Results 101 to 110 of about 5,931 (188)

TET3 regulates hematopoietic stem cell homeostasis during embryonic and adult hematopoiesis

HemaSphere, Volume 9, Issue 5, May 2025.
ABSTRACT The ten‐eleven translocation family of enzymes (TET1/2/3) promotes DNA demethylation and is essential for hematopoiesis. While the roles of TET1 and TET2 are well‐studied in hematopoiesis, the requirement of TET3 in embryonic and adult hematopoiesis is less investigated.
Harmony C. Ketchum, Claudia Morganti, Chie Yanase, Blake Ebert, Keisuke Ito, Meelad M. Dawlaty   +5 more
wiley   +1 more source

A survey of models for inference of gene regulatory networks

Nonlinear Analysis, 2013
In this article, I present the biological backgrounds of microarray, ChIP-chip and ChIPSeq technologies and the application of computational methods in reverse engineering of gene regulatory networks (GRNs).
Blagoj Ristevski
doaj  

Contribution of epigenetic landscapes and transcription factors to X-chromosome reactivation in the inner cell mass. [PDF]

, 2017
X-chromosome inactivation is established during early development. In mice, transcriptional repression of the paternal X-chromosome (Xp) and enrichment in epigenetic marks such as H3K27me3 is achieved by the early blastocyst stage.
Anastassiadis, Konstantinos, Ancelin, Katia, Barillot, Emmanuel, Borensztein, Maud, Chen, Chong-Jian, Diabangouaya, Patricia, Galupa, Rafael, Guilbaud, Guillaume, Heard, Edith, Okamoto, Ikuhiro, Picard, Christel, Saitou, Mitinori, Servant, Nicolas, Surani, Azim, Syx, Laurène   +14 more
core   +3 more sources

The polyamine transporter ATP13A3 mediates difluoromethylornithine‐induced polyamine uptake in neuroblastoma

Molecular Oncology, Volume 19, Issue 3, Page 913-936, March 2025.
Polyamine homeostasis relies on a balance between extracellular uptake and intracellular biosynthesis. Cancer cells exhibit elevated polyamine levels, leading to strategies that inhibit biosynthesis using difluoromethylornithine. However, this inhibition often triggers increased polyamine uptake via unknown pathways.
Mujahid Azfar, Weiman Gao, Chris Van den Haute, Lin Xiao, Mawar Karsa, Ruby Pandher, Ayu Karsa, Dayna Spurling, Emma Ronca, Angelika Bongers, Xinyi Guo, Chelsea Mayoh, Youri Fayt, Arthur Schoofs, Mark R. Burns, Steven H. L. Verhelst, Murray D. Norris, Michelle Haber, Peter Vangheluwe, Klaartje Somers   +19 more
wiley   +1 more source

Efficient yeast ChIP-Seq using multiplex short-read DNA sequencing

BMC Genomics, 2009
Background Short-read high-throughput DNA sequencing technologies provide new tools to answer biological questions. However, high cost and low throughput limit their widespread use, particularly in organisms with smaller genomes such as S.
Yellman Christopher M, Gibson Theodore, Rozowsky Joel, Auerbach Raymond K, Euskirchen Ghia M, Lefrançois Philippe, Gerstein Mark, Snyder Michael   +7 more
doaj   +1 more source

Genome-wide profiling of chromosome interactions in Plasmodium falciparum characterizes nuclear architecture and reconfigurations associated with antigenic variation. [PDF]

, 2013
Spatial relationships within the eukaryotic nucleus are essential for proper nuclear function. In Plasmodium falciparum, the repositioning of chromosomes has been implicated in the regulation of the expression of genes responsible for antigenic variation,
Berriman, Matthew, Eastman, Richard T., Feller, Avi I., Kyes, Sue A., Lemieux, Jacob E., Newbold, Chris I., Otto, Thomas D., Pinches, Robert A., Su, Xin-Zhuan   +8 more
core   +1 more source

Limitations and possibilities of low cell number ChIP-seq

BMC Genomics, 2012
Background Chromatin immunoprecipitation coupled with high-throughput DNA sequencing (ChIP-seq) offers high resolution, genome-wide analysis of DNA-protein interactions. However, current standard methods require abundant starting material in the range of
Gilfillan Gregor D, Hughes Timothy, Sheng Ying, Hjorthaug Hanne S, Straub Tobias, Gervin Kristina, Harris Jennifer R, Undlien Dag E, Lyle Robert   +8 more
doaj   +1 more source

Purification of nanogram-range immunoprecipitated DNA in ChIP-seq application

BMC Genomics, 2017
Background Chromatin immunoprecipitation-sequencing (ChIP-seq) is a widely used epigenetic approach for investigating genome-wide protein-DNA interactions in cells and tissues. The approach has been relatively well established but several key steps still
Jian Zhong, Zhenqing Ye, Samuel W. Lenz, Chad R. Clark, Adil Bharucha, Gianrico Farrugia, Keith D. Robertson, Zhiguo Zhang, Tamas Ordog, Jeong-Heon Lee   +9 more
doaj   +1 more source

Additional file 1: of High-throughput ChIPmentation: freely scalable, single day ChIPseq data generation from very low cell-numbers

, 2019
Figure S1. Schematic comparison of the ChIPmentation and high-throughput ChIPmentation protocols. Figure S2. High-throughput ChIPmentation (HT-CM) samples maintain library quality over progressively lower input cell numbers. Figure S3. High-throughput ChIPmentation (HT-CM) maintains high library complexity in CTCF samples. Table S1.
Gustafsson, Charlotte, Paepe, Ayla, Schmidl, Christian, MĂĽnsson, Robert   +3 more
openaire   +1 more source

PeakRanger: A cloud-enabled peak caller for ChIP-seq data

BMC Bioinformatics, 2011
Background Chromatin immunoprecipitation (ChIP), coupled with massively parallel short-read sequencing (seq) is used to probe chromatin dynamics. Although there are many algorithms to call peaks from ChIP-seq datasets, most are tuned either to handle ...
Grossman Robert, Feng Xin, Stein Lincoln
doaj   +1 more source