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1. Full Text Genomic footprinting
by Vierstra, Jeff and Stamatoyannopoulos, John A
Nature methods, ISSN 1548-7091, 02/2016, Volume 13, Issue 3, pp. 213 - 221
Biochemistry & Molecular Biology | Life Sciences & Biomedicine | Biochemical Research Methods | Science & Technology | DNA - genetics | Algorithms | Chromosome Mapping - methods | Humans | High-Throughput Nucleotide Sequencing - methods | DNA Footprinting - methods | Genome, Human - genetics | Analysis | Genomics | Protein binding | Proteins | Genomes | Deoxyribonucleic acid--DNA | Index Medicus
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2. Full Text Functional footprinting of regulatory DNA
by Vierstra, Jeff and Reik, Andreas and Chang, Kai-Hsin and Stehling-Sun, Sandra and Zhou, Yuanyue and Hinkley, Sarah J and Paschon, David E and Zhang, Lei and Psatha, Nikoletta and Bendana, Yuri R and O'Neil, Colleen M and Song, Alexander H and Mich, Andrea K and Liu, Pei-Qi and Lee, Gary and Bauer, Daniel E and Holmes, Michael C and Orkin, Stuart H and Papayannopoulou, Thalia and Stamatoyannopoulos, George and Rebar, Edward J and Gregory, Philip D and Urnov, Fyodor D and Stamatoyannopoulos, John A
Nature methods, ISSN 1548-7091, 09/2015, Volume 12, Issue 10, pp. 927 - 930
Biochemistry & Molecular Biology | Life Sciences & Biomedicine | Biochemical Research Methods | Science & Technology | Erythropoiesis | Humans | Regulatory Sequences, Nucleic Acid | DNA Breaks, Double-Stranded | DNA Footprinting - methods | Transcription Factors - metabolism | Carrier Proteins - genetics | Enhancer Elements, Genetic | Base Sequence | DNA Repair | Erythrocytes - physiology | Mutation | Genome, Human | Genomics - methods | Nuclear Proteins - genetics | Binding Sites | Physiological aspects | Transcription factors | Genomics | DNA | Methods | Genomes | Deoxyribonucleic acid--DNA | Index Medicus
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3. Full Text Ultrasonic Footprinting
by Grokhovsky, S L
Molecular biology (New York), ISSN 0026-8933, 7/2018, Volume 52, Issue 4, pp. 609 - 620
Life Sciences | Biochemistry, general | Human Genetics | actinomycin D | footrpinting | Life Sciences, general | DNA conformation | DNA cleavage | ultrasound | Life Sciences & Biomedicine | Biochemistry & Molecular Biology | Science & Technology | Usage | Ultrasonic waves | Genetic research | Genetic aspects | Research | Dactinomycin | DNA-ligand interactions | Deoxyribonuclease | Footprinting | Ultrasonic imaging | Phosphodiester bonds | Nucleotide sequence | Genomes | Chromophores | Ultrasound | Binding sites | Sugar | Deoxyribonucleic acid--DNA | Conformation
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4. Full Text Genome-wide footprinting: Ready for prime time?
by Sung, Myong-Hee and Baek, Songjoon and Hager, Gordon L
Nature methods, ISSN 1548-7091, 02/2016, Volume 13, Issue 3, pp. 222 - 228
Biochemistry & Molecular Biology | Life Sciences & Biomedicine | Biochemical Research Methods | Science & Technology | DNA - genetics | Algorithms | Chromosome Mapping - methods | Humans | High-Throughput Nucleotide Sequencing - methods | DNA Footprinting - methods | Genome, Human - genetics | Analysis | Genomes | Molecular biology | Technology | Deoxyribonucleic acid--DNA | Index Medicus
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5. Full Text Dissecting neural differentiation regulatory networks through epigenetic footprinting
by Ziller, Michael J and Edri, Reuven and Yaffe, Yakey and Donaghey, Julie and Pop, Ramona and Mallard, William and Issner, Robbyn and Gifford, Casey A and Goren, Alon and Xing, Jeffrey and Gu, Hongcang and Cacchiarelli, Davide and Tsankov, Alexander M and Epstein, Charles and Rinn, John L and Mikkelsen, Tarjei S and Kohlbacher, Oliver and Gnirke, Andreas and Bernstein, Bradley E and Elkabetz, Yechiel and Meissner, Alexander
Nature (London), ISSN 0028-0836, 02/2015, Volume 518, Issue 7539, pp. 355 - 359
Science & Technology - Other Topics | Multidisciplinary Sciences | Science & Technology | Embryonic Stem Cells - metabolism | RNA, Small Interfering - genetics | Reproducibility of Results | Embryonic Stem Cells - cytology | Humans | RNA, Small Interfering - analysis | Neural Stem Cells - cytology | Transcription Factors - metabolism | Cell Differentiation - genetics | Epigenomics - methods | Epigenesis, Genetic - genetics | Transcription, Genetic - genetics | Binding Sites | Neural Stem Cells - metabolism | Cell Lineage - genetics | Epigenetic inheritance | Neural circuitry | Stem cells | Genetic research | Genetic aspects | Research | Cell differentiation | Neurological research | Transcription factors | Neurons | Genes | DNA methylation | Epigenetics | Genomes | Alzheimers disease | Binding sites | Index Medicus
