Works matching DE "ADENYLATION (Biochemistry)"

Results: 172

Polyadenylation site-induced decay of upstream transcripts enforces promoter directionality.

Published in:

Nature Structural & Molecular Biology, 2013, v. 20, n. 8, p. 923, doi. 10.1038/nsmb.2640

By:

Ntini, Evgenia;
Järvelin, Aino I;
Bornholdt, Jette;
Chen, Yun;
Boyd, Mette;
Jørgensen, Mette;
Andersson, Robin;
Hoof, Ilka;
Schein, Aleks;
Andersen, Peter R;
Andersen, Pia K;
Preker, Pascal;
Valen, Eivind;
Zhao, Xiaobei;
Pelechano, Vicent;
Steinmetz, Lars M;
Sandelin, Albin;
Jensen, Torben Heick

Publication type:

Article

Translational control by changes in poly(A) tail length: recycling mRNAs.

Published in:

Nature Structural & Molecular Biology, 2012, v. 19, n. 6, p. 577, doi. 10.1038/nsmb.2311

By:

Weill, Laure;
Belloc, Eulàlia;
Bava, Felice-Alessio;
Méndez, Raúl

Publication type:

Article

Reprogramming Nonribosomal Peptide Synthetases for 'Clickable' Amino Acids.

Published in:

Angewandte Chemie, 2014, v. 126, n. 38, p. 10269, doi. 10.1002/ange.201405281

By:

Kries, Hajo;
Wachtel, Rudolf;
Pabst, Anja;
Wanner, Benedikt;
Niquille, David;
Hilvert, Donald

Publication type:

Article

SANDPUMA: ensemble predictions of nonribosomal peptide chemistry reveal biosynthetic diversity across Actinobacteria.

Published in:

Bioinformatics, 2017, v. 33, n. 20, p. 3202, doi. 10.1093/bioinformatics/btx400

By:

Chevrette, Marc G.;
Aicheler, Fabian;
Kohlbacher, Oliver;
Currie, Cameron R.;
Medema, Marnix H.

Publication type:

Article

Chimira: analysis of small RNA sequencing data and microRNA modifications.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3365, doi. 10.1093/bioinformatics/btv380

By:

Vitsios, Dimitrios M.;
Enright, Anton J.

Publication type:

Article

A change-point model for identifying 3′UTR switching by next-generation RNA sequencing.

Published in:

Bioinformatics, 2014, v. 30, n. 15, p. 2162, doi. 10.1093/bioinformatics/btu189

By:

Wang, Wei;
Wei, Zhi;
Li, Hongzhe

Publication type:

Article

Accurate identification of polyadenylation sites from 3′ end deep sequencing using a naïve Bayes classifier.

Published in:

2014

By:

Sheppard, Sarah;
Lawson, Nathan D.;
Zhu, Lihua Julie

Publication type:

Correction Notice

Accurate identification of polyadenylation sites from 3′ end deep sequencing using a naïve Bayes classifier.

Published in:

Bioinformatics, 2013, v. 29, n. 20, p. 2564, doi. 10.1093/bioinformatics/btt446

By:

Sheppard, Sarah;
Lawson, Nathan D.;
Zhu, Lihua Julie

Publication type:

Article

Expression of tumor suppressor REIC/Dkk-3 by a newly improved adenovirus vector with insertion of a hTERT promoter at the 3'-side of the transgene.

Published in:

Oncology Letters, 2017, v. 14, n. 1, p. 1041, doi. 10.3892/ol.2017.6201

By:

RIE KINOSHITA;
HITOSHI MURATA;
KEN‑ICHI YAMAMOTO;
CHEN YOUYI;
MIYOKO KUBO;
NAM‑HO HUH;
MASAKIYO SAKAGUCHI;
KENJI SAITO;
PUTRANTO, ENDY WIDYA;
WINARSA RUMA, I. MADE;
SUMARDIKA, I. WAYAN;
HIROMI KUMON;
TAKUYA SADAHIRA;
YASUTOMO NASU;
MASAMI WATANABE;
JUNICHIRO FUTAMI;
KEN KATAOKA;
YUSUKE INOUE;
YOSHIHIKO SAKAGUCHI

Publication type:

Article

Isoform Sequencing and State-of-Art Applications for Unravelling Complexity of Plant Transcriptomes.

