-
1
-
-
84923818964
-
Transcription termination and the control of the transcriptome: why, where and how to stop
-
2565080
-
Porrua O, Libri D, Transcription termination and the control of the transcriptome: why, where and how to stop. Nat Rev Mol Cell Biol. 2015;16(3):190–202. doi: 10.1038/nrm3943 25650800
-
(2015)
Nat Rev Mol Cell Biol
, vol.16
, Issue.3
, pp. 190-202
-
-
Porrua, O.1
Libri, D.2
-
2
-
-
84975136133
-
Transcriptional termination in mammals: Stopping the RNA polymerase II juggernaut
-
27284201,.; ():.; PubMed Central PMCID: PMCPMC5144996
-
Proudfoot NJ, Transcriptional termination in mammals: Stopping the RNA polymerase II juggernaut. Science. 2016;352(6291):aad9926. doi: 10.1126/science.aad9926 27284201; PubMed Central PMCID: PMCPMC5144996.
-
(2016)
Science
, vol.352
, Issue.6291
, pp. aad9926
-
-
Proudfoot, N.J.1
-
3
-
-
2642604294
-
Herpes simplex virus-infected cells contain a function(s) that destabilizes both host and viral mRNAs
-
3031658, Epub 1987/04/01.; PubMed Central PMCID: PMC304554
-
Kwong AD, Frenkel N, Herpes simplex virus-infected cells contain a function(s) that destabilizes both host and viral mRNAs. Proc Natl Acad Sci U S A. 1987;84(7):1926–30. Epub 1987/04/01. 3031658; PubMed Central PMCID: PMC304554.
-
(1987)
Proc Natl Acad Sci U S A
, vol.84
, Issue.7
, pp. 1926-1930
-
-
Kwong, A.D.1
Frenkel, N.2
-
4
-
-
0024521222
-
Control of mRNA stability by the virion host shutoff function of herpes simplex virus
-
2539493, Epub 1989/05/01.; PubMed Central PMCID: PMC250601
-
Oroskar AA, Read GS, Control of mRNA stability by the virion host shutoff function of herpes simplex virus. J Virol. 1989;63(5):1897–906. Epub 1989/05/01. 2539493; PubMed Central PMCID: PMC250601.
-
(1989)
J Virol
, vol.63
, Issue.5
, pp. 1897-1906
-
-
Oroskar, A.A.1
Read, G.S.2
-
5
-
-
52049115835
-
The many roles of the regulatory protein ICP27 during herpes simplex virus infection
-
18508584
-
Sandri-Goldin RM, The many roles of the regulatory protein ICP27 during herpes simplex virus infection. Front Biosci. 2008;13:5241–56. Epub 2008/05/30. doi: 3078 [pii]. 18508584
-
(2008)
Front Biosci
, vol.13
, pp. 5241-5256
-
-
Sandri-Goldin, R.M.1
-
6
-
-
81255208061
-
The many roles of the highly interactive HSV protein ICP27, a key regulator of infection
-
22082288, Epub 2011/11/16
-
Sandri-Goldin RM, The many roles of the highly interactive HSV protein ICP27, a key regulator of infection. Future Microbiol. 2011;6(11):1261–77. Epub 2011/11/16. doi: 10.2217/fmb.11.119 22082288
-
(2011)
Future Microbiol
, vol.6
, Issue.11
, pp. 1261-1277
-
-
Sandri-Goldin, R.M.1
-
7
-
-
21044445925
-
The herpes simplex virus ICP27 protein: a multifunctional post-transcriptional regulator of gene expression
-
15916551, Epub 2005/05/27
-
Smith RW, Malik P, Clements JB, The herpes simplex virus ICP27 protein: a multifunctional post-transcriptional regulator of gene expression. Biochem Soc Trans. 2005;33(Pt 3):499–501. Epub 2005/05/27. doi: BST0330499 [pii]doi: 10.1042/BST0330499 15916551
-
(2005)
Biochem Soc Trans
, vol.33
, pp. 499-501
-
-
Smith, R.W.1
Malik, P.2
Clements, J.B.3
-
8
-
-
34248339180
-
Herpes simplex virus immediate-early protein ICP22 triggers loss of serine 2-phosphorylated RNA polymerase II
-
17344289,; PubMed Central PMCID: PMC1900222
-
Fraser KA, Rice SA, Herpes simplex virus immediate-early protein ICP22 triggers loss of serine 2-phosphorylated RNA polymerase II. J Virol. 2007;81(10):5091–101. doi: 10.1128/JVI.00184-07 17344289; PubMed Central PMCID: PMC1900222.
