Works matching DE "DNA-protein interactions"

Results: 1114

iProtDNA-SMOTE: Enhancing protein-DNA binding sites prediction through imbalanced graph neural networks.

Published in:

PLoS ONE, 2025, v. 20, n. 5, p. 1, doi. 10.1371/journal.pone.0320817

By:

Huang, Ruiyan;
Qiu, Wangren;
Xiao, Xuan;
Lin, Weizhong

Publication type:

Article

Retraction Note: Diatom-based biosynthesis of gold–silica nanocomposite and their DNA binding affinity.

Published in:

Journal of Applied Phycology, 2025, v. 37, n. 2, p. 1523, doi. 10.1007/s10811-025-03510-3

By:

Roychoudhury, Piya;
Nandi, Camellia;
Pal, Ruma

Publication type:

Article

A Single-Strand Annealing Protein Clamps DNA to Detect and Secure Homology.

Published in:

PLoS Biology, 2015, v. 13, n. 8, p. 1, doi. 10.1371/journal.pbio.1002213

By:

Ander, Marcel;
Subramaniam, Sivaraman;
Fahmy, Karim;
Stewart, A. Francis;
Schäffer, Erik

Publication type:

Article

Destabilizing DNA during Rejoining Enhances Fidelity of Repair.

Published in:

PLoS Biology, 2015, v. 13, n. 8, p. 1, doi. 10.1371/journal.pbio.1002214

By:

Robinson, Richard

Publication type:

Article

Bayesian Modeling of the Yeast SH3 Domain Interactome Predicts Spatiotemporal Dynamics of Endocytosis Proteins.

Published in:

PLoS Biology, 2009, v. 7, n. 10, p. 1, doi. 10.1371/journal.pbio.1000218

By:

Tonikian, Raffi;
Xiaofeng Xin;
Toret, Christopher P.;
Gfeller, David;
Landgraf, Christiane;
Panni, Simona;
Paoluzi, Serena;
Castagnoli, Luisa;
Currell, Bridget;
Seshagiri, Somasekar;
Haiyuan Yu;
Winsor, Barbara;
Vidal, Marc;
Gerstein, Mark B.;
Bader, Gary D.;
Volkmer, Rudolf;
Cesareni, Gianni;
Drubin, David G.;
Kim, Philip M.;
Sidhu, Sachdev S.

Publication type:

Article

Different Quaternary Structures of Human RECQ1 Are Associated with Its Dual Enzymatic Activity.

Published in:

PLoS Biology, 2007, v. 5, n. 2, p. 157, doi. 10.1371/journal.pbio.0050020

By:

Muzzolini, Laura;
Beuron, Fabienne;
Patwardhan, Ardan;
Popuri, Venkateswarlu;
Sheng Cui;
Niccolini, Benedetta;
Rappas, Mathieu;
Freemont, Paul S.;
Vindigni, Alessandro

Publication type:

Article

The Crystal Structure of the SV40 T-Antigen Origin Binding Domain in Complex with DNA.

Published in:

PLoS Biology, 2007, v. 5, n. 2, p. 144, doi. 10.1371/journal.pbio.0050023

By:

Meinke, Gretchen;
Phelan, Paul;
Moine, Stephanie;
Bochkareva, Elena;
Bochkarev, Alexey;
Bullock, Peter A.;
Bohm, Andrew

Publication type:

Article

The Structural Basis for Promoter --35 Element Recognition by the Group IV σ Factors.

Published in:

PLoS Biology, 2006, v. 4, n. 9, p. 1491, doi. 10.1371/journal.pbio.0040269

By:

Lane, William J.;
Darst, Seth A.

Publication type:

Article

Polycombing Drosophila for Dynamic Developmental Footprints.

Published in:

PLoS Biology, 2006, v. 4, n. 6, p. e177, doi. 10.1371/journal.pbio.0040177

By:

Hill, Emma

Publication type:

Article

Introduction to selected papers from MCCMB 2015.

Published in:

Journal of Bioinformatics & Computational Biology, 2016, v. 14, n. 2, p. -1, doi. 10.1142/S0219720016020030

By:

Gelfand, Mikhail

Publication type:

Article

Conserved features of complexes of TATA-box binding proteins with DNA.

Published in:

Journal of Bioinformatics & Computational Biology, 2016, v. 14, n. 2, p. -1, doi. 10.1142/S0219720016410079

By:

Zanegina, Olga;
Aksianov, Evgeniy;
Alexeevski, Andrei V.;
Karyagina, Anna;
Spirin, Sergei

Publication type:

Article

FOUNDATIONS FOR MODELING THE DYNAMICS OF GENE REGULATORY NETWORKS: A MULTILEVEL-PERSPECTIVE REVIEW.

