Nucleic Acids Research

Nucleic Acids Research
pp. i-i(1)

Nucleic Acids Research - Editorial Board
pp. ii-ii(1)

Subscriptions
pp. iii-iii(1)

Enhanced analysis of real-time PCR data by using a variable efficiency model: FPK-PCR
pp. e10-e10(1)
Authors: Lievens, Antoon; Van Aelst, S.; Van den Bulcke, M.; Goetghebeur, E.

i-ADHoRe 3.0fast and sensitive detection of genomic homology in extremely large data sets
pp. e11-e11(1)
Authors: Proost, Sebastian; Fostier, Jan; De Witte, Dieter; Dhoedt, Bart; Demeester, Piet; Van de Peer, Yves; Vandepoele, Klaas

GenomeView: a next-generation genome browser
pp. e12-e12(1)
Authors: Abeel, Thomas; Van Parys, Thomas; Saeys, Yvan; Galagan, James; Van de Peer, Yves

In vitro quantification of specific microRNA using molecular beacons
pp. e13-e13(1)
Authors: Baker, Meredith B.; Bao, Gang; Searles, Charles D.

Novel reporter systems for facile evaluation of I-SceI-mediated genome editing
pp. e14-e14(1)
Authors: Muoz, Nina M.; Beard, Brian C.; Ryu, Byoung Y.; Luche, Ralf M.; Trobridge, Grant D.; Rawlings, David J.; Scharenberg, Andrew M.; Kiem, Hans-Peter

MetaQC: objective quality control and inclusion/exclusion criteria for genomic meta-analysis
pp. e15-e15(1)
Authors: Kang, Dongwan D.; Sibille, Etienne; Kaminski, Naftali; Tseng, George C.

Quantitative model of R-loop forming structures reveals a novel level of RNADNA interactome complexity
pp. e16-e16(1)
Authors: Wongsurawat, Thidathip; Jenjaroenpun, Piroon; Kwoh, Chee Keong; Kuznetsov, Vladimir

Safeguarding genome integrity: the checkpoint kinases ATR, CHK1 and WEE1 restrain CDK activity during normal DNA replication
pp. 477-486(10)
Authors: Srensen, Claus Storgaard; Syljusen, Randi G.

Predicting coaxial helical stacking in RNA junctions
pp. 487-498(12)
Authors: Laing, Christian; Wen, Dongrong; Wang, Jason T. L.; Schlick, Tamar

An integrative genomic approach identifies p73 and p63 as activators of miR-200 microRNA family transcription
pp. 499-510(12)
Authors: Knouf, Emily C.; Garg, Kavita; Arroyo, Jason D.; Correa, Yesenia; Sarkar, Deepayan; Parkin, Rachael K.; Wurz, Kaitlyn; OBriant, Kathy C.; Godwin, Andrew K.; Urban, Nicole D.; Ruzzo, Walter L.; Gentleman, Robert; Drescher, Charles W.; Swisher, Elizabeth M.; Tewari, Muneesh

Genome-wide prediction and analysis of human chromatin boundary elements
pp. 511-529(19)
Authors: Wang, Jianrong; Lunyak, Victoria V.; Jordan, I. King

Joint scaling laws in functional and evolutionary categories in prokaryotic genomes
pp. 530-540(11)
Authors: Grilli, J.; Bassetti, B.; Maslov, S.; Cosentino Lagomarsino, M.

IRES-mediated translation of cellular messenger RNA operates in eIF2- independent manner during stress
pp. 541-552(12)
Authors: Thakor, Nehal; Holcik, Martin

Modeling the relative relationship of transcription factor binding and histone modifications to gene expression levels in mouse embryonic stem cells
pp. 553-568(16)
Authors: Cheng, Chao; Gerstein, Mark

Function and disruption of DNA Methyltransferase 3a cooperative DNA binding and nucleoprotein filament formation
pp. 569-580(12)
Authors: Rajavelu, Arumugam; Jurkowska, Renata Z.; Fritz, Jrgen; Jeltsch, Albert

The tail-module of yeast Mediator complex is required for telomere heterochromatin maintenance
pp. 581-593(13)
Authors: Peng, Jing; Zhou, Jin-Qiu

RDR6-mediated synthesis of complementary RNA is terminated by miRNA stably bound to template RNA
pp. 594-599(6)
Authors: Rajeswaran, Rajendran; Pooggin, Mikhail M.