-
(2007)
J Virol
, vol.81
, Issue.10
, pp. 5091-5101
-
-
Fraser, K.A.1
Rice, S.A.2
-
9
-
-
84885709701
-
Inhibition of cdk9 during herpes simplex virus 1 infection impedes viral transcription
-
24205359,.; ():. Epub 2013/11/10. PubMed Central PMCID: PMC3799718
-
Ou M, Sandri-Goldin RM, Inhibition of cdk9 during herpes simplex virus 1 infection impedes viral transcription. PLoS One. 2013;8(10):e79007. Epub 2013/11/10. doi: 10.1371/journal.pone.0079007 [pii]. 24205359; PubMed Central PMCID: PMC3799718.
-
(2013)
PLoS One
, vol.8
, Issue.10
, pp. e79007
-
-
Ou, M.1
Sandri-Goldin, R.M.2
-
10
-
-
84930225632
-
Widespread disruption of host transcription termination in HSV-1 infection
-
25989971,..;:.; PubMed Central PMCID: PMC4441252
-
Rutkowski AJ, Erhard F, L'Hernault A, Bonfert T, Schilhabel M, Crump C, et al. Widespread disruption of host transcription termination in HSV-1 infection. Nature communications. 2015;6:7126. doi: 10.1038/ncomms8126 25989971; PubMed Central PMCID: PMC4441252.
-
(2015)
Nature communications
, vol.6
, pp. 7126
-
-
Rutkowski, A.J.1
Erhard, F.2
L'Hernault, A.3
Bonfert, T.4
Schilhabel, M.5
Crump, C.6
-
11
-
-
84938747425
-
Widespread Inducible Transcription Downstream of Human Genes
-
26190259,; PubMed Central PMCID: PMC4530028
-
Vilborg A, Passarelli MC, Yario TA, Tycowski KT, Steitz JA, Widespread Inducible Transcription Downstream of Human Genes. Mol Cell. 2015;59(3):449–61. doi: 10.1016/j.molcel.2015.06.016 26190259; PubMed Central PMCID: PMC4530028.
-
(2015)
Mol Cell
, vol.59
, Issue.3
, pp. 449-461
-
-
Vilborg, A.1
Passarelli, M.C.2
Yario, T.A.3
Tycowski, K.T.4
Steitz, J.A.5
-
12
-
-
84958191482
-
Pervasive transcription read-through promotes aberrant expression of oncogenes and RNA chimeras in renal carcinoma
-
2657529
-
Grosso AR, Leite AP, Carvalho S, Matos MR, Martins FB, Vitor AC, et al. Pervasive transcription read-through promotes aberrant expression of oncogenes and RNA chimeras in renal carcinoma. Elife. 2015;4. doi: 10.7554/eLife.09214 26575290
-
(2015)
Elife
, vol.4
-
-
Grosso, A.R.1
Leite, A.P.2
Carvalho, S.3
Matos, M.R.4
Martins, F.B.5
Vitor, A.C.6
-
13
-
-
85030485458
-
Comparative analysis reveals genomic features of stress-induced transcriptional readthrough
-
2892815
-
Vilborg A, Sabath N, Wiesel Y, Nathans J, Levy-Adam F, Yario TA, et al. Comparative analysis reveals genomic features of stress-induced transcriptional readthrough. Proc Natl Acad Sci U S A. 2017. doi: 10.1073/pnas.1711120114 28928151
-
(2017)
Proc Natl Acad Sci U S A
-
-
Vilborg, A.1
Sabath, N.2
Wiesel, Y.3
Nathans, J.4
Levy-Adam, F.5
Yario, T.A.6
-
14
-
-
85033407041
-
Widespread activation of antisense transcription of the host genome during herpes simplex virus 1 infection
-
29089033,..; ():.; PubMed Central PMCID: PMCPMC5663069
-
Wyler E, Menegatti J, Franke V, Kocks C, Boltengagen A, Hennig T, et al. Widespread activation of antisense transcription of the host genome during herpes simplex virus 1 infection. Genome Biol. 2017;18(1):209. doi: 10.1186/s13059-017-1329-5 29089033; PubMed Central PMCID: PMCPMC5663069.
