipitation; human
| Mirón García M, Garrido Godino A, Martínez Fernández V, Fernández Pévida A, Cuevas Bermúdez A, Martín Expósito M, et al. The yeast prefoldin-like URI-orthologue Bud27 associates with the RSC nucleosome remodeler and modulates transcription. Nucleic Acids Res. 2014;42:9666-76 pubmed publisher |
| Lodhi N, Kossenkov A, Tulin A. Bookmarking promoters in mitotic chromatin: poly(ADP-ribose)polymerase-1 as an epigenetic mark. Nucleic Acids Res. 2014;42:7028-38 pubmed publisher |
- western blot; brewer's yeast
| Gaillard H, Aguilera A. Cleavage factor I links transcription termination to DNA damage response and genome integrity maintenance in Saccharomyces cerevisiae. PLoS Genet. 2014;10:e1004203 pubmed publisher |
- chromatin immunoprecipitation; mouse; 5 ug/time
| Konsavage W, Yochum G. The myc 3' wnt-responsive element suppresses colonic tumorigenesis. Mol Cell Biol. 2014;34:1659-69 pubmed publisher |
- chromatin immunoprecipitation; fission yeast
| DeGennaro C, Alver B, Marguerat S, Stepanova E, Davis C, Bähler J, et al. Spt6 regulates intragenic and antisense transcription, nucleosome positioning, and histone modifications genome-wide in fission yeast. Mol Cell Biol. 2013;33:4779-92 pubmed publisher |
- chromatin immunoprecipitation; human
| Kuwahara Y, Wei D, Durand J, Weissman B. SNF5 reexpression in malignant rhabdoid tumors regulates transcription of target genes by recruitment of SWI/SNF complexes and RNAPII to the transcription start site of their promoters. Mol Cancer Res. 2013;11:251-60 pubmed publisher |
- western blot; human; 1:1,000
| Medina R, Ghule P, Cruzat F, Barutcu A, Montecino M, Stein J, et al. Epigenetic control of cell cycle-dependent histone gene expression is a principal component of the abbreviated pluripotent cell cycle. Mol Cell Biol. 2012;32:3860-71 pubmed publisher |
- chromatin immunoprecipitation; rat
| DiNieri J, Wang X, Szutorisz H, Spano S, Kaur J, CASACCIA P, et al. Maternal cannabis use alters ventral striatal dopamine D2 gene regulation in the offspring. Biol Psychiatry. 2011;70:763-9 pubmed publisher |
| Pan H, Cheng X, Rodr xed guez P, Zhang X, Chung I, Jin V, et al. An essential signaling function of cytoplasmic NELFB is independent of RNA polymerase II pausing. J Biol Chem. 2023;299:105259 pubmed publisher |
| Wang C, Liu X, Liang J, Narita Y, Ding W, Li D, et al. A DNA tumor virus globally reprograms host 3D genome architecture to achieve immortal growth. Nat Commun. 2023;14:1598 pubmed publisher |
| Zhu Z, Liu J, Feng H, Zhang Y, Huang R, Pan Q, et al. Overcoming the cytoplasmic retention of GDOWN1 modulates global transcription and facilitates stress adaptation. elife. 2022;11: pubmed publisher |
| Zhao X, Wang P, Diedrich J, Smart B, Reyes N, Yoshimura S, et al. Epigenetic activation of the FLT3 gene by ZNF384 fusion confers a therapeutic susceptibility in acute lymphoblastic leukemia. Nat Commun. 2022;13:5401 pubmed publisher |
| Di Giammartino D, Polyzos A, Apostolou E. Assessing Specific Networks of Chromatin Interactions with HiChIP. Methods Mol Biol. 2022;2532:113-141 pubmed publisher |
| Sump B, Brickner D, D Urso A, Kim S, Brickner J. Mitotically heritable, RNA polymerase II-independent H3K4 dimethylation stimulates INO1 transcriptional memory. elife. 2022;11: pubmed publisher |
| See Y, Chen K, Fullwood M. MYC overexpression leads to increased chromatin interactions at super-enhancers and MYC binding sites. Genome Res. 2022;32:629-642 pubmed publisher |
| Montinaro A, Areso Zubiaur I, Saggau J, Kretz A, Ferreira R, Hassan O, et al. Potent pro-apoptotic combination therapy is highly effective in a broad range of cancers. Cell Death Differ. 2022;29:492-503 pubmed publisher |
| Fan X, Moustakas I, Torrens Juaneda V, Lei Q, Hamer G, Louwe L, et al. Transcriptional progression during meiotic prophase I reveals sex-specific features and X chromosome dynamics in human fetal female germline. PLoS Genet. 2021;17:e1009773 pubmed publisher |
| Edwards S, Erdenebat P, Morphis A, Kumar L, Wang L, Chamera T, et al. Insulin/IGF-1 signaling and heat stress differentially regulate HSF1 activities in germline development. Cell Rep. 2021;36:109623 pubmed publisher |
