MOTIVATION Scaffolding is the process of ordering and orienting contigs produced during genome assembly. Accurate scaffolding is essential for finishing draft assemblies, as it facilitates the costly and laborious procedures needed to fill in the gaps between contigs. Conventional formulations of the scaffolding problem are intractable, and most scaffolding programs rely on heuristic or approxi...

Viral assembly is an ideal system in which to investigate the transient recognition and interplay between proteins. During morphogenesis, scaffolding proteins temporarily associate with structural proteins, stimulating conformational changes that promote assembly and inhibit off-pathway reactions. Microviridae morphogenesis is dependent on two scaffolding proteins, an internal and an external s...

Formation of many dsDNA viruses begins with the assembly of a procapsid, containing scaffolding proteins and a multisubunit portal but lacking DNA, which matures into an infectious virion. This process, conserved among dsDNA viruses such as herpes viruses and bacteriophages, is key to forming infectious virions. Bacteriophage P22 has served as a model system for this study in the past several d...

Building on theories of scaffolding and previous research on scaffolding between adults and children, this article provides empirical examples of over-scaffolding as it occurs in peer-topeer literacy activities among elementary-level emergent bilingual students. In their analysis of data from the first year of a design-based research project (Bradley & Reinking, 2011) consisting of a cross-aged...

Effective design and improvement of scaffolding in complex and open-ended learning environments, requires the ability to assess the effectiveness of a variety of scaffolding options, not only in terms of overall performance and learning, but also in terms of more subtle effects on students’ behavior and understanding. In this paper, we present a novel data mining technique that aids the analysi...

Scaffolding, the problem of ordering and orienting contigs, typically using paired-end reads, is a crucial step in the assembly of high-quality draft genomes. Even as sequencing technologies and mate-pair protocols have improved significantly, scaffolding programs still rely on heuristics, with no guarantees on the quality of the solution. In this work, we explored the feasibility of an exact s...

As the focus of Australian educational research has shifted to studying the quality of teacher intervention, the notion of scaffolding is becoming increasingly popular among educators in different areas such as literacy and numeracy, early childhood education and educational psychology for adults. Vygotskian socio-cultural psychology, and the zone of proximal development (ZPD) in particular, is...

Spiders' cobwebs ensnare both walking and flying prey. While the scaffolding silk can entangle flying insects, gumfoot silk threads pull walking prey off the ground and into the web. Therefore, scaffolding silk needs to withstand the impact of the prey, whereas gumfoot silk needs to easily detach from the substrate when contacted by prey. Here we show that spiders accomplish these divergent dem...

This cross-cultural study investigates how maternal task assignment relates to toddlers' requested behavior and helping between 18 and 30 months. One hundred seven mother-child dyads were assessed in three different cultural contexts (rural Brazil, urban Germany, and urban Brazil). Brazilian mothers showed assertive scaffolding (serious and insistent requesting), whereas German mothers employed...

Spatial scaffolding is a naturally occurring human teaching behavior, in which teachers use their bodies to spatially structure the learning environment to direct the attention of the learner. Robotic systems can take advantage of simple, highly reliable spatial scaffolding cues to learn from human teachers. We present an integrated robotic architecture that combines social attention and machin...