-
(2017)
Genome Biol
, vol.18
, Issue.1
, pp. 209
-
-
Wyler, E.1
Menegatti, J.2
Franke, V.3
Kocks, C.4
Boltengagen, A.5
Hennig, T.6
-
15
-
-
84888877924
-
Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position
-
24097267, Epub 2013/10/08.PubMed Central PMCID: PMC3959825
-
Buenrostro JD, Giresi PG, Zaba LC, Chang HY, Greenleaf WJ, Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position. Nat Methods. 2013;10(12):1213–8. Epub 2013/10/08. doi: 10.1038/nmeth.2688 [pii]. 24097267; PubMed Central PMCID: PMC3959825.
-
(2013)
Nat Methods
, vol.10
, Issue.12
, pp. 1213-1218
-
-
Buenrostro, J.D.1
Giresi, P.G.2
Zaba, L.C.3
Chang, H.Y.4
Greenleaf, W.J.5
-
16
-
-
70350035567
-
Metabolic tagging and purification of nascent RNA: implications for transcriptomics
-
1982374
-
Friedel CC, Dolken L, Metabolic tagging and purification of nascent RNA: implications for transcriptomics. Mol Biosyst. 2009;5(11):1271–8. doi: 10.1039/b911233b 19823741
-
(2009)
Mol Biosyst
, vol.5
, Issue.11
, pp. 1271-1278
-
-
Friedel, C.C.1
Dolken, L.2
-
17
-
-
0037168545
-
The patterns of accumulation of cellular RNAs in cells infected with a wild-type and a mutant herpes simplex virus 1 lacking the virion host shutoff gene
-
12481033, Epub 2002/12/14. PubMed Central PMCID: PMC139264
-
Taddeo B, Esclatine A, Roizman B, The patterns of accumulation of cellular RNAs in cells infected with a wild-type and a mutant herpes simplex virus 1 lacking the virion host shutoff gene. Proc Natl Acad Sci U S A. 2002;99(26):17031–6. Epub 2002/12/14. doi: 10.1073/pnas.252588599 [pii]. 12481033; PubMed Central PMCID: PMC139264.
-
(2002)
Proc Natl Acad Sci U S A
, vol.99
, Issue.26
, pp. 17031-17036
-
-
Taddeo, B.1
Esclatine, A.2
Roizman, B.3
-
18
-
-
84880427394
-
A compendium of RNA-binding motifs for decoding gene regulation
-
23846655,; PubMed Central PMCID: PMCPMC3929597
-
Ray D, Kazan H, Cook KB, Weirauch MT, Najafabadi HS, Li X, et al. A compendium of RNA-binding motifs for decoding gene regulation. Nature. 2013;499(7457):172–7. doi: 10.1038/nature12311 23846655; PubMed Central PMCID: PMCPMC3929597.
-
(2013)
Nature
, vol.499
, Issue.7457
, pp. 172-177
-
-
Ray, D.1
Kazan, H.2
Cook, K.B.3
Weirauch, M.T.4
Najafabadi, H.S.5
Li, X.6
-
19
-
-
84982957237
-
A comprehensive analysis of 3' end sequencing data sets reveals novel polyadenylation signals and the repressive role of heterogeneous ribonucleoprotein C on cleavage and polyadenylation
-
27382025,; PubMed Central PMCID: PMCPMC4971764
-
Gruber AJ, Schmidt R, Gruber AR, Martin G, Ghosh S, Belmadani M, et al. A comprehensive analysis of 3' end sequencing data sets reveals novel polyadenylation signals and the repressive role of heterogeneous ribonucleoprotein C on cleavage and polyadenylation. Genome Res. 2016;26(8):1145–59. doi: 10.1101/gr.202432.115 27382025; PubMed Central PMCID: PMCPMC4971764.