Published in:

Journal of Bioinformatics & Computational Biology, 2014, v. 12, n. 1, p. -1, doi. 10.1142/S0219720013300037

By:

SANCHEZ-OSORIO, ISMAEL;
RAMOS, FERNANDO;
MAYORGA, PEDRO;
DANTAN, EDGAR

Publication type:

Article

MOTIF DISCOVERY WITH DATA MINING IN 3D PROTEIN STRUCTURE DATABASES: DISCOVERY, VALIDATION AND PREDICTION OF THE U-SHAPE ZINC BINDING ("HUF-ZINC") MOTIF.

Published in:

Journal of Bioinformatics & Computational Biology, 2013, v. 11, n. 1, p. -1, doi. 10.1142/S0219720013400088

By:

MAURER-STROH, SEBASTIAN;
GAO, HE;
HAN, HAO;
BAETEN, LIES;
SCHYMKOWITZ, JOOST;
ROUSSEAU, FREDERIC;
ZHANG, LOUXIN;
EISENHABER, FRANK

Publication type:

Article

DEPPDB - DNA ELECTROSTATIC POTENTIAL PROPERTIES DATABASE:: ELECTROSTATIC PROPERTIES OF GENOME DNA ELEMENTS.

Published in:

Journal of Bioinformatics & Computational Biology, 2012, v. 10, n. 2, p. 1241004-1, doi. 10.1142/S0219720012410041

By:

OSYPOV, ALEXANDER A.;
KRUTININ, GLEB G.;
KRUTININA, EUGENIA A.;
KAMZOLOVA, SVETLANA G.

Publication type:

Article

PREDICTION OF DNA-BINDING RESIDUES FROM SEQUENCE FEATURES.

Published in:

Journal of Bioinformatics & Computational Biology, 2006, v. 4, n. 6, p. 1141, doi. 10.1142/S0219720006002387

By:

LIANGJIANG WANG;
BROWN, SUSAN J.

Publication type:

Article

ANALYSIS OF CONSERVED HYDROPHOBIC CORES IN PROTEINS AND SUPRAMOLECULAR COMPLEXES.

Published in:

Journal of Bioinformatics & Computational Biology, 2006, v. 4, n. 2, p. 357, doi. 10.1142/S0219720006001837

By:

Karyagina, Anna;
Ershova, Anna;
Titov, Mikhail;
Olovnikov, Ivan;
Aksianov, Evgeniy;
Ryazanova, Alexandra;
Kubareva, Elena;
Spirin, Sergei;
Alexeevski, Andrei

Publication type:

Article

INTEGRATION OF BIOINFORMATICS AND COMPUTATIONAL BIOLOGY TO UNDERSTAND PROTEIN-DNA RECOGNITION MECHANISM.

Published in:

Journal of Bioinformatics & Computational Biology, 2005, v. 3, n. 1, p. 169, doi. 10.1142/S0219720005000965

By:

Sarai, Akinori;
Siebers, Jorg;
Selvaraj, Samuel;
Gromiha, M. Michael;
Kono, Hidetoshi

Publication type:

Article

Letter to the Editor:1H,15N and13C resonance assignments of the BRCT region of the large subunit of human Replication Factor C.

Published in:

Journal of Biomolecular NMR, 2005, v. 31, n. 2, p. 183, doi. 10.1007/s10858-004-7913-5

By:

Kobayashi, Masakazu;
Siegal, Gregg

Publication type:

Article

FeS-Induced Radical Formation and Its Effect on Plasmid DNA.

Published in:

Aquatic Geochemistry, 2011, v. 17, n. 4/5, p. 545, doi. 10.1007/s10498-010-9116-x

By:

Rickard, D.;
Hatton, B.;
Murphy, D. M.;
Butler, I. B.;
Oldroyd, A.;
Hann, A.

Publication type:

Article

Systematic evaluation of chromatin immunoprecipitation sequencing to study histone occupancy in dormancy transitions of grapevine buds.

Published in:

Tree Physiology, 2023, v. 43, n. 4, p. 675, doi. 10.1093/treephys/tpac146

By:

Hermawaty, Dina;
Cahn, Jonathan;
Lister, Ryan;
Considine, Michael J

Publication type:

Article

Identification of new protein-protein and protein-DNA interactions linked with wood formation in Populus trichocarpa.