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6. Full Text Analysis of computational footprinting methods for DNase sequencing experiments
by Gusmao, Eduardo G and Allhoff, Manuel and Zenke, Martin and Costa, Ivan G
Nature methods, ISSN 1548-7091, 03/2016, Volume 13, Issue 4, pp. 303 - 309
Biochemistry & Molecular Biology | Life Sciences & Biomedicine | Biochemical Research Methods | Science & Technology | Chromatin - metabolism | Computational Biology - methods | Humans | DNA Footprinting - methods | Transcription Factors - metabolism | Deoxyribonuclease I - metabolism | Algorithms | Chromatin Immunoprecipitation | K562 Cells | Protein Binding | Software | High-Throughput Nucleotide Sequencing - methods | Binding Sites | Chromatin - genetics | Sequence Analysis, DNA - methods | Genetic research | Nucleases | Research | Nucleotide sequencing | Methods | DNA sequencing | Studies | Analysis | Deoxyribonucleic acid--DNA | Index Medicus
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7. Full Text Global mapping of protein-DNA interactions in vivo by digital genomic footprinting
by Zhang, Zhihong and Kuehn, Michael S and Thurman, Robert E and Reynolds, Alex P and Noble, William S and Neph, Shane and Hesselberth, Jay R and Fields, Stanley and Sabo, Peter J and Sandstrom, Richard and Chen, Xiaoyu and Stamatoyannopoulos, John A
Nature methods, ISSN 1548-7091, 04/2009, Volume 6, Issue 4, pp. 283 - 289
Biochemistry & Molecular Biology | Life Sciences & Biomedicine | Biochemical Research Methods | Science & Technology | Amino Acid Sequence | Transcription Factors - chemistry | Molecular Sequence Data | Transcription Factors - genetics | DNA Footprinting - methods | DNA - genetics | Protein Interaction Mapping - methods | DNA - chemistry | Algorithms | Base Sequence | Protein Binding | Binding Sites | Sequence Analysis, DNA - methods | Chromosome mapping | Usage | DNA replication | DNA microarrays | Genomics | Research | Gene expression | Methods | Protein-protein interactions | Proteins | Research methodology | Binding sites | Deoxyribonucleic acid--DNA | Index Medicus
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8. Full Text Genome-wide Single-Molecule Footprinting Reveals High RNA Polymerase II Turnover at Paused Promoters
by Krebs, Arnaud R and Imanci, Dilek and Hoerner, Leslie and Gaidatzis, Dimos and Burger, Lukas and Schübeler, Dirk
Molecular cell, ISSN 1097-2765, 08/2017, Volume 67, Issue 3, pp. 411 - 422.e4
single molecule | TBP | transcription | transcriptional pausing | GTF | genomics | DNA footprinting | Biochemistry & Molecular Biology | Life Sciences & Biomedicine | Science & Technology | Cell Biology | Half-Life | RNA Polymerase II - metabolism | Single Molecule Imaging | Drosophila Proteins - metabolism | Drosophila melanogaster - genetics | RNA - genetics | Proteolysis | Transcription Termination, Genetic | Transcription, Genetic | Protein Stability | Transcription Initiation, Genetic | Binding Sites | Promoter Regions, Genetic | Genome-Wide Association Study | HSP70 Heat-Shock Proteins - genetics | DNA - metabolism | HSP70 Heat-Shock Proteins - metabolism | DNA - genetics | RNA - biosynthesis | Animals | Transcription Initiation Site | TATA Box | Drosophila melanogaster - enzymology | Protein Binding | RNA Polymerase II - genetics | Drosophila Proteins - genetics | Kinetics | Animal genetics | Chromatin | RNA | Analysis | Genomics | Employee turnover | Genetic transcription | Protein binding | Index Medicus
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9. Full Text Footprinting protein-DNA complexes using the hydroxyl radical
by Tullius, Thomas D and Jain, Swapan S
Nature protocols, ISSN 1754-2189, 06/2008, Volume 3, Issue 6, pp. 1092 - 1100
Biochemistry & Molecular Biology | Life Sciences & Biomedicine | Biochemical Research Methods | Science & Technology | DNA - genetics | Protein Footprinting - methods | Hydroxyl Radical | DNA - chemistry | Proteins - metabolism | Protein Binding | Binding Sites - genetics | DNA - metabolism | Proteins - chemistry | DNA Footprinting - methods | Macromolecular Substances | Physiological aspects | Identification and classification | DNA | Genetic screening | Methods | Binding sites (Biochemistry)
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