-
(2016)
Genome Res
, vol.26
, Issue.8
, pp. 1145-1159
-
-
Gruber, A.J.1
Schmidt, R.2
Gruber, A.R.3
Martin, G.4
Ghosh, S.5
Belmadani, M.6
-
20
-
-
61449172037
-
Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources
-
19131956, Epub 2009/01/10
-
Huang da W, Sherman BT, Lempicki RA, Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nature protocols. 2009;4(1):44–57. Epub 2009/01/10. doi: 10.1038/nprot.2008.211 19131956
-
(2009)
Nature protocols
, vol.4
, Issue.1
, pp. 44-57
-
-
Huang da, W.1
Sherman, B.T.2
Lempicki, R.A.3
-
21
-
-
0028146097
-
Involvement of the IRF-1 transcription factor in antiviral responses to interferons
-
800922
-
Kimura T, Nakayama K, Penninger J, Kitagawa M, Harada H, Matsuyama T, et al. Involvement of the IRF-1 transcription factor in antiviral responses to interferons. Science. 1994;264(5167):1921–4. 8009222
-
(1994)
Science
, vol.264
, Issue.5167
, pp. 1921-1924
-
-
Kimura, T.1
Nakayama, K.2
Penninger, J.3
Kitagawa, M.4
Harada, H.5
Matsuyama, T.6
-
22
-
-
0033199331
-
Type I interferons and IRF-1 play a critical role in the control of a gammaherpesvirus infection
-
1049710
-
Dutia BM, Allen DJ, Dyson H, Nash AA, Type I interferons and IRF-1 play a critical role in the control of a gammaherpesvirus infection. Virology. 1999;261(2):173–9. doi: 10.1006/viro.1999.9834 10497103
-
(1999)
Virology
, vol.261
, Issue.2
, pp. 173-179
-
-
Dutia, B.M.1
Allen, D.J.2
Dyson, H.3
Nash, A.A.4
-
23
-
-
80053447769
-
Interferon regulatory factor-1 (IRF-1) shapes both innate and CD8(+) T cell immune responses against West Nile virus infection
-
21909274,..; ():.; PubMed Central PMCID: PMCPMC3164650
-
Brien JD, Daffis S, Lazear HM, Cho H, Suthar MS, Gale M, Jret al. Interferon regulatory factor-1 (IRF-1) shapes both innate and CD8(+) T cell immune responses against West Nile virus infection. PLoS Pathog. 2011;7(9):e1002230. doi: 10.1371/journal.ppat.1002230 21909274; PubMed Central PMCID: PMCPMC3164650.
-
(2011)
PLoS Pathog
, vol.7
, Issue.9
, pp. e1002230
-
-
Brien, J.D.1
Daffis, S.2
Lazear, H.M.3
Cho, H.4
Suthar, M.S.5
Gale, M.6
-
24
-
-
84919332932
-
MiR-23a facilitates the replication of HSV-1 through the suppression of interferon regulatory factor 1
-
25461762,..; ():.; PubMed Central PMCID: PMCPMC4252059
-
Ru J, Sun H, Fan H, Wang C, Li Y, Liu M, et al. MiR-23a facilitates the replication of HSV-1 through the suppression of interferon regulatory factor 1. PLoS One. 2014;9(12):e114021. doi: 10.1371/journal.pone.0114021 25461762; PubMed Central PMCID: PMCPMC4252059.
-
(2014)
PLoS One
, vol.9
, Issue.12
, pp. e114021
-
-
Ru, J.1
Sun, H.2
Fan, H.3
Wang, C.4
Li, Y.5
Liu, M.6
-
25
-
-
0242298595
-
Herpes simplex virus triggers activation of calcium-signaling pathways
-
14568989,; PubMed Central PMCID: PMCPMC2173509
-
Cheshenko N, Del Rosario B, Woda C, Marcellino D, Satlin LM, Herold BC, Herpes simplex virus triggers activation of calcium-signaling pathways. J Cell Biol. 2003;163(2):283–93. doi: 10.1083/jcb.200301084 14568989; PubMed Central PMCID: PMCPMC2173509.
-
(2003)
J Cell Biol
, vol.163
, Issue.2
, pp. 283-293
-
-
Cheshenko, N.1
Del Rosario, B.2
Woda, C.3
Marcellino, D.4
Satlin, L.M.5
Herold, B.C.6
-
26
-
-
34547735905
-
Multiple receptor interactions trigger release of membrane and intracellular calcium stores critical for herpes simplex virus entry
-
17553929,; PubMed Central PMCID: PMCPMC1949381
-
Cheshenko N, Liu W, Satlin LM, Herold BC, Multiple receptor interactions trigger release of membrane and intracellular calcium stores critical for herpes simplex virus entry. Mol Biol Cell. 2007;18(8):3119–30. doi: 10.1091/mbc.E07-01-0062 17553929; PubMed Central PMCID: PMCPMC1949381.
-
(2007)
Mol Biol Cell
, vol.18
, Issue.8
, pp. 3119-3130
-
-
Cheshenko, N.1
Liu, W.2
Satlin, L.M.3
Herold, B.C.4
-
27
-
-
34249946649
-
Bcl-2 blocks accretion or depletion of stored calcium but has no effect on the redistribution of IP3 receptor I mediated by glycoprotein E of herpes simplex virus 1
-
17409148,; PubMed Central PMCID: PMC1900130
-
Kalamvoki M, Roizman B, Bcl-2 blocks accretion or depletion of stored calcium but has no effect on the redistribution of IP3 receptor I mediated by glycoprotein E of herpes simplex virus 1. J Virol. 2007;81(12):6316–25. doi: 10.1128/JVI.00311-07 17409148; PubMed Central PMCID: PMC1900130.
