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01/2013
Chromatin immunoprecipitation followed by sequencing (ChIP-seq) is increasingly being used for genome-wide profiling of transcriptional regulation, as this... 
Peak calling | Gene regulation | Bayesian | ChIP-seq
Web Resource
NATURE METHODS, ISSN 1548-7091, 11/2016, Volume 13, Issue 11, pp. 919 - 919
Genome conformation is central to gene control but challenging to interrogate. Here we present HiChIP, a protein-centric chromatin conformation method. HiChIP... 
CHIP-SEQ | ORGANIZATION | CHROMOSOME | CHROMATIN INTERACTOME | HIGH-RESOLUTION | TRANSCRIPTION | BIOCHEMICAL RESEARCH METHODS | PIPELINE | MAP | REGULATORY LANDSCAPE | PRINCIPLES
Journal Article
Journal of Cell Science, ISSN 0021-9533, 2015, Volume 128, Issue 13, pp. 2303 - 2318
Journal Article
NATURE, ISSN 0028-0836, 04/2016, Volume 532, Issue 7599, pp. 329 - 329
It has been widely accepted that 5-methylcytosine is the only form of DNA methylation in mammalian genomes. Here we identify N-6-methyladenine as another form... 
CHIP-SEQ DATA | LINE-1 | REPEAT HYPOTHESIS | SINGLE-MOLECULE | RNA-SEQ | MULTIDISCIPLINARY SCIENCES | MOUSE | HISTONE VARIANTS | X-CHROMOSOME INACTIVATION | ADENINE | DIFFERENTIATION
Journal Article
Briefings in bioinformatics, ISSN 1467-5463, 01/2018, Volume 19, Issue 1, p. 162
Integrated analysis of multiple genome-wide transcription factor (TF)-binding profiles will be vital to advance our understanding of the global impact of TF... 
ChIP-seq | transcriptional regulation | haematopoiesis | network
Journal Article
Oncotarget, 11/2017, Volume 8, Issue 55, pp. 94330 - 94344
Journal Article
by Liu, Da
03/2014
Somatic cells can be reprogrammed to induced pluripotent stem cells (iPSCs) by the ectopic expression of defined factors. iPSCs hold great promise for... 
Smad1,5,8 | BMP | RNA-Seq | iPSC | Mesenchymal-to-Epithelial Transition | ChIP-Seq | 0307 | Klf4 | MET
Dissertation
Science, ISSN 0036-8075, 08/2014, Volume 345, Issue 6199, pp. 943 - 949
Chromatin modifications are crucial for development, yet little is known about their dynamics during differentiation. Hematopoiesis provides a well-defined... 
CHIP-SEQ | CELLS | COMMITMENT | LANDSCAPE | MULTIDISCIPLINARY SCIENCES | TRANSCRIPTION | MACROPHAGE | ENHANCERS | HEMATOPOIETIC PROGENITORS | GENOME | Chromatin | Physiological aspects | Genetic research | Genetic aspects | Hemodynamics | Research | Blood | Deoxyribonucleic acid--DNA | Formations | Accessibility | Dynamics | Deoxyribonucleic acid
Journal Article
Cancer Research, ISSN 0008-5472, 05/2018, Volume 78, Issue 13, pp. canres.3498.2017 - 3509
Internalization of ligand-activated type 1 IGF receptor (IGF-1R) is followed by recycling to the plasma membrane, degradation or nuclear translocation. Nuclear... 
ChIP-seq | RNAPol2 | prostate cancer | JUN | Nuclear IGF-1R
Journal Article
Nucleic Acids Research, ISSN 0305-1048, 01/2013, Volume 41, Issue 1, pp. D56 - D63
The Encyclopedia of DNA Elements (ENCODE), http://encodeproject.org, has completed its fifth year of scientific collaboration to create a comprehensive catalog... 
ENCYCLOPEDIA | PROJECT | CHROMATIN-STRUCTURE | BIOCHEMISTRY & MOLECULAR BIOLOGY | CHIP-SEQ EXPERIMENTS | TRANSCRIPTION | DNA ELEMENTS | DISCOVERY | Animals | Genomics | Humans | Databases, Genetic | Mice | Software | Internet | Genome, Human | Index Medicus
Journal Article
04/2013
Animal models provide myriad benefits to both experimental and clinical research. Unfortunately, in many situations, they fall short of expected results or... 
Comparative systems biology | Animal models | Next-generation sequencing | RNA-seq | ChIP-seq
Web Resource
BioEssays, ISSN 0265-9247, 07/2015, Volume 37, Issue 7, pp. 748 - 754
The interaction between transcription factors (TFs) and their cognate sites can be highly dynamic. New evidence supports the “hit‐and‐run” regulatory mechanism... 
transcription | Arabidopsis | bZIP1 | nitrogen | transcriptome | ChIP‐seq
Journal Article
DNA research : an international journal for rapid publication of reports on genes and genomes, ISSN 1340-2838, 04/2019, Volume 26, Issue 3, pp. 231 - 242
Detecting binding motifs of combinatorial transcription factors (TFs) from chromatin immunoprecipitation sequencing (ChIP-seq) experiments is an important and... 
ChIP-seq | Full Papers | parallel algorithm | combinatorial motifs
Journal Article
Journal Article
NATURE IMMUNOLOGY, ISSN 1529-2908, 10/2013, Volume 14, Issue 10, pp. 1093 - 1093
Two distinct subsets of gamma delta T cells that produce interleukin 17 (IL-17) (CD27(-) gamma delta T cells) or interferon-gamma (IFN-gamma) (CD27(+) gamma... 
CHIP-SEQ DATA | ACTIVATION | INTERFERON-GAMMA | INTERLEUKIN-17 | IFN-GAMMA | MICE | IMMUNOLOGY | FATE | IDENTIFICATION | LINEAGE | PIVOTAL ROLE
Journal Article
Oncogene, ISSN 0950-9232, 11/2016, Volume 35, Issue 44, pp. 5781 - 5794
The Cancer Genome Atlas (TCGA) network study of 12 cancer types (PanCancer 12) revealed frequent mutation of TP53, and amplification and expression of related... 
cRel | ΔNp63α | ChIP-seq | TAp73 | TNF-alpha
Journal Article
Biology Open, ISSN 2046-6390, 2019, Volume 8, Issue 5, p. bio042754
Six2 cap mesenchyme cells, also called nephron progenitor cells (NPC), are precursors of all epithelial cell types of the nephron, the filtering unit of the... 
ChIP-seq | Epigenetics | ATAC-seq | Kidney | Nephrogenesis
Journal Article
Nucleic acids research, ISSN 0305-1048, 05/2019, Volume 47, Issue W1, pp. W212 - W224
Identifying the transcription factors (TFs) responsible for observed changes in gene expression is an important step in understanding gene regulatory networks.... 
CHIP-SEQ | DOMAIN | GENE | BIOCHEMISTRY & MOLECULAR BIOLOGY | INFERENCE | PROMOTER | EXPRESSION | Web Server Issue
Journal Article
Cell, ISSN 0092-8674, 09/2014, Volume 158, Issue 6, pp. 1431 - 1443
Journal Article