Published in:

Tree Physiology, 2018, v. 38, n. 3, p. 362, doi. 10.1093/treephys/tpx121

By:

Petzold, H Earl;
Rigoulot, Stephen B;
Zhao, Chengsong;
Chanda, Bidisha;
Sheng, Xiaoyan;
Zhao, Mingzhe;
Jia, Xiaoyan;
Dickerman, Allan W;
Beers, Eric P;
Brunner, Amy M

Publication type:

Article

Inhibitory effect of short cationic homopeptides against Gram-negative bacteria.

Published in:

Amino Acids, 2016, v. 48, n. 6, p. 1445, doi. 10.1007/s00726-016-2198-z

By:

Carvajal-Rondanelli, Patricio;
Aróstica, Mónica;
Marshall, Sergio;
Albericio, Fernando;
Álvarez, Claudio;
Ojeda, Claudia;
Aguilar, Luis;
Guzmán, Fanny

Publication type:

Article

FRET-based analysis of protein-nucleic acid interactions by genetically incorporating a fluorescent amino acid.

Published in:

Amino Acids, 2015, v. 47, n. 4, p. 729, doi. 10.1007/s00726-014-1900-2

By:

Park, Hyojin;
Kang, Heejin;
Ko, Wooseok;
Lee, Wonkoo;
Jo, Kyubong;
Lee, Hyun

Publication type:

Article

Analysis of DNA interactions using single-molecule force spectroscopy.

Published in:

Amino Acids, 2013, v. 44, n. 6, p. 1457, doi. 10.1007/s00726-013-1474-4

By:

Ritzefeld, Markus;
Walhorn, Volker;
Anselmetti, Dario;
Sewald, Norbert

Publication type:

Article

Advances in the study of protein-DNA interaction.

Published in:

Amino Acids, 2012, v. 43, n. 3, p. 1141, doi. 10.1007/s00726-012-1377-9

By:

Cai, Yu-Hang;
Huang, He

Publication type:

Article

A sense-abl response?

Published in:

Nature, 1997, v. 387, n. 6632, p. 450, doi. 10.1038/387450a0

By:

Brown, Lamorna;
McCarthy, Nicola

Publication type:

Article

Activation of prokaryotic transcription through arbitrary protein-protein contacts.

Published in:

Nature, 1997, v. 386, n. 6625, p. 627, doi. 10.1038/386627a0

By:

Dove, Simon L.;
Joung, J. Keith

Publication type:

Article

Structure of the single-stranded-DNA-binding domain of replication protein A bound to DNA.

Published in:

Nature, 1997, v. 385, n. 6612, p. 176, doi. 10.1038/385176a0

By:

Bochkarev, Alexey;
Pfuetzner, Richard A.

Publication type:

Article

Requirement for Ku80 in growth and immunoglobulin V(D)J recombination.

Published in:

Nature, 1996, v. 382, n. 6591, p. 551, doi. 10.1038/382551a0

By:

Nussenzweig, Andre;
Changhu Chen

Publication type:

Article

Structure of serum response factor core bound to DNA.

Published in:

Nature, 1995, v. 376, n. 6540, p. 490, doi. 10.1038/376490a0

By:

Pellegrini, Luca;
Tan, Song

Publication type:

Article

Inside the MADS box.

Published in:

Nature, 1995, v. 376, n. 6540, p. 468, doi. 10.1038/376468a0

By:

Treisman, Richard

Publication type:

Article

Increased and altered DNA binding of human p53 by S and G2/M but not G1 cyclin-dependent kinases.

Published in:

Nature, 1995, v. 376, n. 6535, p. 88, doi. 10.1038/376088a0

By:

Wang, Yan;
Prives, Carol

Publication type:

Article

Applying a genetic cantilever.

Published in:

Nature, 1995, v. 375, n. 6532, p. 532, doi. 10.1038/375532a0

By:

Bianchi, Marco E.;
Lilley, David M.J.

Publication type:

Article

Structure of the multisubunit complex that promotes DNA branch migration.

Published in:

Nature, 1995, v. 374, n. 6520, p. 375, doi. 10.1038/374375a0

By:

Parsons, Carol A.;
Stasiak, Adrzej

Publication type:

Article

DNA-bend modulation in a repressor-to-activator switching mechanism.

Published in:

Nature, 1995, v. 374, n. 6520, p. 371, doi. 10.1038/374370a0

By:

Ansari, Aseem Z.;
Bradner, James E.

Publication type:

Article

A butterfly flutters by.

Published in:

Nature, 1995, v. 373, n. 6512, p. 287, doi. 10.1038/373287a0

By:

Baltimore, David;
Beg, Amer A.

Publication type:

Article

Interaction between two homeodomain proteins is specified by a short C-terminal tail.