Published in:

Genes, 2018, v. 9, n. 1, p. 43, doi. 10.3390/genes9010043

By:

An, Dong;
Cao, Hieu X.;
Li, Changsheng;
Humbeck, Klaus;
Wang, Wenqin

Publication type:

Article

CDK regulation of transcription by RNAP II: Not over ‘til it's over?

Published in:

Transcription (2154-1264), 2017, v. 8, n. 2, p. 81, doi. 10.1080/21541264.2016.1268244

By:

Fisher, Robert P.

Publication type:

Article

Genetic and acute CPEB1 depletion ameliorate fragile X pathophysiology.

Published in:

Nature Medicine, 2013, v. 19, n. 11, p. 1473, doi. 10.1038/nm.3353

By:

Udagawa, Tsuyoshi;
Farny, Natalie G;
Jakovcevski, Mira;
Kaphzan, Hanoch;
Alarcon, Juan Marcos;
Anilkumar, Shobha;
Ivshina, Maria;
Hurt, Jessica A;
Nagaoka, Kentaro;
Nalavadi, Vijayalaxmi C;
Lorenz, Lori J;
Bassell, Gary J;
Akbarian, Schahram;
Chattarji, Sumantra;
Klann, Eric;
Richter, Joel D

Publication type:

Article

Substrate-Induced Conformational Changes of the Tyrocidine Synthetase 1 Adenylation Domain Probed by Intrinsic Trp Fluorescence.

Published in:

Protein Journal, 2017, v. 36, n. 3, p. 202, doi. 10.1007/s10930-017-9714-1

By:

Šprung, Matilda;
Soldo, Barbara;
Orhanović, Stjepan;
Bučević-Popović, Viljemka

Publication type:

Article

A Viral Genome Landscape of RNA Polyadenylation from KSHV Latent to Lytic Infection.

Published in:

PLoS Pathogens, 2013, v. 9, n. 11, p. 1, doi. 10.1371/journal.ppat.1003749

By:

Majerciak, Vladimir;
Ni, Ting;
Yang, Wenjing;
Meng, Bowen;
Zhu, Jun;
Zheng, Zhi-Ming

Publication type:

Article

Structural basis of the nonribosomal codes for nonproteinogenic amino acid selective adenylation enzymes in the biosynthesis of natural products.

Published in:

Journal of Industrial Microbiology & Biotechnology, 2019, v. 46, n. 3/4, p. 515, doi. 10.1007/s10295-018-2084-7

By:

Kudo, Fumitaka;
Miyanaga, Akimasa;
Eguchi, Tadashi

Publication type:

Article

Substrate selection of adenylation domains for nonribosomal peptide synthetase (NRPS) in bacillamide C biosynthesis by marine <italic>Bacillus atrophaeus</italic> C89.

Published in:

Journal of Industrial Microbiology & Biotechnology, 2018, v. 45, n. 5, p. 335, doi. 10.1007/s10295-018-2028-2

By:

Zhang, Fengli;
Wang, Yukun;
Jiang, Qun;
Chen, Qihua;
Karthik, Loganathan;
Zhao, Yi-Lei;
Li, Zhiyong

Publication type:

Article

Predicting substrate specificity of adenylation domains of nonribosomal peptide synthetases and other protein properties by latent semantic indexing.

