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Items: 17

1.
Activation of the cGAS-STING innate immune response in cells with deficient mitochondrial topoisomerase TOP1MT
Iman Al Khatib, Jingti Deng, Yuanjiu Lei, Sylvia Torres-Odio, Gladys R Rojas, Laura E Newman, Brian K Chung, Andrew Symes, Hongliang Zhang, Shar-yin N Huang, Yves Pommier, Aneal Khan, Gerald S Shadel, Andrew Phillip West, William T Gibson, Timothy E Shutt
Hum Mol Genet. 2023 Aug 1; 32(15): 2422–2440. Published online 2023 May 2. doi: 10.1093/hmg/ddad062
PMCID:
PMC10360396
AbstractArticlePDF–2.4M
2.
BraInMap elucidates the macromolecular connectivity landscape of mammalian brain
Reza Pourhaghighi, Peter E. A. Ash, Sadhna Phanse, Florian Goebels, Lucas Z. M. Hu, Siwei Chen, Yingying Zhang, Shayne D. Wierbowski, Samantha Boudeau, Mohamed T. Moutaoufik, Ramy H. Malty, Edyta Malolepsza, Kalliopi Tsafou, Aparna Nathan, Graham Cromar, Hongbo Guo, Ali Al Abdullatif, Daniel J. Apicco, Lindsay A. Becker, Aaron D. Gitler, Stefan M. Pulst, Ahmed Youssef, Ryan Hekman, Pierre C. Havugimana, Carl A. White, Benjamin C. Blum, Antonia Ratti, Camron D. Bryant, John Parkinson, Kasper Lage, Mohan Babu, Haiyuan Yu, Gary D. Bader, Benjamin Wolozin, Andrew Emili
Cell Syst. Author manuscript; available in PMC 2021 Apr 22.
Published in final edited form as: Cell Syst. 2020 Apr 22; 10(4): 333–350.e14. doi: 10.1016/j.cels.2020.03.003
Correction in:
Cell Syst. 2020 Aug 26; 11(2): 208.
PMCID:
PMC7938770
AbstractArticlePDF–2.0M
3.
The mitochondrial type IB topoisomerase drives mitochondrial translation and carcinogenesis
S. A. Baechler, V. M. Factor, I. Dalla Rosa, A. Ravji, D. Becker, S. Khiati, L. M. Miller Jenkins, M. Lang, C. Sourbier, S. A. Michaels, L. M. Neckers, H. L. Zhang, A. Spinazzola, S. N. Huang, J. U. Marquardt, Y. Pommier
Nat Commun. 2019; 10: 83. Published online 2019 Jan 8. doi: 10.1038/s41467-018-07922-3
PMCID:
PMC6325124
AbstractArticlePDF–2.5M
4.
Transcription profiling suggests that mitochondrial topoisomerase IB acts as a topological barrier and regulator of mitochondrial DNA transcription
Ilaria Dalla Rosa, Hongliang Zhang, Salim Khiati, Xiaolin Wu, Yves Pommier
J Biol Chem. 2017 Dec 8; 292(49): 20162–20172. Published online 2017 Oct 11. doi: 10.1074/jbc.M117.815241
PMCID:
PMC5724003
AbstractArticlePDF–3.6M
5.
Lack of mitochondrial topoisomerase I (TOP1mt) impairs liver regeneration
Salim Khiati, Simone A. Baechler, Valentina M. Factor, Hongliang Zhang, Shar-yin N. Huang, Ilaria Dalla Rosa, Carole Sourbier, Leonard Neckers, Snorri S. Thorgeirsson, Yves Pommier
Proc Natl Acad Sci U S A. 2015 Sep 8; 112(36): 11282–11287. Published online 2015 Aug 24. doi: 10.1073/pnas.1511016112
PMCID:
PMC4568654
AbstractArticlePDF–1.2M
6.
Increased negative supercoiling of mtDNA in TOP1mt knockout mice and presence of topoisomerases IIα and IIβ in vertebrate mitochondria
Hongliang Zhang, Yong-Wei Zhang, Takehiro Yasukawa, Ilaria Dalla Rosa, Salim Khiati, Yves Pommier
Nucleic Acids Res. 2014 Jul 1; 42(11): 7259–7267. Published online 2014 May 6. doi: 10.1093/nar/gku384
PMCID:
PMC4066791
AbstractArticlePDF–1.1M
7.
