Works matching DE "IMMUNOPRECIPITATION"

Results: 2394

Rif1 binds to G quadruplexes and suppresses replication over long distances.

Published in:

Nature Structural & Molecular Biology, 2015, v. 22, n. 11, p. 889, doi. 10.1038/nsmb.3102

By:

Kanoh, Yutaka;
Matsumoto, Seiji;
Fukatsu, Rino;
Kakusho, Naoko;
Kono, Nobuaki;
Renard-Guillet, Claire;
Masuda, Koji;
Iida, Keisuke;
Nagasawa, Kazuo;
Shirahige, Katsuhiko;
Masai, Hisao

Publication type:

Article

An ancient protein-DNA interaction underlying metazoan sex determination.

Published in:

Nature Structural & Molecular Biology, 2015, v. 22, n. 6, p. 442, doi. 10.1038/nsmb.3032

By:

Murphy, Mark W;
Lee, John K;
Rojo, Sandra;
Gearhart, Micah D;
Kurahashi, Kayo;
Banerjee, Surajit;
Loeuille, Guy-André;
Bashamboo, Anu;
McElreavey, Kenneth;
Zarkower, David;
Aihara, Hideki;
Bardwell, Vivian J

Publication type:

Article

Rbfox3 controls the biogenesis of a subset of microRNAs.

Published in:

Nature Structural & Molecular Biology, 2014, v. 21, n. 10, p. 901, doi. 10.1038/nsmb.2892

By:

Kim, Kee K;
Yang, Yanqin;
Zhu, Jun;
Adelstein, Robert S;
Kawamoto, Sachiyo

Publication type:

Article

SET-ting the stage for DNA repair.

Published in:

Nature Structural & Molecular Biology, 2014, v. 21, n. 8, p. 655, doi. 10.1038/nsmb.2866

By:

Jha, Deepak K;
Pfister, Sophia X;
Humphrey, Timothy C;
Strahl, Brian D

Publication type:

Article

Transcriptionally active chromatin recruits homologous recombination at DNA double-strand breaks.

Published in:

Nature Structural & Molecular Biology, 2014, v. 21, n. 4, p. 366, doi. 10.1038/nsmb.2796

By:

Aymard, François;
Bugler, Beatrix;
Schmidt, Christine K;
Guillou, Emmanuelle;
Caron, Pierre;
Briois, Sébastien;
Iacovoni, Jason S;
Daburon, Virginie;
Miller, Kyle M;
Jackson, Stephen P;
Legube, Gaëlle

Publication type:

Article

Staufen1 senses overall transcript secondary structure to regulate translation.

Published in:

Nature Structural & Molecular Biology, 2014, v. 21, n. 1, p. 26, doi. 10.1038/nsmb.2739

By:

Ricci, Emiliano P;
Kucukural, Alper;
Cenik, Can;
Mercier, Blandine C;
Singh, Guramrit;
Heyer, Erin E;
Ashar-Patel, Ami;
Peng, Lingtao;
Moore, Melissa J

Publication type:

Article

Translation-dependent displacement of UPF1 from coding sequences causes its enrichment in 3′ UTRs.

Published in:

Nature Structural & Molecular Biology, 2013, v. 20, n. 8, p. 936, doi. 10.1038/nsmb.2635

By:

Zünd, David;
Gruber, Andreas R;
Zavolan, Mihaela;
Mühlemann, Oliver

Publication type:

Article

Chromatin signatures and retrotransposon profiling in mouse embryos reveal regulation of LINE-1 by RNA.

Published in:

Nature Structural & Molecular Biology, 2013, v. 20, n. 3, p. 332, doi. 10.1038/nsmb.2495

By:

Fadloun, Anas;
Le Gras, Stéphanie;
Jost, Bernard;
Ziegler-Birling, Céline;
Takahashi, Hazuki;
Gorab, Eduardo;
Carninci, Piero;
Torres-Padilla, Maria-Elena

Publication type:

Article

Global analysis of yeast mRNPs.

Published in:

Nature Structural & Molecular Biology, 2013, v. 20, n. 1, p. 127, doi. 10.1038/nsmb.2468

By:

Mitchell, Sarah F;
Jain, Saumya;
She, Meipei;
Parker, Roy

Publication type:

Article

Structure of the variant histone H3.3-H4 heterodimer in complex with its chaperone DAXX.