Published in:

Journal of Industrial Microbiology & Biotechnology, 2014, v. 41, n. 2, p. 461, doi. 10.1007/s10295-013-1322-2

By:

Baranašić, Damir;
Zucko, Jurica;
Diminic, Janko;
Gacesa, Ranko;
Long, Paul;
Cullum, John;
Hranueli, Daslav;
Starcevic, Antonio

Publication type:

Article

Mechanisms of mRNA polyadenylation.

Published in:

Turkish Journal of Biology, 2016, v. 40, n. 3, p. 529, doi. 10.3906/biy-1505-94

By:

AĞUŞ, Hızlan Hıncal;
ERSON BENSAN, Ayşe Elif ERSON

Publication type:

Article

Functional and structural characterization of IdnL7, an adenylation enzyme involved in incednine biosynthesis.

Published in:

Acta Crystallographica: Section F, Structural Biology Communications, 2019, v. 75, n. 4, p. 299, doi. 10.1107/S2053230X19002863

By:

Cieślak, Jolanta;
Miyanaga, Akimasa;
Takaishi, Makoto;
Kudo, Fumitaka;
Eguchi, Tadashi

Publication type:

Article

CRISPR mediated targeting of DUX4 distal regulatory element represses DUX4 target genes dysregulated in Facioscapulohumeral muscular dystrophy.

Published in:

Scientific Reports, 2021, v. 11, n. 1, p. 1, doi. 10.1038/s41598-021-92096-0

By:

Das, Sunny;
Chadwick, Brian P.

Publication type:

Article

The contribution of alternative polyadenylation to the cancer phenotype.

Published in:

Carcinogenesis, 2018, v. 39, n. 1, p. 2, doi. 10.1093/carcin/bgx096

By:

Masamha, Chioniso P.;
Wagner, Eric J.

Publication type:

Article

U1 snRNP-Dependent Suppression of Polyadenylation: Physiological Role and Therapeutic Opportunities in Cancer.

Published in:

International Journal of Cell Biology, 2013, p. 1, doi. 10.1155/2013/846510

By:

Spraggon, Lee;
Cartegni, Luca

Publication type:

Article

Regulation of OsmiR156h through Alternative Polyadenylation Improves Grain Yield in Rice.

Published in:

PLoS ONE, 2015, v. 10, n. 5, p. 1, doi. 10.1371/journal.pone.0126154

By:

Zhao, Meng;
Liu, Binmei;
Wu, Kun;
Ye, Yafeng;
Huang, Shixia;
Wang, Shuansuo;
Wang, Yi;
Han, Ruixi;
Liu, Qian;
Fu, Xiangdong;
Wu, Yuejin

Publication type:

Article

Alternative Polyadenylation Allows Differential Negative Feedback of Human miRNA miR-579 on Its Host Gene ZFR.

Published in:

PLoS ONE, 2015, v. 10, n. 3, p. 1, doi. 10.1371/journal.pone.0121507

By:

Hinske, Ludwig Christian;
Galante, Pedro A. F.;
Limbeck, Elisabeth;
Möhnle, Patrick;
Parmigiani, Raphael B.;
Ohno-Machado, Lucila;
Camargo, Anamaria A.;
Kreth, Simone

Publication type:

Article

Integrin α3β1 Signaling through MEK/ERK Determines Alternative Polyadenylation of the MMP-9 mRNA Transcript in Immortalized Mouse Keratinocytes.

Published in:

PLoS ONE, 2015, v. 10, n. 3, p. 1, doi. 10.1371/journal.pone.0119539

By:

Missan, Dara S.;
Mitchell, Kara;
Subbaram, Sita;
DiPersio, C. Michael

Publication type:

Article

Integration of Developmental and Environmental Signals via a Polyadenylation Factor in Arabidopsis.

Published in:

PLoS ONE, 2014, v. 9, n. 12, p. 1, doi. 10.1371/journal.pone.0115779

By:

Liu, Man;
Xu, Ruqiang;
Merrill, Carrie;
Hong, Liwei;
Von Lanken, Carol;
Hunt, Arthur G.;
Li, Qingshun Q.

