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Alexandra K. Diem

Publications and source records attributed to Alexandra K. Diem.

2 recordsLinked to original sources

Sustainable computational science: the ReScience initiative

Computer science offers a large set of tools for prototyping, writing, running, testing, validating, sharing and reproducing results, however computational science lags behind. In the best case, authors may provide their source code as a compressed archive and they may feel confident their research is reproducible. But this is not exactly true. James Buckheit and David Donoho proposed more than two decades ago that an article about computational results is advertising, not scholarship. The actual scholarship is the full software environment, code, and data that produced the result. This implies new workflows, in particular in peer-reviews. Existing journals have been slow to adapt: source codes are rarely requested, hardly ever actually executed to check that they produce the results advertised in the article. ReScience is a peer-reviewed journal that targets computational research and encourages the explicit replication of already published research, promoting new and open-source implementations in order to ensure that the original research can be replicated from its description. To achieve this goal, the whole publishing chain is radically different from other traditional scientific journals. ReScience resides on GitHub where each new implementation of a computational study is made available together with comments, explanations, and software tests.

cs.DL

A control mechanism for intramural periarterial drainage via astrocytes: How neuronal activity could improve waste clearance from the brain

The mechanisms behind waste clearance from deep within the parenchyma of the brain remain unclear to this date. Experimental evidence has shown that one pathway for waste clearance, termed intramural periarterial drainage (IPAD), is the rapid drainage of interstitial fluid (ISF) via basement membranes (BM) of the smooth muscle cells (SMC) of cerebral arteries and its failure is closely associated with the pathology of Alzheimer's disease (AD). We have previously shown that arterial pulsations from the heart beat are not strong enough to drive waste clearance. Here we demonstrate computational evidence for a mechanism for cerebral waste clearance that is driven by functional hyperaemia, that is, the dilation of cerebral arteries as a consequence of increased neuronal demand. This mechanism is based on our model for fluid flow through the vascular basement membrane. It accounts for waste clearance rates observed in mouse experiments and aligns with pathological observations as well as recommendations to lower the individual risk of AD, such as keeping mentally and physically active.

q-bio.TO