Uncovering steady advances for an extreme programming course

This paper presents an empirical study about identifying improvement actions for an eXtreme Programming course in the academic environment. This exploratory study is undertaken in two preliminary phases. These phases are part of a wider research project to develop a theory about how to continuously improve courses of similar structure and content. The first phase consists of diagnosing improvement actions from the 2010 edition of the course through a qualitative analysis of data obtained using various methods: (1) students’ responses to a questionnaire with open questions; and (2) students’ opinions expressed in a final agile retrospective with all members of the course. The second phase consists of an early application of the identified improvements in the 2011 edition of the course to gather lessons learned, and develop a definite case study design to be used continuously in the next courses offered. Amongst the results, we found that the use of initiatives to promote interactions between groups like Coding Dojo and Brainwritting helps students to effectively learn and share knowledge and experiences, a problem still unsolved when thinking of scaling agile methods. Also, this paper allows keeping track on what is occurring in the course

Improved Network Performance via Antagonism: From Synthetic Rescues to Multi-drug Combinations

Recent research shows that a faulty or sub-optimally operating metabolic network can often be rescued by the targeted removal of enzyme-coding genes--the exact opposite of what traditional gene therapy would suggest. Predictions go as far as to assert that certain gene knockouts can restore the growth of otherwise nonviable gene-deficient cells. Many questions follow from this discovery: What are the underlying mechanisms? How generalizable is this effect? What are the potential applications? Here, I will approach these questions from the perspective of compensatory perturbations on networks. Relations will be drawn between such synthetic rescues and naturally occurring cascades of reaction inactivation, as well as their analogues in physical and other biological networks. I will specially discuss how rescue interactions can lead to the rational design of antagonistic drug combinations that select against resistance and how they can illuminate medical research on cancer, antibiotics, and metabolic diseases.Comment: Online Open "Problems and Paradigms" articl

Contextualizing context for synthetic biology--identifying causes of failure of synthetic biological systems.

Despite the efforts that bioengineers have exerted in designing and constructing biological processes that function according to a predetermined set of rules, their operation remains fundamentally circumstantial. The contextual situation in which molecules and single-celled or multi-cellular organisms find themselves shapes the way they interact, respond to the environment and process external information. Since the birth of the field, synthetic biologists have had to grapple with contextual issues, particularly when the molecular and genetic devices inexplicably fail to function as designed when tested in vivo. In this review, we set out to identify and classify the sources of the unexpected divergences between design and actual function of synthetic systems and analyze possible methodologies aimed at controlling, if not preventing, unwanted contextual issues

Analyzing Large Network Dynamics with Process Hitting

In this chapter, we introduce the Process Hitting framework, which provides the methodology of constructing the most permissive dynamics and then using successive refinements to fine tune the model. We present static analysis methods designed to identify fixed points or answer successive reachability questions, and introduce the stochastic semantics of Process Hitting too

Lenneberg’s Contributions to the Biology of Language and Child Aphasiology: Resonation and Brain Rhythmicity as Key Mechanisms

This paper aims to re-evaluate the legacy of Eric Lenneberg’s monumental Biological Foundations of Language, with special reference to his biolinguistic framework and view on (child) aphasiology. The argument draws from the following concepts from Lenneberg’s work: (i) language (latent struc- ture vs. realized structure) as independent of externalization; (ii) resonance theory; (iii) brain rhythmicity; and (iv) aphasia as temporal dysfunction. Specifically, it will be demonstrated that Lenneberg’s original version of the critical period hypothesis and his child aphasiology lend themselves to elucidating a child aphasia of epileptic origin called Landau-Kleffner syndrome (LKS), thereby opening a possible hope for recovery from the disease. Moreover, it will be claimed that, to the extent that the language disorder in LKS can be couched in these terms, it can serve as strong “liv- ing” evidence in support of Lenneberg’s critical period hypothesis and his view on child aphasiology