Publication type:

Article

Aurora Kinase A Is Not Involved in CPEB1 Phosphorylation and cyclin B1 mRNA Polyadenylation during Meiotic Maturation of Porcine Oocytes.

Published in:

PLoS ONE, 2014, v. 9, n. 7, p. 1, doi. 10.1371/journal.pone.0101222

By:

Komrskova, Pavla;
Susor, Andrej;
Malik, Radek;
Prochazkova, Barbora;
Liskova, Lucie;
Supolikova, Jaroslava;
Hladky, Stepan;
Kubelka, Michal

Publication type:

Article

A Non-Canonical NRPS Is Involved in the Synthesis of Fungisporin and Related Hydrophobic Cyclic Tetrapeptides in Penicillium chrysogenum.

Published in:

PLoS ONE, 2014, v. 9, n. 6, p. 1, doi. 10.1371/journal.pone.0098212

By:

Ali, Hazrat;
Ries, Marco I.;
Lankhorst, Peter P.;
van der Hoeven, Rob A. M.;
Schouten, Olaf L.;
Noga, Marek;
Hankemeier, Thomas;
van Peij, Noël N. M. E.;
Bovenberg, Roel A. L.;
Vreeken, Rob J.;
Driessen, Arnold J. M.

Publication type:

Article

U2 snRNP Is Required for Expression of the 3′ End of Genes.

Published in:

PLoS ONE, 2014, v. 9, n. 5, p. 1, doi. 10.1371/journal.pone.0098015

By:

Koga, Mitsunori;
Satoh, Takayuki;
Takasaki, Ichiro;
Kawamura, Yumi;
Yoshida, Minoru;
Kaida, Daisuke

Publication type:

Article

Correction: Role of Alternative Polyadenylation during Adipogenic Differentiation: An In Silico Approach.

Published in:: PLoS ONE, 2014, v. 9, n. 5, p. 1, doi. 10.1371/journal.pone.0091409
Publication type:: Article

HBx Down-Regulated Gld2 Plays a Critical Role in HBV-Related Dysregulation of miR-122.

Published in:

PLoS ONE, 2014, v. 9, n. 3, p. 1, doi. 10.1371/journal.pone.0092998

By:

Peng, Feng;
Xiao, Xinqiang;
Jiang, Yongfang;
Luo, Kaizhong;
Tian, Yi;
Peng, Milin;
Zhang, Min;
Xu, Yun;
Gong, Guozhong

Publication type:

Article

Microarray Meta-Analysis of RNA-Binding Protein Functions in Alternative Polyadenylation.

Published in:

PLoS ONE, 2014, v. 9, n. 3, p. 1, doi. 10.1371/journal.pone.0090774

By:

Hu, Wenchao;
Liu, Yuting;
Yan, Jun

Publication type:

Article

Efficient Translation of Dnmt1 Requires Cytoplasmic Polyadenylation and Musashi Binding Elements.

Published in:

PLoS ONE, 2014, v. 9, n. 2, p. 1, doi. 10.1371/journal.pone.0088385

By:

Rutledge, Charlotte E.;
Lau, Ho-Tak;
Mangan, Hazel;
Hardy, Linda L.;
Sunnotel, Olaf;
Guo, Fan;
MacNicol, Angus M.;
Walsh, Colum P.;
Lees-Murdock, Diane J.

Publication type:

Article

Endothelin-Converting Enzyme-1 (ECE-1) Is Post-Transcriptionally Regulated by Alternative Polyadenylation.

Published in:

PLoS ONE, 2014, v. 9, n. 1, p. 1, doi. 10.1371/journal.pone.0083260

By:

Whyteside, Alison R.;
Turner, Anthony J.;
Lambert, Daniel W.

Publication type:

Article

CPEB4 Knockout Mice Exhibit Normal Hippocampus-Related Synaptic Plasticity and Memory.

