Results 71 to 80 of about 39,833,464 (257)

HiGlass: web-based visual exploration and analysis of genome interaction maps

Genome Biology, 2018
We present HiGlass, an open source visualization tool built on web technologies that provides a rich interface for rapid, multiplex, and multiscale navigation of 2D genomic maps alongside 1D genomic tracks, allowing users to combine various data types ...
Peter Kerpedjiev, Nezar Abdennur, Fritz Lekschas, Chuck McCallum, Kasper Dinkla, Hendrik Strobelt, Jacob M. Luber, Scott B. Ouellette, Alaleh Azhir, Nikhil Kumar, Jeewon Hwang, Soohyun Lee, Burak H. Alver, Hanspeter Pfister, Leonid A. Mirny, Peter J. Park, Nils Gehlenborg   +16 more
doaj   +1 more source

Single‐cell DNA methylation profiling: Technologies, computation, and applications in precision oncology

Molecular Oncology, EarlyView.
Single‐cell DNA methylation (scDNAme) profiling maps epimutational clonal evolution, revealing mechanisms of malignancy and therapeutic resistance across diverse cancer types. By providing a high‐resolution landscape of intratumoral heterogeneity, these technologies empower precise patient stratification, guide the development of enhanced ...
Ik Soo Kim
wiley   +1 more source

GILoop: Robust chromatin loop calling across multiple sequencing depths on Hi-C data

iScience, 2022
Summary: Graph and image are two common representations of Hi-C cis-contact maps. Existing computational tools have only adopted Hi-C data modeled as unitary data structures but neglected the potential advantages of synergizing the information of ...
Fuzhou Wang, Tingxiao Gao, Jiecong Lin, Zetian Zheng, Lei Huang, Muhammad Toseef, Xiangtao Li, Ka-Chun Wong   +7 more
doaj   +1 more source

3D Genome Reconstruction from Partially Phased Hi-C Data. [PDF]

Bull Math Biol
The 3-dimensional (3D) structure of the genome is of significant importance for many cellular processes. In this paper, we study the problem of reconstructing the 3D structure of chromosomes from Hi-C data of diploid organisms, which poses additional ...
Cifuentes D, Draisma J, Henriksson O, Korchmaros A, Kubjas K.   +4 more
europepmc   +3 more sources

Methods for Joint Normalization and Comparison of Hi-C data [PDF]

, 2019
The development of chromatin conformation capture technology has opened new avenues of study into the 3D structure and function of the genome. Chromatin structure is known to influence gene regulation, and differences in structure are now emerging as a ...
Stansfield, John C
core   +1 more source

Hi-C_E8.5_mouse_hearts_WT-DKO

, 2023
Hi-C with WT and U1U2-DKO E8.5 mouse hearts was performed. The NGS data are used for paper publication. The resourse is shared here for more researches.
Chen Li (14812087)
core   +1 more source

Sudden anaerobization in Amphibacillus xylanus increases intracellular labile ferrous iron and inhibits cell growth

FEBS Open Bio, EarlyView.
Abruptly changing from aerobic to anaerobic conditions (sudden anaerobization) induced growth inhibition and a significant increase in intracellular labile ferrous iron in the aerotolerant anaerobe Amphibacillus xylanus. We found that free flavins mediate efficient electron transfer from NADH to ferric iron under anaerobic conditions, suggesting that ...
Shinya Kimata, Yoichi Sakai, Keisuke Tanaka, Etsuro Yoshimura, Ken Kitano, Morio Ishikawa, Tadahiro Nakamoto, Tsutomu Takayama, Hirofumi Inoue, Kaho Nomura, Tomonori Suzuki, Masataka Uchino, Akira Abe, Youichi Niimura   +13 more
wiley   +1 more source

Aquaporin‐3 and aquaporin‐5 impact the development of pancreatic ductal adenocarcinoma spheroids

FEBS Open Bio, EarlyView.
Schematic representation of the role of aquaporin‐3 (AQP3) and aquaporin‐5 (AQP5) in pancreatic ductal adenocarcinoma (PDAC). Both proteins are upregulated in PDAC and are associated with tumor progression and metastatic potential. Silencing AQP3 or AQP5 in PDAC spheroids results in decreased diameter, area, and overall growth, underscoring their key ...
Catarina Pimpão, Diogo M. Engrácia, Graça Soveral, Filipa Mendes   +3 more
wiley   +1 more source

Hi-PACE/hipace: v22.02

, 2022
Dependencies AMReX: release 22.02 openPMD-api: release 0.14.3 What's Changed Include destructor of hipace in profiler by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/639 Pass the number of ghost cells to amrex::MultiFab::setVal, etc.
Lehe, Remi, Sinn, Alexander, Diederichs, Severin, Zhang, Weiqun, Huebl, Axel, Myers, Andrew, Thévenet, Maxence   +6 more
core   +1 more source

From patient advocacy to patient‐driven research: Building active partnerships beginning at the bench to reach the bedside

FEBS Open Bio, EarlyView.
Research is strongest when conducted alongside patients, not just about them. Patient research organizations help integrate patient perspectives into research priorities, study design, and scientific meetings, leading to meaningful patient outcomes and development of relevant therapies.
Jenica H. Kakadia, Rachel Heilmann, Maximiliano Barrientos, Laura MacNeill, Ingrid Vallee, Sarah K. Schultz, Patrick O'Donoghue, Angelica A. Moresco, Victoria M. Siu, Ilka U. Heinemann   +9 more
wiley   +1 more source