Published in:

Nature Structural & Molecular Biology, 2012, v. 19, n. 12, p. 1287, doi. 10.1038/nsmb.2439

By:

Liu, Chao-Pei;
Xiong, Chaoyang;
Wang, Mingzhu;
Yu, Zhouliang;
Yang, Na;
Chen, Ping;
Zhang, Zhiguo;
Li, Guohong;
Xu, Rui-Ming

Publication type:

Article

Intimate liaison with SR proteins brings exon junction complexes to unexpected places.

Published in:

Nature Structural & Molecular Biology, 2012, v. 19, n. 12, p. 1209, doi. 10.1038/nsmb.2454

By:

Mühlemann, Oliver

Publication type:

Article

Genome-wide nucleosome positioning during embryonic stem cell development.

Published in:

Nature Structural & Molecular Biology, 2012, v. 19, n. 11, p. 1185, doi. 10.1038/nsmb.2419

By:

Teif, Vladimir B;
Vainshtein, Yevhen;
Caudron-Herger, Maïwen;
Mallm, Jan-Philipp;
Marth, Caroline;
Höfer, Thomas;
Rippe, Karsten

Publication type:

Article

CLIP-seq of eIF4AIII reveals transcriptome-wide mapping of the human exon junction complex.

Published in:

Nature Structural & Molecular Biology, 2012, v. 19, n. 11, p. 1124, doi. 10.1038/nsmb.2420

By:

Saulière, Jérôme;
Murigneux, Valentine;
Wang, Zhen;
Marquenet, Emélie;
Barbosa, Isabelle;
Le Tonquèze, Olivier;
Audic, Yann;
Paillard, Luc;
Crollius, Hugues Roest;
Le Hir, Hervé

Publication type:

Article

Mili and Miwi target RNA repertoire reveals piRNA biogenesis and function of Miwi in spermiogenesis.

Published in:

Nature Structural & Molecular Biology, 2012, v. 19, n. 8, p. 773, doi. 10.1038/nsmb.2347

By:

Vourekas, Anastassios;
Zheng, Qi;
Alexiou, Panagiotis;
Maragkakis, Manolis;
Kirino, Yohei;
Gregory, Brian D;
Mourelatos, Zissimos

Publication type:

Article

PPR protein PDM1/SEL1 is involved in RNA editing and splicing of plastid genes in Arabidopsis thaliana.

Published in:

Photosynthesis Research, 2015, v. 126, n. 2/3, p. 311, doi. 10.1007/s11120-015-0171-4

By:

Zhang, Hong-Dao;
Cui, Yong-Lan;
Huang, Chao;
Yin, Qian-Qian;
Qin, Xue-Mei;
Xu, Te;
He, Xiao-Fang;
Zhang, Yi;
Li, Zi-Ran;
Yang, Zhong-Nan

Publication type:

Article

ChIP provides 10-fold microbial DNA enrichment from tissue while minimizing bias.

Published in:

Molecular Biology Reports, 2025, v. 52, n. 1, p. 1, doi. 10.1007/s11033-025-10330-8

By:

Bhute, Shrikant;
Sanders, Jon G.;
Song, Se Jin;
Lavoie, Sydney;
Swafford, Austin;
Guccione, Caitlin;
Patel, Lucas;
Gonzalez, Antonio;
Rooks, Michelle G.;
Knight, Rob;
Bartko, Andrew

Publication type:

Article

Capsaicin combined with stem cells improved mitochondrial dysfunction in PIG3V cells, an immortalized human vitiligo melanocyte cell line, by inhibiting the HSP70/TLR4/mTOR/FAK signaling axis.

Published in:

Molecular Biology Reports, 2024, v. 51, n. 1, p. 1, doi. 10.1007/s11033-024-09592-5

By:

Wu, Yifei;
Wang, Xiaochuan;
Zhang, Jiayu;
Du, Sha;
Wang, Zhiqiong;
Li, Jinrong;
Zhang, Wenhe;
Xiang, Jie;
Li, Renfu;
Liu, Jing;
Bi, Xin

Publication type:

Article

The ras-related protein RAB22A interacts with hypoxia-inducible factor 1-alpha (HIF-1α) in MDA-MB-231 breast cancer cells in hypoxia.

