Digits: Two Reports on New Units of Scholarly Publication

The Digits team (Matt Burton, Matthew J. Lavin, Jessica Otis, and Scott B. Weingart) convened around the question of how we might share, preserve, and legitimize scholarship freed from the affordances of print. For the A.W. Mellon-funded Digits Planning Grant (2016-2018), the PIs had three goals: - Investigate the use of software containers for research in the sciences, social sciences, and humanities. - Assess the infrastructural needs of digital humanists around publishing and preserving web-centric scholarship. - Gather a team of experts to guide the above activities and plan how they might inform a beneficial intervention into the scholarly ecosystem. Through our investigation into the scholarly uses of containers, we discovered that the technical infrastructure needed to connect containers with digital publications is underdeveloped. We see potential for container technologies to facilitate existing digital scholarly publications and afford new forms of computational scholarship, but this process would first require a series of infrastructural bridges. The digital scholarship needs assessment we conducted, as well as our advisory board meetings, made it clear that a targeted technological intervention alone would not be enough to welcome web-first publications into the scholarly ecosystem; in-tandem cultural and institutional changes are also necessary

The Lantern Vol. 54, No. 1, Fall 1987

• Darkside • Reflections on a Subway Ride • Demand for Love • Music Man • Something Wild • The Nice Guy\u27s Story • The Picnic • Internalize • Days When You Feel Like Wonder Bread • II • A Tear • In Pursuit of Beauty • A Walk Down Sycamore Lane • A Wish • Sins of Omission • Pessimism • And the Sky Cracked • The Clock Strikes • Invinciblehttps://digitalcommons.ursinus.edu/lantern/1131/thumbnail.jp

Aptamer-based multiplexed proteomic technology for biomarker discovery

Interrogation of the human proteome in a highly multiplexed and efficient manner remains a coveted and challenging goal in biology. We present a new aptamer-based proteomic technology for biomarker discovery capable of simultaneously measuring thousands of proteins from small sample volumes (15 [mu]L of serum or plasma). Our current assay allows us to measure ~800 proteins with very low limits of detection (1 pM average), 7 logs of overall dynamic range, and 5% average coefficient of variation. This technology is enabled by a new generation of aptamers that contain chemically modified nucleotides, which greatly expand the physicochemical diversity of the large randomized nucleic acid libraries from which the aptamers are selected. Proteins in complex matrices such as plasma are measured with a process that transforms a signature of protein concentrations into a corresponding DNA aptamer concentration signature, which is then quantified with a DNA microarray. In essence, our assay takes advantage of the dual nature of aptamers as both folded binding entities with defined shapes and unique sequences recognizable by specific hybridization probes. To demonstrate the utility of our proteomics biomarker discovery technology, we applied it to a clinical study of chronic kidney disease (CKD). We identified two well known CKD biomarkers as well as an additional 58 potential CKD biomarkers. These results demonstrate the potential utility of our technology to discover unique protein signatures characteristic of various disease states. More generally, we describe a versatile and powerful tool that allows large-scale comparison of proteome profiles among discrete populations. This unbiased and highly multiplexed search engine will enable the discovery of novel biomarkers in a manner that is unencumbered by our incomplete knowledge of biology, thereby helping to advance the next generation of evidence-based medicine

Factors Associated with Revision Surgery after Internal Fixation of Hip Fractures

Background: Femoral neck fractures are associated with high rates of revision surgery after management with internal fixation. Using data from the Fixation using Alternative Implants for the Treatment of Hip fractures (FAITH) trial evaluating methods of internal fixation in patients with femoral neck fractures, we investigated associations between baseline and surgical factors and the need for revision surgery to promote healing, relieve pain, treat infection or improve function over 24 months postsurgery. Additionally, we investigated factors associated with (1) hardware removal and (2) implant exchange from cancellous screws (CS) or sliding hip screw (SHS) to total hip arthroplasty, hemiarthroplasty, or another internal fixation device. Methods: We identified 15 potential factors a priori that may be associated with revision surgery, 7 with hardware removal, and 14 with implant exchange. We used multivariable Cox proportional hazards analyses in our investigation. Results: Factors associated with increased risk of revision surgery included: female sex, [hazard ratio (HR) 1.79, 95% confidence interval (CI) 1.25-2.50; P = 0.001], higher body mass index (fo