-
(2007)
J Virol
, vol.81
, Issue.12
, pp. 6316-6325
-
-
Kalamvoki, M.1
Roizman, B.2
-
28
-
-
0019333905
-
New calcium indicators and buffers with high selectivity against magnesium and protons: design, synthesis, and properties of prototype structures
-
677089
-
Tsien RY, New calcium indicators and buffers with high selectivity against magnesium and protons: design, synthesis, and properties of prototype structures. Biochemistry. 1980;19(11):2396–404. 6770893
-
(1980)
Biochemistry
, vol.19
, Issue.11
, pp. 2396-2404
-
-
Tsien, R.Y.1
-
29
-
-
84875134766
-
Merging high-quality biochemical fractionation with a refined flow cytometry approach to monitor nucleocytoplasmic protein expression throughout the unperturbed mammalian cell cycle
-
2344925
-
Rosner M, Schipany K, Hengstschlager M, Merging high-quality biochemical fractionation with a refined flow cytometry approach to monitor nucleocytoplasmic protein expression throughout the unperturbed mammalian cell cycle. Nature protocols. 2013;8(3):602–26. doi: 10.1038/nprot.2013.011 23449254
-
(2013)
Nature protocols
, vol.8
, Issue.3
, pp. 602-626
-
-
Rosner, M.1
Schipany, K.2
Hengstschlager, M.3
-
30
-
-
70349125488
-
Co-transcriptional splicing of constitutive and alternative exons
-
19656867,; PubMed Central PMCID: PMCPMC2743041
-
Pandya-Jones A, Black DL, Co-transcriptional splicing of constitutive and alternative exons. RNA. 2009;15(10):1896–908. doi: 10.1261/rna.1714509 19656867; PubMed Central PMCID: PMCPMC2743041.
-
(2009)
RNA
, vol.15
, Issue.10
, pp. 1896-1908
-
-
Pandya-Jones, A.1
Black, D.L.2
-
31
-
-
0037154967
-
Integrating mRNA processing with transcription
-
1190952
-
Proudfoot NJ, Furger A, Dye MJ, Integrating mRNA processing with transcription. Cell. 2002;108(4):501–12. 11909521
-
(2002)
Cell
, vol.108
, Issue.4
, pp. 501-512
-
-
Proudfoot, N.J.1
Furger, A.2
Dye, M.J.3
-
32
-
-
0033180615
-
Coupling of transcription with alternative splicing: RNA pol II promoters modulate SF2/ASF and 9G8 effects on an exonic splicing enhancer
-
1048834
-
Cramer P, Caceres JF, Cazalla D, Kadener S, Muro AF, Baralle FE, et al. Coupling of transcription with alternative splicing: RNA pol II promoters modulate SF2/ASF and 9G8 effects on an exonic splicing enhancer. Mol Cell. 1999;4(2):251–8. 10488340
-
(1999)
Mol Cell
, vol.4
, Issue.2
, pp. 251-258
-
-
Cramer, P.1
Caceres, J.F.2
Cazalla, D.3
Kadener, S.4
Muro, A.F.5
Baralle, F.E.6
-
33
-
-
84885738418
-
Virus-encoded endonucleases: expected and novel functions
-
23900973, Epub 2013/08/01
-
Read GS, Virus-encoded endonucleases: expected and novel functions. Wiley Interdiscip Rev RNA. 2013;4(6):693–708. Epub 2013/08/01. doi: 10.1002/wrna.1188 23900973
-
(2013)
Wiley Interdiscip Rev RNA
, vol.4
, Issue.6
, pp. 693-708
-
-
Read, G.S.1
-
34
-
-
79955768436
-
Metabolic labeling of RNA uncovers principles of RNA production and degradation dynamics in mammalian cells
-
21516085,; PubMed Central PMCID: PMC3114636
-
Rabani M, Levin JZ, Fan L, Adiconis X, Raychowdhury R, Garber M, et al. Metabolic labeling of RNA uncovers principles of RNA production and degradation dynamics in mammalian cells. Nat Biotechnol. 2011;29(5):436–42. doi: 10.1038/nbt.1861 21516085; PubMed Central PMCID: PMC3114636.
