PMC Links for GEO Profiles (Select 116733725) - PMC

Select item 106539311.

Interferon-stimulated gene TDRD7 interacts with AMPK and inhibits its activation to suppress viral replication and pathogenesis

Sukanya Chakravarty, Gayatri Subramanian, Sonam Popli, Manoj Veleeparambil, Shumin Fan, Ritu Chakravarti, Saurabh Chattopadhyay

mBio. 2023 Sep-Oct; 14(5): e00611-23. Published online 2023 Sep 15. doi: 10.1128/mbio.00611-23

PMCID:: PMC10653931

Abstract Article PDF–5.8M

Select item 79213302.

Genome-Wide Analysis of Differentially Expressed miRNAs and Their Associated Regulatory Networks in Lenses Deficient for the Congenital Cataract-Linked Tudor Domain Containing Protein TDRD7

Deepti Anand, Salma Al Saai, Sanjaya K. Shrestha, Carrie E. Barnum, Shinichiro Chuma, Salil A. Lachke

Front Cell Dev Biol. 2021; 9: 615761. Published online 2021 Feb 16. doi: 10.3389/fcell.2021.615761

PMCID:: PMC7921330

Abstract Article PDF–6.7M

Select item 73909393.

The Tudor-domain protein TDRD7, mutated in congenital cataract, controls the heat shock protein HSPB1 (HSP27) and lens fiber cell morphology

Carrie E Barnum, Salma Al Saai, Shaili D Patel, Catherine Cheng, Deepti Anand, Xiaolu Xu, Soma Dash, Archana D Siddam, Lisa Glazewski, Emily Paglione, Shawn W Polson, Shinichiro Chuma, Robert W Mason, Shuo Wei, Mona Batish, Velia M Fowler, Salil A Lachke

Hum Mol Genet. 2020 Jul 29; 29(12): 2076–2097. Published online 2020 May 18. doi: 10.1093/hmg/ddaa096

PMCID:: PMC7390939

Abstract Article PDF–4.1M

Select item 72426954.

The interferon-inducible protein TDRD7 inhibits AMP-activated protein kinase and thereby restricts autophagy-independent virus replication

Gayatri Subramanian, Sonam Popli, Sukanya Chakravarty, R. Travis Taylor, Ritu Chakravarti, Saurabh Chattopadhyay

J Biol Chem. 2020 May 15; 295(20): 6811–6822. Published online 2020 Apr 9. doi: 10.1074/jbc.RA120.013533

PMCID:: PMC7242695

Abstract Article PDF–1.9M

Select item 35724105.

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

Abstract Article PDF–1.1M

Select item 32791226.

Mutations in the RNA Granule Component TDRD7 Cause Cataract and Glaucoma

Salil A. Lachke, Fowzan S. Alkuraya, Stephen C. Kneeland, Takbum Ohn, Anton Aboukhalil, Gareth R. Howell, Irfan Saadi, Resy Cavallesco, Yingzi Yue, Anne C-H. Tsai, K. Saidas Nair, Mihai I. Cosma, Richard S. Smith, Emily Hodges, Suad M. AlFadhli, Amal Al-Hajeri, Hanan E. Shamseldin, AbdulMutalib Behbehani, Gregory J. Hannon, Martha L. Bulyk, Arlene V. Drack, Paul J. Anderson, Simon W. M. John, Richard L. Maas

Science. Author manuscript; available in PMC 2012 Feb 14.

Published in final edited form as: Science. 2011 Mar 25; 331(6024): 1571–1576. doi: 10.1126/science.1195970

PMCID:: PMC3279122

Abstract Article PDF–2.6M

Select item 31780597.

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

Abstract Article PDF–1.0M

Select item 31279268.

Tudor domain containing 7 (Tdrd7) is essential for dynamic ribonucleoprotein (RNP) remodeling of chromatoid bodies during spermatogenesis

Takashi Tanaka, Mihoko Hosokawa, Vasily V. Vagin, Michael Reuter, Eri Hayashi, Ayako L. Mochizuki, Kouichi Kitamura, Hidenori Yamanaka, Gen Kondoh, Katsuya Okawa, Satomi Kuramochi-Miyagawa, Toru Nakano, Ravi Sachidanandam, Gregory J. Hannon, Ramesh S. Pillai, Norio Nakatsuji, Shinichiro Chuma

Proc Natl Acad Sci U S A. 2011 Jun 28; 108(26): 10579–10584. Published online 2011 Jun 13. doi: 10.1073/pnas.1015447108

PMCID:: PMC3127926

Abstract Article PDF–1.4M

Select item 30518099.