Negative regulation of mitochondrial transcription by mitochondrial topoisomerase I
Stefan Sobek, Ilaria Dalla Rosa, Yves Pommier, Beatrice Bornholz, Faiza Kalfalah, Hongliang Zhang, Rudolf J. Wiesner, Jürgen-Christoph von Kleist-Retzow, Frank Hillebrand, Heiner Schaal, Christian Mielke, Morten O. Christensen, Fritz Boege
Nucleic Acids Res. 2013 Nov; 41(21): 9848–9857. Published online 2013 Aug 27. doi: 10.1093/nar/gkt768
PMCID:
PMC3834834
AbstractArticlePDF–11M
8.
A conditional knockout resource for the genome–wide study of mouse gene function
William C. Skarnes, Barry Rosen, Anthony P. West, Manousos Koutsourakis, Wendy Bushell, Vivek Iyer, Alejandro O. Mujica, Mark Thomas, Jennifer Harrow, Tony Cox, David Jackson, Jessica Severin, Patrick Biggs, Jun Fu, Michael Nefedov, Pieter J. de Jong, A. Francis Stewart, Allan Bradley
Nature. Author manuscript; available in PMC 2013 Feb 14.
Published in final edited form as: Nature. 2011 Jun 15; 474(7351): 337–342. Published online 2011 Jun 15. doi: 10.1038/nature10163
PMCID:
PMC3572410
AbstractArticlePDF–1.1M
9.
Mitochondrial Topoisomerase I is Critical for Mitochondrial Integrity and Cellular Energy Metabolism
Céline Douarre, Carole Sourbier, Ilaria Dalla Rosa, Benu Brata Das, Christophe E. Redon, Hongliang Zhang, Len Neckers, Yves Pommier
PLoS One. 2012; 7(7): e41094. Published online 2012 Jul 20. doi: 10.1371/journal.pone.0041094
PMCID:
PMC3401127
AbstractArticlePDF–805K
10.
Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium
Pascale Gaudet, Michael S. Livstone, Suzanna E. Lewis, Paul D. Thomas
Brief Bioinform. 2011 Sep; 12(5): 449–462. Published online 2011 Aug 27. doi: 10.1093/bib/bbr042
PMCID:
PMC3178059
AbstractArticlePDF–1.0M
11.
A High-Resolution Anatomical Atlas of the Transcriptome in the Mouse Embryo
Graciana Diez-Roux, Sandro Banfi, Marc Sultan, Lars Geffers, Santosh Anand, David Rozado, Alon Magen, Elena Canidio, Massimiliano Pagani, Ivana Peluso, Nathalie Lin-Marq, Muriel Koch, Marchesa Bilio, Immacolata Cantiello, Roberta Verde, Cristian De Masi, Salvatore A. Bianchi, Juliette Cicchini, Elodie Perroud, Shprese Mehmeti, Emilie Dagand, Sabine Schrinner, Asja Nürnberger, Katja Schmidt, Katja Metz, Christina Zwingmann, Norbert Brieske, Cindy Springer, Ana Martinez Hernandez, Sarah Herzog, Frauke Grabbe, Cornelia Sieverding, Barbara Fischer, Kathrin Schrader, Maren Brockmeyer, Sarah Dettmer, Christin Helbig, Violaine Alunni, Marie-Annick Battaini, Carole Mura, Charlotte N. Henrichsen, Raquel Garcia-Lopez, Diego Echevarria, Eduardo Puelles, Elena Garcia-Calero, Stefan Kruse, Markus Uhr, Christine Kauck, Guangjie Feng, Nestor Milyaev, Chuang Kee Ong, Lalit Kumar, MeiSze Lam, Colin A. Semple, Attila Gyenesei, Stefan Mundlos, Uwe Radelof, Hans Lehrach, Paolo Sarmientos, Alexandre Reymond, Duncan R. Davidson, Pascal Dollé, Stylianos E. Antonarakis, Marie-Laure Yaspo, Salvador Martinez, Richard A. Baldock, Gregor Eichele, Andrea Ballabio
PLoS Biol. 2011 Jan; 9(1): e1000582. Published online 2011 Jan 18. doi: 10.1371/journal.pbio.1000582
PMCID:
PMC3022534
AbstractArticlePDF–3.8M
12.
