Results 31 to 40 of about 176,761 (289)

ATAC-seq library quality control.

, 2022
The quality control of ATAC-seq libraries was performed by using Fragment Analyzer (FA). The representative FA trace with nucleosomal banding pattern is shown. (PDF)
Reto Rufener (3180822), Vanessa Tabea von Kortzfleisch (8070122), Janja Novak (2657710), Hanno Würbel (356716), Marc W. Schmid (9117405), Marianna Rosso (12505903), S. Helene Richter (8070125), David P. Wolfer (12104972), Irmgard Amrein (73449), Melanie Clerc (3258420), Ivana Jaric (6578978), André Bleich (2201215), Manuela Buettner (519908), Chadi Touma (319782), Shinichi Sunagawa (125995), Bernhard Voelkl (378861)   +15 more
core   +1 more source

Chromatin structure predicts survival in glioma patients

Scientific Reports, 2022
The pathological changes in epigenetics and gene regulation that accompany the progression of low-grade to high-grade gliomas are under-studied. The authors use a large set of paired atac-seq and RNA-seq data from surgically resected glioma specimens to ...
Matthew C. Garrett, Rebecca Albano, Troy Carnwath, Sanjit Shah, Daniel Woo, Michael Lamba, David R. Plas, Aditi Paranjpe, Krishna Roskin, Chuntao Zhao, Richard Lu   +10 more
doaj   +1 more source

weri atac-seq

, 2023
weri atac-seq for inter3d ...
shaliu fu (12121059)
core   +1 more source

Combining signal and sequence to detect RNA polymerase initiation in ATAC-seq data.

PLoS ONE, 2020
The assay for transposase-accessible chromatin followed by sequencing (ATAC-seq) is an inexpensive protocol for measuring open chromatin regions. ATAC-seq is also relatively simple and requires fewer cells than many other high-throughput sequencing ...
Ignacio J Tripodi, Murad Chowdhury, Margaret Gruca, Robin D Dowell   +3 more
doaj   +1 more source

Park-Sung-Joon/ATACprofWS: ATACprofWS: ATAC-seq Profiler with Spike-in

, 2023
ATAC-seq Profiler with Spike ...
Sung-Joon Park
core   +1 more source

RNA‐seq and ATAC‐seq analysis of CD163+ macrophage‐induced progestin‐insensitive endometrial cancer cells

Cancer Medicine, 2023
Background Progestins are used as fertility‐sparing regimens for young patients with stage 1A endometrioid endometrial cancer (EEC) and atypical endometrial hyperplasia (AEH).
Lulu Wang, Qiaoying Lv, Pengfei Wu, Shuhan Luo, Sijia Liu, Xiaojun Chen, Xuezhen Luo   +6 more
doaj   +1 more source

ATAC-seq library metrics for SGBS libraries.

, 2021
ATAC-seq libraries of SGBS preadipocytes (D00), immature adipocytes (D02: not included in final analyses, and D04), and adipocytes (D14) with batch, sequencing and alignment metrics. (XLSX)
Kenneth K. Ng (1294980), Michael I. Love (5683529), Swarooparani Vadlamudi (628610), Kevin W. Currin (9368438), Karen L. Mohlke (8421678), Martin Wabitsch (132974), Markku Laakso (197777), Hannah J. Perrin (9368441), Gautam K. Pandey (11608167)   +8 more
core   +1 more source

CoRE-ATAC: A deep learning model for the functional classification of regulatory elements from single cell and bulk ATAC-seq data.

PLoS Computational Biology, 2021
Cis-Regulatory elements (cis-REs) include promoters, enhancers, and insulators that regulate gene expression programs via binding of transcription factors.
Asa Thibodeau, Shubham Khetan, Alper Eroglu, Ryan Tewhey, Michael L Stitzel, Duygu Ucar   +5 more
doaj   +1 more source

ATAC-seq in Emerging Model Organisms: Challenges and Strategies. [PDF]

J Exp Zool B Mol Dev Evol
ABSTRACT The Assay for Transposase‐Accessible Chromatin with sequencing (ATAC‐seq) is a versatile and widely utilized method for identifying potential regulatory regions, such as promoters and enhancers, within a genome. ATAC‐seq has been successfully applied to a wide range of established and emerging model organisms.
Erdoğan DE, Karimifard S, Khodadadi M, Ling L, Linke L, Catalán A, Doublet V, Glaser-Schmitt A, Niehuis O, Nowick K, Soro A, Turetzek N, Feldmeyer B, Posnien N.   +13 more
europepmc   +5 more sources

DR ATAC-seq

, 2023
ATAC-seq raw datasets for C57BL6/J dorsal raphe ...
Youngshik Choe (262044), Seong-Woon Yu (12053230), Dongho Geum (9278333), Inah Park (14321514), Gi Hoon Son (140315), Mijung Choi (14321554), Jeongah Kim (9384887), Doyeon Kim (1644457), Han Kyoung Choe (6872714), Ji-Woong Choi (3840472), Sangwon Jang (14321557), Kyungjin Kim (140317), Jihoon Kim (10090)   +12 more
core   +1 more source