Published in:

PLoS ONE, 2013, v. 8, n. 12, p. 1, doi. 10.1371/journal.pone.0084978

By:

Tsai, Li-Yun;
Chang, Yu-Wei;
Lin, Pei-Yi;
Chou, Hsin-Jung;
Liu, Ta-Jen;
Lee, Ping-Tao;
Huang, Wen-Hsuan;
Tsou, Yueh-Liang;
Huang, Yi-Shuian

Publication type:

Article

Adaptation of an L-Proline Adenylation Domain to Use 4-Propyl-L-Proline in the Evolution of Lincosamide Biosynthesis.

Published in:

PLoS ONE, 2013, v. 8, n. 12, p. 1, doi. 10.1371/journal.pone.0084902

By:

Kadlčík, Stanislav;
Kučera, Tomáš;
Chalupská, Dominika;
Gažák, Radek;
Koběrská, Markéta;
Ulanová, Dana;
Kopecký, Jan;
Kutejová, Eva;
Najmanová, Lucie;
Janata, Jiří

Publication type:

Article

Epidermal Growth-Factor – Induced Transcript Isoform Variation Drives Mammary Cell Migration.

Published in:

PLoS ONE, 2013, v. 8, n. 12, p. 1, doi. 10.1371/journal.pone.0080566

By:

Köstler, Wolfgang J.;
Zeisel, Amit;
Körner, Cindy;
Tsai, Jonathan M.;
Jacob-Hirsch, Jasmine;
Ben-Chetrit, Nir;
Sharma, Kirti;
Cohen-Dvashi, Hadas;
Yitzhaky, Assif;
Lader, Eric;
Tschulena, Ulrich;
Rechavi, Gideon;
Domany, Eytan;
Wiemann, Stefan;
Yarden, Yosef

Publication type:

Article

RNA Polyadenylation Sites on the Genomes of Microorganisms, Animals, and Plants.

Published in:

PLoS ONE, 2013, v. 8, n. 11, p. 1, doi. 10.1371/journal.pone.0079511

By:

Li, Xiu-Qing;
Du, Donglei

Publication type:

Article

A Polymorphic 3’UTR Element in ATP1B1 Regulates Alternative Polyadenylation and Is Associated with Blood Pressure.

Published in:

PLoS ONE, 2013, v. 8, n. 10, p. 1, doi. 10.1371/journal.pone.0076290

By:

Prasad, Megana K.;
Bhalla, Kavita;
Pan, Zhen Hua;
O’Connell, Jeffrey R.;
Weder, Alan B.;
Chakravarti, Aravinda;
Tian, Bin;
Chang, Yen-Pei C.

Publication type:

Article

Role of Alternative Polyadenylation during Adipogenic Differentiation: An In Silico Approach.

Published in:

PLoS ONE, 2013, v. 8, n. 10, p. 1, doi. 10.1371/journal.pone.0075578

By:

Spangenberg, Lucía;
Correa, Alejandro;
Dallagiovanna, Bruno;
Naya, Hugo

Publication type:

Article

Exploring the Adenylation Domain Repertoire of Nonribosomal Peptide Synthetases Using an Ensemble of Sequence-Search Methods.

Published in:

PLoS ONE, 2013, v. 8, n. 7, p. 1, doi. 10.1371/journal.pone.0065926

By:

Agüero-Chapin, Guillermin;
Molina-Ruiz, Reinaldo;
Maldonado, Emanuel;
de la Riva, Gustavo;
Sánchez-Rodríguez, Aminael;
Vasconcelos, Vitor;
Antunes, Agostinho

Publication type:

Article

The 25 kDa Subunit of Cleavage Factor Im Is a RNA-Binding Protein That Interacts with the Poly(A) Polymerase in Entamoeba histolytica.