Published in:

Molecular Biology Reports, 2024, v. 51, n. 1, p. 1, doi. 10.1007/s11033-024-09516-3

By:

Papanikolaou, Nikolaos A.;
Kakavoulia, Maria;
Ladias, Christos;
Papavassiliou, Athanasios G.

Publication type:

Article

ChIP bias as a function of cross-linking time.

Published in:

Chromosome Research, 2016, v. 24, n. 2, p. 175, doi. 10.1007/s10577-015-9509-1

By:

Baranello, Laura;
Kouzine, Fedor;
Sanford, Suzanne;
Levens, David

Publication type:

Article

RZZ and Mad1 dynamics in Drosophila mitosis.

Published in:

Chromosome Research, 2015, v. 23, n. 2, p. 333, doi. 10.1007/s10577-015-9472-x

By:

Défachelles, Lénaïg;
Raich, Natacha;
Terracol, Régine;
Baudin, Xavier;
Williams, Byron;
Goldberg, Michael;
Karess, Roger

Publication type:

Article

Study of methylation of histone H3 lysine 9 and H3 lysine 27 during X chromosome inactivation in three types of cells.

Published in:

Chromosome Research, 2012, v. 20, n. 6, p. 769, doi. 10.1007/s10577-012-9311-2

By:

Li, Yan;
Tan, Tan;
Zong, Le;
He, Dacheng;
Tao, Wei;
Liang, Qianjin

Publication type:

Article

Beryllium is an inhibitor of cellular GSK-3β that is 1,000-fold more potent than lithium.

Published in:

BioMetals, 2014, v. 27, n. 6, p. 1203, doi. 10.1007/s10534-014-9783-y

By:

Mudireddy, Swapna;
Abdul, Ataur;
Gorjala, Priyatham;
Gary, Ronald

Publication type:

Article

Delta-lactoferrin induces cell death via the mitochondrial death signaling pathway by upregulating bax expression.

Published in:

BioMetals, 2014, v. 27, n. 5, p. 875, doi. 10.1007/s10534-014-9744-5

By:

Hardivillé, Stéphan;
Escobar-Ramirez, Adelma;
Pina-Canceco, Soccoro;
Elass, Elisabeth;
Pierce, Annick

Publication type:

Article

Massively parallel sequencing of forensically relevant single nucleotide polymorphisms using TruSeq™ forensic amplicon.

Published in:

International Journal of Legal Medicine, 2015, v. 129, n. 1, p. 31, doi. 10.1007/s00414-014-1108-8

By:

Warshauer, David;
Davis, Carey;
Holt, Cydne;
Han, Yonmee;
Walichiewicz, Paulina;
Richardson, Tom;
Stephens, Kathryn;
Jager, Anne;
King, Jonathan;
Budowle, Bruce

Publication type:

Article

SIRT1 mediates the protective function of Nkx2.5 during stress in cardiomyocytes.

Published in:

Basic Research in Cardiology, 2013, v. 108, n. 4, p. 1, doi. 10.1007/s00395-013-0364-y

By:

Zheng, Wei;
Lu, Yun-Biao;
Liang, Shu-Ting;
Zhang, Qing-Jun;
Xu, Jing;
She, Zhi-Gang;
Zhang, Zhu-Qin;
Yang, Rui-Feng;
Mao, Bei-Bei;
Xu, Zhen;
Li, Li;
Hao, De-Long;
Lu, Jie;
Wei, Yu-Sheng;
Chen, Hou-Zao;
Liu, De-Pei

Publication type:

Article

Analysis of the Plasmodium falciparum proteasome using Blue Native PAGE and label-free quantitative mass spectrometry.

Published in:

Amino Acids, 2012, v. 43, n. 3, p. 1119, doi. 10.1007/s00726-012-1296-9

By:

Sessler, Nicole;
Krug, Karsten;
Nordheim, Alfred;
Mordmüller, Benjamin;
Macek, Boris

Publication type:

Article

Identification of antigen receptor-associated structures on murine T cells.

Published in:

Nature, 1985, p. 107

By:

Allison, James P.;
Lanier, Lewis L.

Publication type:

Article

The uncharacterized protein ZNF200 interacts with PRMT3 and aids its stability and nuclear translocation.