A mitochondrial protein compendium elucidates complex I disease biology
David J. Pagliarini, Sarah E. Calvo, Betty Chang, Sunil A. Sheth, Scott B. Vafai, Shao-En Ong, Geoffrey A. Walford, Canny Sugiana, Avihu Boneh, William K. Chen, David E. Hill, Marc Vidal, James G. Evans, David R. Thorburn, Steven A. Carr, Vamsi K. Mootha
Cell. Author manuscript; available in PMC 2009 Nov 18.
Published in final edited form as: Cell. 2008 Jul 11; 134(1): 112–123. doi: 10.1016/j.cell.2008.06.016
PMCID:
PMC2778844
AbstractArticlePDF–1.2M
13.
Mitochondrial topoisomerase I sites in the regulatory D-loop region of mitochondrial DNA
Hongliang Zhang, Yves Pommier
Biochemistry. Author manuscript; available in PMC 2008 Dec 8.
Published in final edited form as: Biochemistry. 2008 Oct 28; 47(43): 11196–11203. Published online 2008 Oct 1. doi: 10.1021/bi800774b
PMCID:
PMC2597090
AbstractArticlePDF–1.0M
14.
Thirteen-exon-motif signature for vertebrate nuclear and mitochondrial type IB topoisomerases
Hongliang Zhang, Ling-Hua Meng, Drazen B. Zimonjic, Nicholas C. Popescu, Yves Pommier
Nucleic Acids Res. 2004; 32(7): 2087–2092. Published online 2004 Apr 19. doi: 10.1093/nar/gkh525
PMCID:
PMC407812
AbstractArticlePDF–402K
15.
RIKEN Integrated Sequence Analysis (RISA) System—384-Format Sequencing Pipeline with 384 Multicapillary Sequencer
Kazuhiro Shibata, Masayoshi Itoh, Katsunori Aizawa, Sumiharu Nagaoka, Nobuya Sasaki, Piero Carninci, Hideaki Konno, Junichi Akiyama, Katsuo Nishi, Tokuji Kitsunai, Hideo Tashiro, Mari Itoh, Noriko Sumi, Yoshiyuki Ishii, Shin Nakamura, Makoto Hazama, Tsutomu Nishine, Akira Harada, Rintaro Yamamoto, Hiroyuki Matsumoto, Sumito Sakaguchi, Takashi Ikegami, Katsuya Kashiwagi, Syuji Fujiwake, Kouji Inoue, Yoshiyuki Togawa, Masaki Izawa, Eiji Ohara, Masanori Watahiki, Yuko Yoneda, Tomokazu Ishikawa, Kaori Ozawa, Takumi Tanaka, Shuji Matsuura, Jun Kawai, Yasushi Okazaki, Masami Muramatsu, Yorinao Inoue, Akira Kira, Yoshihide Hayashizaki
Genome Res. 2000 Nov; 10(11): 1757–1771. doi: 10.1101/gr.152600
PMCID:
PMC310992
AbstractArticlePDF–3.4M
16.
Normalization and Subtraction of Cap-Trapper-Selected cDNAs to Prepare Full-Length cDNA Libraries for Rapid Discovery of New Genes
Piero Carninci, Yuko Shibata, Norihito Hayatsu, Yuichi Sugahara, Kazuhiro Shibata, Masayoshi Itoh, Hideaki Konno, Yasushi Okazaki, Masami Muramatsu, Yoshihide Hayashizaki
Genome Res. 2000 Oct; 10(10): 1617–1630. doi: 10.1101/gr.145100
PMCID:
PMC310980
AbstractArticlePDF–1.4M
17.
Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences
Mammalian Gene Collection (MGC) Program Team
Proc Natl Acad Sci U S A. 2002 Dec 24; 99(26): 16899–16903. Published online 2002 Dec 11. doi: 10.1073/pnas.242603899
PMCID:
PMC139241
AbstractArticlePDF–118K

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