Regulation of u-PAR gene expression by H2A.Z is modulated by the MEKERK/AP-1 pathway
pp. 600-613(14)
Authors: Chauhan, Santosh; Boyd, Douglas D.

Transcriptional activation by mitochondrial transcription factor A involves preferential distortion of promoter DNA
pp. 614-624(11)
Authors: Malarkey, Christopher S.; Bestwick, Megan; Kuhlwilm, Jane E.; Shadel, Gerald S.; Churchill, Mair E. A.

Nucleosome occupancy reveals regulatory elements of the CFTR promoter
pp. 625-637(13)
Authors: Ott, Christopher J.; Bischof, Jared M.; Unti, Kristen M.; Gillen, Austin E.; Leir, Shih-Hsing; Harris, Ann

Phosphorylation of bamboo mosaic virus satellite RNA (satBaMV)-encoded protein P20 downregulates the formation of satBaMV-P20 ribonucleoprotein complex
pp. 638-649(12)
Authors: Vijayapalani, Paramasivan; Chen, Jeff Chien-Fu; Liou, Ming-Ru; Chen, Hsin-Chuan; Hsu, Yau-Heiu; Lin, Na-Sheng

TFIIH is an elongation factor of RNA polymerase I
pp. 650-659(10)
Authors: Assfalg, Robin; Lebedev, Anton; Gonzalez, Omar Garcia; Schelling, Adrian; Koch, Sylvia; Iben, Sebastian

The human histone chaperone sNASP interacts with linker and core histones through distinct mechanisms
pp. 660-669(10)
Authors: Wang, Huanyu; Ge, Zhongqi; Walsh, Scott T. R.; Parthun, Mark R.

Single-nucleotide base excision repair DNA polymerase activity in C. elegans in the absence of DNA polymerase
pp. 670-681(12)
Authors: Asagoshi, Kenjiro; Lehmann, Wade; Braithwaite, Elena K.; Santana-Santos, Lucas; Prasad, Rajendra; Freedman, Jonathan H.; Van Houten, Bennett; Wilson, Samuel H.

REV1 and polymerase facilitate homologous recombination repair
pp. 682-691(10)
Authors: Sharma, Shilpy; Hicks, J. Kevin; Chute, Colleen L.; Brennan, Julia R.; Ahn, Joon-Young; Glover, Thomas W.; Canman, Christine E.

Base excision repair of 8-oxoG in dinucleosomes
pp. 692-700(9)
Authors: Menoni, Herv; Shukla, Manu Shubhdarshan; Gerson, Vronique; Dimitrov, Stefan; Angelov, Dimitar

Ubiquitin ligase UBR3 regulates cellular levels of the essential DNA repair protein APE1 and is required for genome stability
pp. 701-711(11)
Authors: Meisenberg, Cornelia; Tait, Phillip S.; Dianova, Irina I.; Wright, Katherine; Edelmann, Mariola J.; Ternette, Nicola; Tasaki, Takafumi; Kessler, Benedikt M.; Parsons, Jason L.; Tae Kwon, Yong; Dianov, Grigory L.

Human telomerase acts as a hTR-independent reverse transcriptase in mitochondria
pp. 712-725(14)
Authors: Sharma, Nilesh K.; Reyes, Aurelio; Green, Paula; Caron, Matthieu J.; Bonini, Marcelo G.; Gordon, Donna M.; Holt, Ian J.; Santos, Janine Hertzog

A dual role of BRCA1 in two distinct homologous recombination mediated repair in response to replication arrest
pp. 726-738(13)
Authors: Feng, Zhihui; Zhang, Junran

Untwisting of the DNA helix stimulates the endonuclease activity of Bacillus subtilis Nth at AP sites
pp. 739-750(12)
Authors: Collier, Christopher; Machn, Cristina; Briggs, Geoff S.; Smits, Wiep Klaas; Soultanas, Panos

A single zinc finger optimizes the DNA interactions of the nucleocapsid protein of the yeast retrotransposon Ty3
pp. 751-760(10)
Authors: Chaurasiya, Kathy R.; Geertsema, Hylkje; Cristofari, Gal; Darlix, Jean-Luc; Williams, Mark C.