Published in:

Biochemical Journal, 2024, v. 481, n. 23, p. 1723, doi. 10.1042/BCJ20240476

By:

Gupta, Somlee;
Verma, Mamta;
Kadumuri, Rajashekar Varma;
Chutani, Namita;
Khan, Mohd. Imran K.;
Chavali, Sreenivas;
Dhayalan, Arunkumar

Publication type:

Article

The RNA-binding protein HuR regulates intestinal epithelial restitution by modulating Caveolin-1 gene expression.

Published in:

Biochemical Journal, 2021, v. 478, n. 1, p. 247, doi. 10.1042/BCJ20200372

By:

Shan Cao;
Lan Xiao;
Junyao Wang;
Guodong Chen;
Yulan Liu

Publication type:

Article

SOX2 knockdown slows cholangiocarcinoma progression through inhibition of transcriptional activation of lncRNA PVT1.

Published in:

Biochemical Journal, 2020, v. 477, n. 18, p. 3527, doi. 10.1042/BCJ20200219

By:

Aijun Yu;
Luwen Zhao;
Qingmin Kang;
Jian Li;
Kai Chen;
Hua Fu

Publication type:

Article

GenoGAM: genome-wide generalized additive models for ChIP-Seq analysis.

Published in:

Bioinformatics, 2017, v. 33, n. 15, p. 2258, doi. 10.1093/bioinformatics/btx150

By:

Stricker, Georg;
Engelhardt, Alexander;
Schulz, Daniel;
Schmid, Matthias;
Tresch, Achim;
Gagneur, Julien

Publication type:

Article

Genome-wide analysis of DNA methylation profiles in a senescence-accelerated mouse prone 8 brain using whole-genome bisulfite sequencing.

Published in:

Bioinformatics, 2017, v. 33, n. 11, p. 1591, doi. 10.1093/bioinformatics/btx040

By:

Shuai Zhang;
Chunxia Qin;
Guoqiong Cao;
Limin Guo;
Chengqiang Feng;
Wensheng Zhang

Publication type:

Article

Chainy: an universal tool for standardized relative quantification in real-time PCR.

Published in:

Bioinformatics, 2017, v. 33, n. 9, p. 1411, doi. 10.1093/bioinformatics/btx113

By:

Mallona, Izaskun;
Díez-Villanueva, Anna;
Martín, Berta;
Peinado, Miguel A.

Publication type:

Article

fCCAC: functional canonical correlation analysis to evaluate covariance between nucleic acid sequencing datasets.

Published in:

Bioinformatics, 2017, v. 33, n. 5, p. 746, doi. 10.1093/bioinformatics/btw724

By:

Madrigal, Pedro

Publication type:

Article

CLIP Tool Kit (CTK): a flexible and robust pipeline to analyze CLIP sequencing data.

Published in:

Bioinformatics, 2017, v. 33, n. 4, p. 566, doi. 10.1093/bioinformatics/btw653

By:

Shah, Ankeeta;
Yingzhi Qian;
Weyn-Vanhentenryck, Sebastien M.;
Chaolin Zhang

Publication type:

Article

Heat*seq: an interactive web tool for high-throughput sequencing experiment comparison with public data.

Published in:

Bioinformatics, 2016, v. 32, n. 21, p. 3354, doi. 10.1093/bioinformatics/btw407

By:

Devailly, Guillaume;
Mantsoki, Anna;
Joshi, Anagha

Publication type:

Article

BMix: probabilistic modeling of occurring substitutions in PAR-CLIP data.

Published in:

Bioinformatics, 2016, v. 32, n. 7, p. 976, doi. 10.1093/bioinformatics/btv520

By:

Golumbeanu, Monica;
Mohammadi, Pejman;
Beerenwinkel, Niko

Publication type:

Article

Using combined evidence from replicates to evaluate ChIP-seq peaks.

Published in:

Bioinformatics, 2015, v. 31, n. 17, p. 2761, doi. 10.1093/bioinformatics/btv293

By:

Jalili, Vahid;
Matteucci, Matteo;
Masseroli, Marco;
Morelli, Marco J.

Publication type:

Article

Identification of C2H2-ZF binding preferences from ChIP-seq data using RCADE.