TDRD5 is required for retrotransposon silencing, chromatoid body assembly, and spermiogenesis in mice

Yukihiro Yabuta, Hiroshi Ohta, Takaya Abe, Kazuki Kurimoto, Shinichiro Chuma, Mitinori Saitou

J Cell Biol. 2011 Mar 7; 192(5): 781–795. doi: 10.1083/jcb.201009043

PMCID:: PMC3051809

Abstract Article PDF–4.0M

Select item 302253410.

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

Abstract Article PDF–3.8M

Select item 272025511.

Proteomic analysis of murine Piwi proteins reveals a role for arginine methylation in specifying interaction with Tudor family members

Vasily V. Vagin, James Wohlschlegel, Jun Qu, Zophonias Jonsson, Xinhua Huang, Shinichiro Chuma, Angelique Girard, Ravi Sachidanandam, Gregory J. Hannon, Alexei A. Aravin

Genes Dev. 2009 Aug 1; 23(15): 1749–1762. doi: 10.1101/gad.1814809

PMCID:: PMC2720255

Abstract Article PDF–1.7M

Select item 119959112.

A genome-wide in situ hybridization map of RNA-binding proteins reveals anatomically restricted expression in the developing mouse brain

Adrienne E McKee, Emmanuel Minet, Charlene Stern, Shervin Riahi, Charles D Stiles, Pamela A Silver

BMC Dev Biol. 2005; 5: 14. Published online 2005 Jul 20. doi: 10.1186/1471-213X-5-14

PMCID:: PMC1199591

Abstract Article PDF–2.0M

Select item 52892813.

The Status, Quality, and Expansion of the NIH Full-Length cDNA Project: The Mammalian Gene Collection (MGC)

Genome Res. 2004 Oct; 14(10b): 2121–2127. doi: 10.1101/gr.2596504

Correction in:: Genome Res. 2006 Jun; 16(6): 804.

PMCID:: PMC528928

Abstract Article PDF–140K

Select item 43978314.

Genomic Analysis of Mouse Retinal Development

Seth Blackshaw, Sanjiv Harpavat, Jeff Trimarchi, Li Cai, Haiyan Huang, Winston P Kuo, Griffin Weber, Kyungjoon Lee, Rebecca E Fraioli, Seo-Hee Cho, Rachel Yung, Elizabeth Asch, Lucila Ohno-Machado, Wing H Wong, Constance L Cepko

PLoS Biol. 2004 Sep; 2(9): e247. Published online 2004 Jun 29. doi: 10.1371/journal.pbio.0020247

PMCID:: PMC439783

Abstract Article PDF–975K

Select item 40371215.

Targeting a Complex Transcriptome: The Construction of the Mouse Full-Length cDNA Encyclopedia

Piero Carninci, Kazunori Waki, Toshiyuki Shiraki, Hideaki Konno, Kazuhiro Shibata, Masayoshi Itoh, Katsunori Aizawa, Takahiro Arakawa, Yoshiyuki Ishii, Daisuke Sasaki, Hidemasa Bono, Shinji Kondo, Yuichi Sugahara, Rintaro Saito, Naoki Osato, Shiro Fukuda, Kenjiro Sato, Akira Watahiki, Tomoko Hirozane-Kishikawa, Mari Nakamura, Yuko Shibata, Ayako Yasunishi, Noriko Kikuchi, Atsushi Yoshiki, Moriaki Kusakabe, Stefano Gustincich, Kirk Beisel, William Pavan, Vassilis Aidinis, Akira Nakagawara, William A. Held, Hiroo Iwata, Tomohiro Kono, Hiromitsu Nakauchi, Paul Lyons, Christine Wells, David A. Hume, Michela Fagiolini, Takao K. Hensch, Michelle Brinkmeier, Sally Camper, Junji Hirota, Peter Mombaerts, Masami Muramatsu, Yasushi Okazaki, Jun Kawai, Yoshihide Hayashizaki

Genome Res. 2003 Jun; 13(6b): 1273–1289. doi: 10.1101/gr.1119703

PMCID:: PMC403712

Abstract Article PDF–770K

Select item 31099216.

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

Abstract Article PDF–3.4M

Select item 31098017.

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

Abstract Article PDF–1.4M

Select item 13924118.

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

Abstract Article PDF–118K

Select item 2980019.

Database resources of the National Center for Biotechnology Information

David L. Wheeler, Deanna M. Church, Alex E. Lash, Detlef D. Leipe, Thomas L. Madden, Joan U. Pontius, Gregory D. Schuler, Lynn M. Schriml, Tatiana A. Tatusova, Lukas Wagner, Barbara A. Rapp

Nucleic Acids Res. 2001 Jan 1; 29(1): 11–16. doi: 10.1093/nar/29.1.11

PMCID:: PMC29800

Abstract Article PDF–101K

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