MiR-145 directly targets p70S6K1 in cancer cells to inhibit tumor growth and angiogenesis
pp. 761-774(14)
Authors: Xu, Qing; Liu, Ling-Zhi; Qian, Xu; Chen, Qi; Jiang, Yue; Li, Dan; Lai, Lihui; Jiang, Bing-Hua

Retroviral GAG proteins recruit AGO2 on viral RNAs without affecting RNA accumulation and translation
pp. 775-786(12)
Authors: Bouttier, Manuella; Saumet, Anne; Peter, Marion; Courgnaud, Valrie; Schmidt, Ute; Cazevieille, Chantal; Bertrand, Edouard; Lecellier, Charles-Henri

RNA-binding protein HuR autoregulates its expression by promoting alternative polyadenylation site usage
pp. 787-800(14)
Authors: Dai, Weijun; Zhang, Gen; Makeyev, Eugene V.

ATP-regulated interactions between P1 ParA, ParB and non-specific DNA that are stabilized by the plasmid partition site, parS
pp. 801-812(12)
Authors: Havey, James C.; Vecchiarelli, Anthony G.; Funnell, Barbara E.

Polymerization and nucleic acid-binding properties of human L1 ORF1 protein
pp. 813-827(15)
Authors: Callahan, Kathryn E.; Hickman, Alison B.; Jones, Charles E.; Ghirlando, Rodolfo; Furano, Anthony V.

Structural insights to the metal specificity of an archaeal member of the LigD 3-phosphoesterase DNA repair enzyme family
pp. 828-836(9)
Authors: Das, Ushati; Smith, Paul; Shuman, Stewart

Saccharomyces cerevisiae Ngl3p is an active 35 exonuclease with a specificity towards poly-A RNA reminiscent of cellular deadenylases
pp. 837-846(10)
Authors: Feddersen, Ane; Dedic, Emil; Poulsen, Esben G.; Schmid, Manfred; Van, Lan Bich; Jensen, Torben Heick; Brodersen, Ditlev E.

Creating highly specific nucleases by fusion of active restriction endonucleases and catalytically inactive homing endonucleases
pp. 847-860(14)
Authors: Fonfara, Ines; Curth, Ute; Pingoud, Alfred; Wende, Wolfgang

Direct structural analysis of modified RNA by fluorescent in-line probing
pp. 861-870(10)
Authors: Strauss, Benjamin; Nierth, Alexander; Singer, Marco; Jschke, Andres

Regulation of conditional gene expression by coupled transcription repression and RNA degradation
pp. 871-883(13)
Authors: Lavoie, Mathieu; Ge, Dongling; Abou Elela, Sherif

Hepato-specific microRNA-122 facilitates accumulation of newly synthesized miRNA through regulating PRKRA
pp. 884-891(8)
Authors: Li, Shuai; Zhu, Juanjuan; Fu, Hanjiang; Wan, Jing; Hu, Zheng; Liu, Shanshan; Li, Jie; Tie, Yi; Xing, Ruiyun; Zhu, Jie; Sun, Zhixian; Zheng, Xiaofei

New insights into the fundamental role of topological constraints as a determinant of two-way junction conformation
pp. 892-904(13)
Authors: Mustoe, Anthony M.; Bailor, Maximillian H.; Teixeira, Robert M.; Brooks, Charles L.; Al-Hashimi, Hashim M.

The human translation initiation multi-factor complex promotes methionyl-tRNA_i binding to the 40S ribosomal subunit
pp. 905-913(9)
Authors: Sokabe, Masaaki; Fraser, Christopher S.; Hershey, John W. B.

ATP driven structural changes of the bacterial Mre11:Rad50 catalytic head complex
pp. 914-927(14)
Authors: Mckel, Carolin; Lammens, Katja; Schele, Alexandra; Hopfner, Karl-Peter

The structural characterization of a prophage-encoded extracellular DNase from Streptococcus pyogenes
pp. 928-938(11)
Authors: Korczynska, Justyna E.; Turkenburg, Johan P.; Taylor, Edward J.

Avoiding cytotoxicity of transposases by dose-controlled mRNA delivery
pp. 939-939(1)
Authors: Galla, Melanie; Schambach, Axel; Falk, Christine S.; Maetzig, Tobias; Kuehle, Johannes; Lange, Kathrin; Zychlinski, Daniela; Heinz, Niels; Brugman, Martijn H.; Ghring, Gudrun; Izsvk, Zsuzsanna; Ivics, Zoltn; Baum, Christopher