Published in:

PLoS ONE, 2013, v. 8, n. 6, p. 1, doi. 10.1371/journal.pone.0067977

By:

Pezet-Valdez, Marisol;
Fernández-Retana, Jorge;
Ospina-Villa, Juan David;
Ramírez-Moreno, María Esther;
Orozco, Esther;
Charcas-López, Socorro;
Soto-Sánchez, Jacqueline;
Mendoza-Hernández, Guillermo;
López-Casamicha, Mavil;
López-Camarillo, César;
Marchat, Laurence A.

Publication type:

Article

A Subset of Histone H2B Genes Produces Polyadenylated mRNAs under a Variety of Cellular Conditions

Published in:

PLoS ONE, 2013, v. 8, n. 5, p. 1, doi. 10.1371/journal.pone.0063745

By:

Kari, Vijayalakshmi;
Karpiuk, Oleksandra;
Tieg, Bettina;
Kriegs, Malte;
Dikomey, Ekkehard;
Krebber, Heike;
Begus-Nahrmann, Yvonne;
Johnsen, Steven A.

Publication type:

Article

LPS Challenge Regulates Gene Expression and Tissue Localization of a Ciona intestinalis Gene through an Alternative Polyadenylation Mechanism.

Published in:

PLoS ONE, 2013, v. 8, n. 4, p. 1, doi. 10.1371/journal.pone.0063235

By:

Vizzini, Aiti;
Bonura, Angela;
Parrinello, Daniela;
Sanfratello, Maria Antonietta;
Longo, Valeria;
Colombo, Paolo

Publication type:

Article

Classification of the Adenylation and Acyl-Transferase Activity of NRPS and PKS Systems Using Ensembles of Substrate Specific Hidden Markov Models.

Published in:

PLoS ONE, 2013, v. 8, n. 4, p. 1, doi. 10.1371/journal.pone.0062136

By:

Khayatt, Barzan I.;
Overmars, Lex;
Siezen, Roland J.;
Francke, Christof

Publication type:

Article

Characterization of the Distal Polyadenylation Site of the ß-Adducin (Add2) Pre-mRNA.

Published in:

PLoS ONE, 2013, v. 8, n. 3, p. 1, doi. 10.1371/journal.pone.0058879

By:

Costessi, Luisa;
Porro, Fabiola;
Iaconcig, Alessandra;
Nedeljkovic, Mirjana;
Muro, Andrés Fernando

Publication type:

Article

5′ UTR Control of Native ERG and of Tmprss2:ERG Variants Activity in Prostate Cancer.

Published in:

PLoS ONE, 2013, v. 8, n. 3, p. 1, doi. 10.1371/journal.pone.0049721

By:

Zammarchi, Francesca;
Boutsalis, George;
Cartegni, Luca

Publication type:

Article

Depletion of Nuclear Poly(A) Binding Protein PABPN1 Produces a Compensatory Response by Cytoplasmic PABP4 and PABP5 in Cultured Human Cells.

Published in:

PLoS ONE, 2012, v. 7, n. 12, p. 1, doi. 10.1371/journal.pone.0053036

By:

Bhattacharjee, Rumpa Biswas;
Bag, Jnanankur

Publication type:

Article

The Repertoire and Features of Human Platelet microRNAs.

Published in:

PLoS ONE, 2012, v. 7, n. 12, p. 1, doi. 10.1371/journal.pone.0050746

By:

Pleé, Hélène;
Landry, Patricia;
Benham, Ashley;
Coarfa, Cristian;
Gunaratne, Preethi H.;
Provost, Patrick

Publication type:

Article

The τCstF-64 Polyadenylation Protein Controls Genome Expression in Testis.

Published in:

PLoS ONE, 2012, v. 7, n. 10, p. 1, doi. 10.1371/journal.pone.0048373

By:

Wencheng Li;
Hsiang-Jui Yeh;
Shankarling, Ganesh S.;
Zhe Ji;
Bin Tian;
MacDonald, Clinton C.;
Rouault, Jean-Pierre

Publication type:

Article