-
(2011)
Nat Biotechnol
, vol.29
, Issue.5
, pp. 436-442
-
-
Rabani, M.1
Levin, J.Z.2
Fan, L.3
Adiconis, X.4
Raychowdhury, R.5
Garber, M.6
-
35
-
-
85017646645
-
Rapid Genome-wide Recruitment of RNA Polymerase II Drives Transcription, Splicing, and Translation Events during T Cell Responses
-
2842332
-
Davari K, Lichti J, Gallus C, Greulich F, Uhlenhaut NH, Heinig M, et al. Rapid Genome-wide Recruitment of RNA Polymerase II Drives Transcription, Splicing, and Translation Events during T Cell Responses. Cell Rep. 2017;19(3):643–54. doi: 10.1016/j.celrep.2017.03.069 28423325
-
(2017)
Cell Rep
, vol.19
, Issue.3
, pp. 643-654
-
-
Davari, K.1
Lichti, J.2
Gallus, C.3
Greulich, F.4
Uhlenhaut, N.H.5
Heinig, M.6
-
36
-
-
84866919768
-
Real-time Transcriptional Profiling of Cellular and Viral Gene Expression during Lytic Cytomegalovirus Infection
-
22969428,.Epub 2012/09/13. PubMed Central PMCID: PMC3435240
-
Marcinowski L, Lidschreiber M, Windhager L, Rieder M, Bosse JB, Radle B, et al. Real-time Transcriptional Profiling of Cellular and Viral Gene Expression during Lytic Cytomegalovirus Infection. PLoS Pathog. 2012;8(9):e1002908. Epub 2012/09/13. doi: 10.1371/journal.ppat.1002908 [pii]. 22969428; PubMed Central PMCID: PMC3435240.
-
(2012)
PLoS Pathog
, vol.8
, Issue.9
, pp. e1002908
-
-
Marcinowski, L.1
Lidschreiber, M.2
Windhager, L.3
Rieder, M.4
Bosse, J.B.5
Radle, B.6
-
37
-
-
84923782190
-
Histone exchange, chromatin structure and the regulation of transcription
-
2565079
-
Venkatesh S, Workman JL, Histone exchange, chromatin structure and the regulation of transcription. Nat Rev Mol Cell Biol. 2015;16(3):178–89. doi: 10.1038/nrm3941 25650798
-
(2015)
Nat Rev Mol Cell Biol
, vol.16
, Issue.3
, pp. 178-189
-
-
Venkatesh, S.1
Workman, J.L.2
-
38
-
-
50149120525
-
Linker histones are mobilized during infection with herpes simplex virus type 1
-
18579611,; PubMed Central PMCID: PMCPMC2519646
-
Conn KL, Hendzel MJ, Schang LM, Linker histones are mobilized during infection with herpes simplex virus type 1. J Virol. 2008;82(17):8629–46. doi: 10.1128/JVI.00616-08 18579611; PubMed Central PMCID: PMCPMC2519646.
-
(2008)
J Virol
, vol.82
, Issue.17
, pp. 8629-8646
-
-
Conn, K.L.1
Hendzel, M.J.2
Schang, L.M.3
-
39
-
-
84887300951
-
The differential mobilization of histones H3.1 and H3.3 by herpes simplex virus 1 relates histone dynamics to the assembly of viral chromatin
-
24130491,.; ():.; PubMed Central PMCID: PMCPMC3795045
-
Conn KL, Hendzel MJ, Schang LM, The differential mobilization of histones H3.1 and H3.3 by herpes simplex virus 1 relates histone dynamics to the assembly of viral chromatin. PLoS Pathog. 2013;9(10):e1003695. doi: 10.1371/journal.ppat.1003695 24130491; PubMed Central PMCID: PMCPMC3795045.
-
(2013)
PLoS Pathog
, vol.9
, Issue.10
, pp. e1003695
-
-
Conn, K.L.1
Hendzel, M.J.2
Schang, L.M.3
-
40
-
-
0023977592
-
Synthesis and metabolism of cellular transcripts in HSV-1 infected cells
-
285348
-
Yager DR, Bachenheimer SL, Synthesis and metabolism of cellular transcripts in HSV-1 infected cells. Virus Genes. 1988;1(2):135–48. 2853485
-
(1988)
Virus Genes
, vol.1
, Issue.2
, pp. 135-148
-
-
Yager, D.R.1
Bachenheimer, S.L.2
-
41
-
-
0022178431
-
Degradation of cellular mRNAs induced by a virion-associated factor during herpes simplex virus infection of Vero cells
-
4020960,; PubMed Central PMCID: PMCPMC255019
-
Schek N, Bachenheimer SL, Degradation of cellular mRNAs induced by a virion-associated factor during herpes simplex virus infection of Vero cells. J Virol. 1985;55(3):601–10. 4020960; PubMed Central PMCID: PMCPMC255019.