Published in:

Bioinformatics, 2015, v. 31, n. 17, p. 2879, doi. 10.1093/bioinformatics/btv284

By:

Najafabadi, Hamed S.;
Albu, Mihai;
Hughes, Timothy R.

Publication type:

Article

ChIPseeker: an R/Bioconductor package for ChIP peak annotation, comparison and visualization.

Published in:

2015

By:

Guangchuang Yu;
Li-Gen Wang;
Qing-Yu He

Publication type:

Product Review

CNV-guided multi-read allocation for ChIP-seq.

Published in:

Bioinformatics, 2014, v. 30, n. 20, p. 2860, doi. 10.1093/bioinformatics/btu402

By:

Zhang, Qi;
Keleş, Sündüz

Publication type:

Article

Learning protein–DNA interaction landscapes by integrating experimental data through computational models.

Published in:

Bioinformatics, 2014, v. 30, n. 20, p. 2868, doi. 10.1093/bioinformatics/btu408

By:

Zhong, Jianling;
Wasson, Todd;
Hartemink, Alexander J.

Publication type:

Article

Broad-Enrich: functional interpretation of large sets of broad genomic regions.

Published in:

2014

By:

Cavalcante, Raymond G.;
Lee, Chee;
Welch, Ryan P.;
Patil, Snehal;
Weymouth, Terry;
Scott, Laura J.;
Sartor, Maureen A.

Publication type:

Product Review

Probabilistic partitioning methods to find significant patterns in ChIP-Seq data.

Published in:

Bioinformatics, 2014, v. 30, n. 17, p. 2406, doi. 10.1093/bioinformatics/btu318

By:

Nair, Nishanth Ulhas;
Kumar, Sunil;
Moret, Bernard M.E.;
Bucher, Philipp

Publication type:

Article

Composition of seed sequence is a major determinant of microRNA targeting patterns.

Published in:

Bioinformatics, 2014, v. 30, n. 10, p. 1377, doi. 10.1093/bioinformatics/btu045

By:

Wang, Xiaowei

Publication type:

Article

Network orientation via shortest paths.

Published in:

Bioinformatics, 2014, v. 30, n. 10, p. 1449, doi. 10.1093/bioinformatics/btu043

By:

Silverbush, Dana;
Sharan, Roded

Publication type:

Article

CMGRN: a web server for constructing multilevel gene regulatory networks using ChIP-seq and gene expression data.

Published in:

Bioinformatics, 2014, v. 30, n. 8, p. 1190, doi. 10.1093/bioinformatics/btt761

By:

Guan, Daogang;
Shao, Jiaofang;
Deng, Youping;
Wang, Panwen;
Zhao, Zhongying;
Liang, Yan;
Wang, Junwen;
Yan, Bin

Publication type:

Article

Integrative analysis of histone ChIP-seq and transcription data using Bayesian mixture models.

Published in:

Bioinformatics, 2014, v. 30, n. 8, p. 1154, doi. 10.1093/bioinformatics/btu003

By:

Klein, Hans-Ulrich;
Schäfer, Martin;
Porse, Bo T.;
Hasemann, Marie S.;
Ickstadt, Katja;
Dugas, Martin

Publication type:

Article

Identification and removal of low-complexity sites in allele-specific analysis of ChIP-seq data.

Published in:

Bioinformatics, 2014, v. 30, n. 2, p. 165, doi. 10.1093/bioinformatics/btt667

By:

Waszak, Sebastian M.;
Kilpinen, Helena;
Gschwind, Andreas R.;
Orioli, Andrea;
Raghav, Sunil K.;
Witwicki, Robert M.;
Migliavacca, Eugenia;
Yurovsky, Alisa;
Lappalainen, Tuuli;
Hernandez, Nouria;
Reymond, Alexandre;
Dermitzakis, Emmanouil T.;
Deplancke, Bart

Publication type:

Article

INSECT: IN-silico SEarch for Co-occurring Transcription factors.

Published in:

Bioinformatics, 2013, v. 29, n. 22, p. 2852, doi. 10.1093/bioinformatics/btt506

By:

Rohr, Cristian O.;
Parra, R. Gonzalo;
Yankilevich, Patricio;
Perez-Castro, Carolina

Publication type:

Article