Effects of Anacetrapib in Patients with Atherosclerotic Vascular Disease

BACKGROUND: Patients with atherosclerotic vascular disease remain at high risk for cardiovascular events despite effective statin-based treatment of low-density lipoprotein (LDL) cholesterol levels. The inhibition of cholesteryl ester transfer protein (CETP) by anacetrapib reduces LDL cholesterol levels and increases high-density lipoprotein (HDL) cholesterol levels. However, trials of other CETP inhibitors have shown neutral or adverse effects on cardiovascular outcomes. METHODS: We conducted a randomized, double-blind, placebo-controlled trial involving 30,449 adults with atherosclerotic vascular disease who were receiving intensive atorvastatin therapy and who had a mean LDL cholesterol level of 61 mg per deciliter (1.58 mmol per liter), a mean non-HDL cholesterol level of 92 mg per deciliter (2.38 mmol per liter), and a mean HDL cholesterol level of 40 mg per deciliter (1.03 mmol per liter). The patients were assigned to receive either 100 mg of anacetrapib once daily (15,225 patients) or matching placebo (15,224 patients). The primary outcome was the first major coronary event, a composite of coronary death, myocardial infarction, or coronary revascularization. RESULTS: During the median follow-up period of 4.1 years, the primary outcome occurred in significantly fewer patients in the anacetrapib group than in the placebo group (1640 of 15,225 patients [10.8%] vs. 1803 of 15,224 patients [11.8%]; rate ratio, 0.91; 95% confidence interval, 0.85 to 0.97; P=0.004). The relative difference in risk was similar across multiple prespecified subgroups. At the trial midpoint, the mean level of HDL cholesterol was higher by 43 mg per deciliter (1.12 mmol per liter) in the anacetrapib group than in the placebo group (a relative difference of 104%), and the mean level of non-HDL cholesterol was lower by 17 mg per deciliter (0.44 mmol per liter), a relative difference of -18%. There were no significant between-group differences in the risk of death, cancer, or other serious adverse events. CONCLUSIONS: Among patients with atherosclerotic vascular disease who were receiving intensive statin therapy, the use of anacetrapib resulted in a lower incidence of major coronary events than the use of placebo. (Funded by Merck and others; Current Controlled Trials number, ISRCTN48678192 ; ClinicalTrials.gov number, NCT01252953 ; and EudraCT number, 2010-023467-18 .)

Data from: The ability of North Island robins to discriminate between humans is related to their behavioural type

Animals are able to learn to identify persistent threats to themselves and their offspring. For example, birds are able to quickly learn to discriminate between humans that have previously threatened their nests from humans with whom they have had no prior experience. However, no study has yet examined whether a bird's ability to discriminate between humans is related to the bird's underlying behavioural type. In this study, we examined whether there were differences among North Island (NI) robins (Petroica longipes), based on their underlying behavioural type, in their abilities to discriminate between familiar and novel human observers. Using a simple feeding experiment, we timed how long it took birds to attack a food item placed next to an observer on each of 7 days. On the eighth day, a different observer timed the birds. We found that birds could be split into two behaviour types based on their attack behaviour: fast attackers (latencies 20 secs). Interestingly, the fast birds did not increase their attack latency in response to the novel observer whereas the slow attackers did. This result, for the first time, demonstrates that a bird's ability to discriminate between humans can vary among birds based on their behavioural type

The median difference in the latency to attack prey for the novel person (day 8) minus latency for the last day familiar person (day 7) for fast and slow birds.

<p>Positive values indicate that birds took longer to attack prey when the novel observer was timing the birds compared with a familiar observer. The box indicates the first and third quartiles whilst the bars indicate the 10^th and 90^th percentiles.</p

The median latencies over the course of the 8 days of the experiment for slow birds (solid line and filled symbol) and fast birds (hashed line and unfilled symbol).

<p>The bars represent the 10^th and 90^th percentiles. It is interesting to note that the latencies for the fast birds reach an asymptote on day 2 whereas slow birds reach their asymptote on day 3 of the experiment.</p