| Niu L, Shen W, Shi Z, Tan Y, He N, Wan J, et al. Three-dimensional folding dynamics of the Xenopus tropicalis genome. Nat Genet. 2021;53:1075-1087 pubmed publisher |
| Paakinaho V, Lempi xe4 inen J, Sigismondo G, Niskanen E, Malinen M, J xe4 xe4 skel xe4 inen T, et al. SUMOylation regulates the protein network and chromatin accessibility at glucocorticoid receptor-binding sites. Nucleic Acids Res. 2021;49:1951-1971 pubmed publisher |
| Huang Z, Liang N, Goñi S, Damdimopoulos A, Wang C, Ballaire R, et al. The corepressors GPS2 and SMRT control enhancer and silencer remodeling via eRNA transcription during inflammatory activation of macrophages. Mol Cell. 2021;: pubmed publisher |
| Vadivel C, Gluud M, Torres Rusillo S, Boding L, Willerslev Olsen A, Buus T, et al. JAK3 Is Expressed in the Nucleus of Malignant T Cells in Cutaneous T Cell Lymphoma (CTCL). Cancers (Basel). 2021;13: pubmed publisher |
| Onishi R, Sato K, Murano K, Negishi L, Siomi H, Siomi M. Piwi suppresses transcription of Brahma-dependent transposons via Maelstrom in ovarian somatic cells. Sci Adv. 2020;6: pubmed publisher |
| Wang Y, Hou L, Ardehali M, Kingston R, Dynlacht B. Elongin A regulates transcription in vivo through enhanced RNA polymerase processivity. J Biol Chem. 2021;296:100170 pubmed publisher |
| Cardoso da Silva R, Villar Fernández M, Vader G. Active transcription and Orc1 drive chromatin association of the AAA+ ATPase Pch2 during meiotic G2/prophase. PLoS Genet. 2020;16:e1008905 pubmed publisher |
| Joo Y, Xue Y, Wang Y, McDevitt R, Sah N, Bossi S, et al. Topoisomerase 3β knockout mice show transcriptional and behavioural impairments associated with neurogenesis and synaptic plasticity. Nat Commun. 2020;11:3143 pubmed publisher |
| Sen I, Zhou X, Chernobrovkin A, Puerta Cavanzo N, Kanno T, Salignon J, et al. DAF-16/FOXO requires Protein Phosphatase 4 to initiate transcription of stress resistance and longevity promoting genes. Nat Commun. 2020;11:138 pubmed publisher |
| Calvanese V, Nguyen A, Bolan T, Vavilina A, Su T, Lee L, et al. MLLT3 governs human haematopoietic stem-cell self-renewal and engraftment. Nature. 2019;576:281-286 pubmed publisher |
| Legrand N, Bretscher C, Zielke S, Wilke B, Daude M, Fritz B, et al. PPARβ/δ recruits NCOR and regulates transcription reinitiation of ANGPTL4. Nucleic Acids Res. 2019;47:9573-9591 pubmed publisher |
| Wu S, Naar A. SREBP1-dependent de novo fatty acid synthesis gene expression is elevated in malignant melanoma and represents a cellular survival trait. Sci Rep. 2019;9:10369 pubmed publisher |
| Catala M, Abou Elela S. Promoter-dependent nuclear RNA degradation ensures cell cycle-specific gene expression. Commun Biol. 2019;2:211 pubmed publisher |
| Wu T, Shi L, Lowe A, Nicolls M, Kao P. Inducible expression of immediate early genes is regulated through dynamic chromatin association by NF45/ILF2 and NF90/NF110/ILF3. PLoS ONE. 2019;14:e0216042 pubmed publisher |
| Rowley M, Lyu X, Rana V, Ando Kuri M, Karns R, Bosco G, et al. Condensin II Counteracts Cohesin and RNA Polymerase II in the Establishment of 3D Chromatin Organization. Cell Rep. 2019;26:2890-2903.e3 pubmed publisher |
| Chi B, O Connell J, Iocolano A, Coady J, Yu Y, Gangopadhyay J, et al. The neurodegenerative diseases ALS and SMA are linked at the molecular level via the ASC-1 complex. Nucleic Acids Res. 2018;46:11939-11951 pubmed publisher |
| Krause M, Love D, Ghosh S, Wang P, Yun S, Fukushige T, et al. Nutrient-Driven O-GlcNAcylation at Promoters Impacts Genome-Wide RNA Pol II Distribution. Front Endocrinol (Lausanne). 2018;9:521 pubmed publisher |
| Akhrymuk I, Frolov I, Frolova E. Sindbis Virus Infection Causes Cell Death by nsP2-Induced Transcriptional Shutoff or by nsP3-Dependent Translational Shutoff. J Virol. 2018;92: pubmed publisher |
| Kamada R, Yang W, Zhang Y, Patel M, Yang Y, Ouda R, et al. Interferon stimulation creates chromatin marks and establishes transcriptional memory. Proc Natl Acad Sci U S A. 2018;115:E9162-E9171 pubmed publisher |
| Fuentes D, Swigut T, Wysocka J. Systematic perturbation of retroviral LTRs reveals widespread long-range effects on human gene regulation. elife. 2018;7: pubmed publisher |