-
(1985)
J Virol
, vol.55
, Issue.3
, pp. 601-610
-
-
Schek, N.1
Bachenheimer, S.L.2
-
42
-
-
84872381240
-
Histone Chaperones Spt6 and FACT: Similarities and Differences in Modes of Action at Transcribed Genes
-
22567361,.;:.; PubMed Central PMCID: PMCPMC3335715
-
Duina AA, Histone Chaperones Spt6 and FACT: Similarities and Differences in Modes of Action at Transcribed Genes. Genet Res Int. 2011;2011:625210. doi: 10.4061/2011/625210 22567361; PubMed Central PMCID: PMCPMC3335715.
-
(2011)
Genet Res Int
, vol.2011
, pp. 625210
-
-
Duina, A.A.1
-
43
-
-
84862977456
-
CTD tyrosine phosphorylation impairs termination factor recruitment to RNA polymerase II
-
2274543
-
Mayer A, Heidemann M, Lidschreiber M, Schreieck A, Sun M, Hintermair C, et al. CTD tyrosine phosphorylation impairs termination factor recruitment to RNA polymerase II. Science. 2012;336(6089):1723–5. doi: 10.1126/science.1219651 22745433
-
(2012)
Science
, vol.336
, Issue.6089
, pp. 1723-1725
-
-
Mayer, A.1
Heidemann, M.2
Lidschreiber, M.3
Schreieck, A.4
Sun, M.5
Hintermair, C.6
-
44
-
-
84908876236
-
Histone deacetylases and phosphorylated polymerase II C-terminal domain recruit Spt6 for cotranscriptional histone reassembly
-
25182531,; PubMed Central PMCID: PMCPMC4248711
-
Burugula BB, Jeronimo C, Pathak R, Jones JW, Robert F, Govind CK, Histone deacetylases and phosphorylated polymerase II C-terminal domain recruit Spt6 for cotranscriptional histone reassembly. Mol Cell Biol. 2014;34(22):4115–29. doi: 10.1128/MCB.00695-14 25182531; PubMed Central PMCID: PMCPMC4248711.
-
(2014)
Mol Cell Biol
, vol.34
, Issue.22
, pp. 4115-4129
-
-
Burugula, B.B.1
Jeronimo, C.2
Pathak, R.3
Jones, J.W.4
Robert, F.5
Govind, C.K.6
-
45
-
-
84888991588
-
The RNA polymerase II carboxy-terminal domain (CTD) code
-
2395296
-
Eick D, Geyer M, The RNA polymerase II carboxy-terminal domain (CTD) code. Chem Rev. 2013;113(11):8456–90. doi: 10.1021/cr400071f 23952966
-
(2013)
Chem Rev
, vol.113
, Issue.11
, pp. 8456-8490
-
-
Eick, D.1
Geyer, M.2
-
46
-
-
85021987023
-
A Herpesviral Immediate Early Protein Promotes Transcription Elongation of Viral Transcripts
-
28611249,.; ().; PubMed Central PMCID: PMCPMC5472187
-
Fox HL, Dembowski JA, DeLuca NA, A Herpesviral Immediate Early Protein Promotes Transcription Elongation of Viral Transcripts. MBio. 2017;8(3). doi: 10.1128/mBio.00745-17 28611249; PubMed Central PMCID: PMCPMC5472187.
-
(2017)
MBio
, vol.8
, Issue.3
-
-
Fox, H.L.1
Dembowski, J.A.2
DeLuca, N.A.3
-
47
-
-
50649118115
-
High-resolution gene expression profiling for simultaneous kinetic parameter analysis of RNA synthesis and decay
-
1865812
-
Dölken L, Ruzsics Z, Radle B, Friedel CC, Zimmer R, Mages J, et al. High-resolution gene expression profiling for simultaneous kinetic parameter analysis of RNA synthesis and decay. RNA. 2008;14(9):1959–72. doi: 10.1261/rna.1136108 18658122
-
(2008)
RNA
, vol.14
, Issue.9
, pp. 1959-1972
-
-
Dölken, L.1
Ruzsics, Z.2
Radle, B.3
Friedel, C.C.4
Zimmer, R.5
Mages, J.6
-
49
-
-
84928570869
-
ContextMap 2: fast and accurate context-based RNA-seq mapping
-
25928589,.;:.; PubMed Central PMCID: PMCPMC4411664
-
Bonfert T, Kirner E, Csaba G, Zimmer R, Friedel CC, ContextMap 2: fast and accurate context-based RNA-seq mapping. BMC Bioinformatics. 2015;16:122. doi: 10.1186/s12859-015-0557-5 25928589; PubMed Central PMCID: PMCPMC4411664.
