Results 51 to 60 of about 130,578 (251)

Engineering the Link: From Genome Interaction Maps to Functional Insight

Advanced Biology, EarlyView.
Advances in chromosome conformation capture have revealed the genome's 3D organization, yet its causal impact on gene regulation remains elusive. This review highlights emerging genome‐engineering tools ‐ zinc fingers, TALEs, and CRISPR‐Cas9 ‐ that enable targeted manipulation of chromatin loops to dissect structure–function relationships. It discusses
Frido Petersen, Simon Westermann, Valeriia Smialkovska, Jan Mathony, Angelika Feldmann, Dominik Niopek   +5 more
wiley   +1 more source

Normalized Affymetrix expression data are biased by G-quadruplex formation [PDF]

, 2011
Probes with runs of four or more guanines (G-stacks) in their sequences can exhibit a level of hybridization that is unrelated to the expression levels of the mRNA that they are intended to measure.
Altman, Andrew P. Harrison, Barrett, Bolstad, Burge, Cambon, Do, Dudoit, Eisen, Farhat N. Memon, Geller, Gellert, Giorgi, Graham J. G. Upton, Hammond, Harris, Hochreiter, Hubbell, Hugh P. Shanahan, Irizarry, Irizarry, Iwamoto, Kittleson, Langdon, Li, Memon, Memon, Naef, Patterson, Ringnér, Ryan, Sen, Stalteri, Upton, Upton, Walton, Wu   +36 more
core   +3 more sources

Reconfigurable Nucleic Acid Nanoparticles with Therapeutic RNAi Responses to Intracellular Disease Markers

Advanced Functional Materials, EarlyView.
Many known diseases arise from dysregulated gene expression, and differentially expressed genes can serve as biomarkers to distinguish diseased cells from healthy tissues. In this study, reconfigurable nucleic acid nanoparticles (recNANPs) are introduced that can detect overexpressed cancer biomarkers and subsequently release RNAi inducers to silence ...
Yelixza I. Avila, Anh Ha, Morgan R. Chandler, Nathalia Leal Santos, Taejin Kim, Hannah S. Newton, Marina A. Dobrovolskaia, Kirill A. Afonin   +7 more
wiley   +1 more source

Combinatorial CRISPR-Cas9 screens for de novo mapping of genetic interactions. [PDF]

, 2017
We developed a systematic approach to map human genetic networks by combinatorial CRISPR-Cas9 perturbations coupled to robust analysis of growth kinetics.
A Baryshnikova, A Baryshnikova, A DeLean, Aaron N Chang, AE Briner, Alex N Beckett, Alex Thomas, AM Kabadi, Amanda Birmingham, Ana Bojorquez-Gomez, ASL Wong, Assen Roguev, B Vogelstein, C Laufer, Chih-Chung Kuo, CJ Lord, Dan Du, Daniel Pekin, Dongxin Zhao, F Lori, H Xu, J Shi, Jason F Kreisberg, JD Storey, Jens Luebeck, JG Doench, John Paul Shen, Katherine Licon, Kristin Klepper, KS Pollard, Kyle Salinas Sanchez, L Avery, LA Gilbert, Lei Qi, M Costanzo, M Martin, MC Bassik, MS Neshat, Nathan E Lewis, NE Sanjana, Nevan Krogan, NJ Krogan, P Mali, P Mali, Prashant Mali, R Chari, R Mani, R Srivas, Roman Sasik, S Bandyopadhyay, SR Collins, T Hart, T Horn, Trey Ideker, VG Tusher, Y Benjamini, Y Dang   +56 more
core   +1 more source

Biomaterial Strategies for Targeted Intracellular Delivery to Phagocytes

Advanced Functional Materials, EarlyView.
Phagocytes are essential to a functional immune system, and their behavior defines disease outcomes. Engineered particles offer a strategic opportunity to target phagocytes, harnessing inflammatory modulation in disease. By tuning features like size, shape, and surface, these systems can modulate immune responses and improve targeted treatment for a ...
Kaitlyn E. Woodworth, Neal I. Callaghan, Locke Davenport Huyer   +2 more
wiley   +1 more source

A simple optimization can improve the performance of single feature polymorphism detection by Affymetrix expression arrays

BMC Genomics, 2010
Background High-density oligonucleotide arrays are effective tools for genotyping numerous loci simultaneously. In small genome species (genome size: < ~300 Mb), whole-genome DNA hybridization to expression arrays has been used for various applications ...
Fujisawa Hironori, Harushima Yoshiaki, Horiuchi Youko, Mochizuki Takako, Kawakita Masanori, Sakaguchi Takayuki, Kurata Nori   +6 more
doaj   +1 more source

Motif effects in Affymetrix GeneChips seriously affect probe intensities [PDF]

, 2012
An Affymetrix GeneChip consists of an array of hundreds of thousands of probes (each a sequence of 25 bases) with the probe values being used to infer the extent to which genes are expressed in the biological material under investigation. In this article,
Andrew P. Harrison, Arteaga-Salas, Arteaga-Salas, Barrett, Binder, Binder, Burden, Do, Fasold, Friedman, Geller, Gharaibeh, Graham J. G. Upton, Irizarry, Irizarry, Kerkhoven, Langdon, McCall, Mei, Memon, Memon, Mulders, Naef, Shanahan, Upton, Upton, Upton, Wanke   +27 more
core   +1 more source

Two‐Dimensional Materials as a Multiproperty Sensing Platform

Advanced Functional Materials, EarlyView.
Various sensing modalities enabled and/or enhanced by two‐dimensional (2D) materials are reviewed. The domains considered for sensing include: 1) optoelectronics, 2) quantum defects, 3) scanning probe microscopy, 4) nanomechanics, and 5) bio‐ and chemosensing.
Dipankar Jana, Shubhrasish Mukherjee, Dmitrii Litvinov, Magdalena Grzeszczyk, Sergey Grebenchuk, Makars Šiškins, Virgil Gavriliuc, Yihang Ouyang, Changyi Chen, Yuxuan Ye, Meng Yiming, Maciej Koperski   +11 more
wiley   +1 more source

Laser‐Based Sculpturing of Embedded Ultrathin Metal‐Oxide Nanopores for Enhanced Biomolecular Sensing

Advanced Functional Materials, EarlyView.
Controlled laser‐drilling of embedded HfO2 membranes creates three layer nanopores with Gaussian‐shaped cavities sculptured in the supporting layers. These embedded solid‐state nanopores slow DNA translocation by 12‐fold compared to SiNx pores, enabling high‐resolution, label‐free detection of short DNAs, RNAs, and proteins.
Jostine Joby, Yulia Marom, Guocong Lin, Aleksandra Baron‐Wiechec, Amit Meller   +4 more
wiley   +1 more source

Alternative mapping of probes to genes for Affymetrix chips

BMC Bioinformatics, 2004
Background Short oligonucleotide arrays have several probes measuring the expression level of each target transcript. Therefore the selection of probes is a key component for the quality of measurements.
Friis-Hansen Lennart, Møller Morten, Gautier Laurent, Knudsen Steen   +3 more
doaj   +1 more source