Published in:

Nature, 1994, v. 371, n. 6496, p. 429, doi. 10.1038/371429a0

By:

Stark, Martha R.;
Johnson, Alexander D.

Publication type:

Article

Facilitated binding of TATA-binding protein to nucleosomal DNA.

Published in:

Nature, 1994, v. 370, n. 6489, p. 481, doi. 10.1038/370481a0

By:

Imbalzano, Anthony N.;
Kwon, Hyockman

Publication type:

Article

Solving the specificity puzzle.

Published in:

Nature, 1994, v. 370, n. 6488, p. 330, doi. 10.1038/370330a0

By:

Williams, Graham R.

Publication type:

Article

Promoter targeting by adenovirus E1a through interaction with different cellular DNA-binding...

Published in:

Nature, 1994, v. 368, n. 6471, p. 520, doi. 10.1038/368520a0

By:

Liu, Fang;
Green, Michael R.

Publication type:

Article

The T-cell transcription factor NFATp is a substrate for calcineurin and interacts with...

Published in:

Nature, 1993, v. 365, n. 6444, p. 352, doi. 10.1038/365352a0

By:

Jain, Jugnu;
McCaffrey, Patricia G.

Publication type:

Article

Carbon Nanodots as a Red Emissive Fluorescent Probe for the Super‐Resolution Microscopy of DNA Dynamics during Paclitaxel Treatment.

Published in:

Small Structures, 2025, v. 6, n. 3, p. 1, doi. 10.1002/sstr.202400571

By:

Garg, Richa;
Kaushik, Kush;
Salam, Abdul;
Kundu, Runmi;
Chandra, Shilpa;
Kanti Nandi, Chayan

Publication type:

Article

A Survey of Current Resources to Study lncRNA-Protein Interactions.

Published in:

Non-Coding RNA, 2021, v. 7, n. 2, p. 1, doi. 10.3390/ncrna7020033

By:

Philip, Melcy;
Chen, Tyrone;
Tyagi, Sonika

Publication type:

Article

INTERACTION OF METHOTREXATE WITH DNA USING GOLD NANOPARTICLES AS A PROBE.

Published in:

Instrumentation Science & Technology, 2014, v. 42, n. 3, p. 308, doi. 10.1080/10739149.2013.869757

By:

Rawtani, Deepak;
Agrawal, Y.K.

Publication type:

Article

球孢白僵菌转录因子 BbMSN2 与其结合基序变体的结合特性分析.

Published in:

Mycosystema, 2022, v. 41, n. 11, p. 1858, doi. 10.13346/j.mycosystema.220077

By:

宋驰;
郭凌媛;
钱斌;
Nemat O. Keyhani;
冀宏

Publication type:

Article

Effects of feeding diets naturally contaminated with Fusarium mycotoxins on protein metabolism in late gestation and lactation of first-parity sows.

Published in:

Journal of Animal Science, 2010, v. 88, n. 3, p. 998, doi. 10.2527/jas.2008-1633

By:

Díaz-Llano, G.;
Smith, T. K.;
Boermans, H. J.;
Caballero-Cortes, C.;
Friendship, R.

Publication type:

Article

Analysis of Protein-DNA Interactions.

Published in:: Journal of Animal Science, 1996, v. 74, p. 48, doi. 10.2527/1996.74suppl_248x
Publication type:: Article

Proteopedia: 3D visualization and annotation of transcription factor-DNA readout modes.

Published in:

Biochemistry & Molecular Biology Education, 2012, v. 40, n. 6, p. 400, doi. 10.1002/bmb.20650

By:

Machado, Ana Carolina Dantas;
Saleebyan, Skyler B.;
Holmes, Bailey T.;
Karelina, Maria;
Tam, Julia;
Kim, Sharon Y.;
Kim, Keziah H.;
Dror, Iris;
Hodis, Eran;
Martz, Eric;
Compeau, Patricia A.;
Rohs, Remo

Publication type:

Article

Docking-MM-GB/SA and ADME Screening of HIV-1 NNRTI Inhibitor: Nevirapine and its Analogues.

Published in:

In Silico Biology, 2008, v. 8, n. 3/4, p. 275, doi. 10.3233/isb-00360

By:

Sengupta, Dipankar;
Verma, Deeptak;
Naik, Pradeep Kumar

Publication type:

Article

eXpanda: An Integrated Platform for Network Analysis and Visualization.

Published in:

In Silico Biology, 2007, v. 7, n. 2, p. 141, doi. 10.3233/isb-00283

By:

Negishi, Yoshiteru;
Nakamura, Hiroyuki;
Yachie, Nozomu;
Saito, Rintaro;
Tomita, Masaru

Publication type:

Article