-
(2015)
BMC Bioinformatics
, vol.16
, pp. 122
-
-
Bonfert, T.1
Kirner, E.2
Csaba, G.3
Zimmer, R.4
Friedel, C.C.5
-
50
-
-
67649884743
-
Fast and accurate short read alignment with Burrows-Wheeler transform
-
19451168, Epub 2009/05/20. PubMed Central PMCID: PMC2705234
-
Li H, Durbin R, Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics. 2009;25(14):1754–60. Epub 2009/05/20. doi: 10.1093/bioinformatics/btp324 [pii]. 19451168; PubMed Central PMCID: PMC2705234.
-
(2009)
Bioinformatics
, vol.25
, Issue.14
, pp. 1754-1760
-
-
Li, H.1
Durbin, R.2
-
51
-
-
78651271733
-
Integrative genomics viewer
-
21221095, Epub 2011/01/12.; PubMed Central PMCID: PMC3346182
-
Robinson JT, Thorvaldsdottir H, Winckler W, Guttman M, Lander ES, Getz G, et al. Integrative genomics viewer. Nat Biotechnol. 2011;29(1):24–6. Epub 2011/01/12. doi: 10.1038/nbt.1754 21221095; PubMed Central PMCID: PMC3346182.
-
(2011)
Nat Biotechnol
, vol.29
, Issue.1
, pp. 24-26
-
-
Robinson, J.T.1
Thorvaldsdottir, H.2
Winckler, W.3
Guttman, M.4
Lander, E.S.5
Getz, G.6
-
52
-
-
84897397058
-
featureCounts: an efficient general purpose program for assigning sequence reads to genomic features
-
2422767
-
Liao Y, Smyth GK, Shi W, featureCounts: an efficient general purpose program for assigning sequence reads to genomic features. Bioinformatics. 2014;30(7):923–30. doi: 10.1093/bioinformatics/btt656 24227677
-
(2014)
Bioinformatics
, vol.30
, Issue.7
, pp. 923-930
-
-
Liao, Y.1
Smyth, G.K.2
Shi, W.3
-
53
-
-
84884416048
-
Human housekeeping genes, revisited
-
2381020
-
Eisenberg E, Levanon EY, Human housekeeping genes, revisited. Trends Genet. 2013;29(10):569–74. doi: 10.1016/j.tig.2013.05.010 23810203
-
(2013)
Trends Genet
, vol.29
, Issue.10
, pp. 569-574
-
-
Eisenberg, E.1
Levanon, E.Y.2
-
55
-
-
77951770756
-
BEDTools: a flexible suite of utilities for comparing genomic features
-
20110278,; PubMed Central PMCID: PMCPMC2832824
-
Quinlan AR, Hall IM, BEDTools: a flexible suite of utilities for comparing genomic features. Bioinformatics. 2010;26(6):841–2. doi: 10.1093/bioinformatics/btq033 20110278; PubMed Central PMCID: PMCPMC2832824.
-
(2010)
Bioinformatics
, vol.26
, Issue.6
, pp. 841-842
-
-
Quinlan, A.R.1
Hall, I.M.2
-
56
-
-
54949147307
-
F-Seq: a feature density estimator for high-throughput sequence tags
-
18784119,; PubMed Central PMCID: PMCPMC2732284
-
Boyle AP, Guinney J, Crawford GE, Furey TS, F-Seq: a feature density estimator for high-throughput sequence tags. Bioinformatics. 2008;24(21):2537–8. doi: 10.1093/bioinformatics/btn480 18784119; PubMed Central PMCID: PMCPMC2732284.
-
(2008)
Bioinformatics
, vol.24
, Issue.21
, pp. 2537-2538
-
-
Boyle, A.P.1
Guinney, J.2
Crawford, G.E.3
Furey, T.S.4
-
57
-
-
84939181353
-
ChIPseeker: an R/Bioconductor package for ChIP peak annotation, comparison and visualization
-
2576534
-
Yu G, Wang LG, He QY, ChIPseeker: an R/Bioconductor package for ChIP peak annotation, comparison and visualization. Bioinformatics. 2015;31(14):2382–3. doi: 10.1093/bioinformatics/btv145 25765347
-
(2015)
Bioinformatics
, vol.31
, Issue.14
, pp. 2382-2383
-
-
Yu, G.1
Wang, L.G.2
He, Q.Y.3
|