| Minocha R, Popova V, Kopytova D, Misiak D, Huttelmaier S, Georgieva S, et al. Mud2 functions in transcription by recruiting the Prp19 and TREX complexes to transcribed genes. Nucleic Acids Res. 2018;46:9749-9763 pubmed publisher |
| Yu R, Wang X, Moazed D. Epigenetic inheritance mediated by coupling of RNAi and histone H3K9 methylation. Nature. 2018;558:615-619 pubmed publisher |
| Gouot E, Bhat W, Rufiange A, Fournier E, Paquet E, Nourani A. Casein kinase 2 mediated phosphorylation of Spt6 modulates histone dynamics and regulates spurious transcription. Nucleic Acids Res. 2018;46:7612-7630 pubmed publisher |
| Lee J, Shao N, Paik D, Wu H, Guo H, Termglinchan V, et al. SETD7 Drives Cardiac Lineage Commitment through Stage-Specific Transcriptional Activation. Cell Stem Cell. 2018;22:428-444.e5 pubmed publisher |
| Rhie S, Yao L, Luo Z, Witt H, Schreiner S, Guo Y, et al. ZFX acts as a transcriptional activator in multiple types of human tumors by binding downstream of transcription start sites at the majority of CpG island promoters. Genome Res. 2018;: pubmed publisher |
| Li S, Almeida A, Radebaugh C, Zhang L, Chen X, Huang L, et al. The elongation factor Spn1 is a multi-functional chromatin binding protein. Nucleic Acids Res. 2018;46:2321-2334 pubmed publisher |
| Li P, Mitra S, Spolski R, Oh J, Liao W, Tang Z, et al. STAT5-mediated chromatin interactions in superenhancers activate IL-2 highly inducible genes: Functional dissection of the Il2ra gene locus. Proc Natl Acad Sci U S A. 2017;114:12111-12119 pubmed publisher |
| García Benítez F, Gaillard H, Aguilera A. Physical proximity of chromatin to nuclear pores prevents harmful R loop accumulation contributing to maintain genome stability. Proc Natl Acad Sci U S A. 2017;114:10942-10947 pubmed publisher |
| Jih G, Iglesias N, Currie M, Bhanu N, Paulo J, Gygi S, et al. Unique roles for histone H3K9me states in RNAi and heritable silencing of transcription. Nature. 2017;547:463-467 pubmed publisher |
| Sood V, Cajigas I, D Urso A, Light W, Brickner J. Epigenetic Transcriptional Memory of GAL Genes Depends on Growth in Glucose and the Tup1 Transcription Factor in Saccharomyces cerevisiae. Genetics. 2017;206:1895-1907 pubmed publisher |
| Dorighi K, Swigut T, Henriques T, Bhanu N, Scruggs B, Nady N, et al. Mll3 and Mll4 Facilitate Enhancer RNA Synthesis and Transcription from Promoters Independently of H3K4 Monomethylation. Mol Cell. 2017;66:568-576.e4 pubmed publisher |
| Crickard J, Lee J, Lee T, Reese J. The elongation factor Spt4/5 regulates RNA polymerase II transcription through the nucleosome. Nucleic Acids Res. 2017;45:6362-6374 pubmed publisher |
| Cruz Molina S, Respuela P, Tebartz C, Kolovos P, Nikolic M, Fueyo R, et al. PRC2 Facilitates the Regulatory Topology Required for Poised Enhancer Function during Pluripotent Stem Cell Differentiation. Cell Stem Cell. 2017;20:689-705.e9 pubmed publisher |
| Klopf E, Schmidt H, Clauder Münster S, Steinmetz L, Schüller C. INO80 represses osmostress induced gene expression by resetting promoter proximal nucleosomes. Nucleic Acids Res. 2017;45:3752-3766 pubmed publisher |
| Thouvenot P, Fourrière L, Dardillac E, Ben Yamin B, Lescure A, Lejour V, et al. Yeast cells reveal the misfolding and the cellular mislocalization of the human BRCA1 protein. J Cell Sci. 2016;129:4366-4378 pubmed |
| Ahn J, Rechsteiner A, Strome S, Kelly W. A Conserved Nuclear Cyclophilin Is Required for Both RNA Polymerase II Elongation and Co-transcriptional Splicing in Caenorhabditis elegans. PLoS Genet. 2016;12:e1006227 pubmed publisher |
| Yu Y, Zhou H, Deng X, Wang W, Lu H. Set3 contributes to heterochromatin integrity by promoting transcription of subunits of Clr4-Rik1-Cul4 histone methyltransferase complex in fission yeast. Sci Rep. 2016;6:31752 pubmed publisher |
| Tsai S, Chang Y, Swamy K, Chiang R, Huang D. GAGA factor, a positive regulator of global gene expression, modulates transcriptional pausing and organization of upstream nucleosomes. Epigenetics Chromatin. 2016;9:32 pubmed publisher |
| Shi L, Godfrey W, Lin J, Zhao G, Kao P. NF90 regulates inducible IL-2 gene expression in T cells. J Exp Med. 2007;204:971-7 pubmed |
| Funayama R, Saito M, Tanobe H, Ishikawa F. Loss of linker histone H1 in cellular senescence. J Cell Biol. 2006;175:869-80 pubmed |
