Code for: Measuring beta-diversity with abundance data by Louise Barwell (453067)

“…Conceptual properties C1) Independence of alpha diversity (RMSE) C2) Beta is cumulative along gradient of species turnover (RMSE) C3) Similarity is probabilistic when assemblages are distributed indepndently and identically in space (RMSE) C4) Minimum of zero and positiveness (TRUE/FALSE) C5) Fixed upper bound R (TRUE/FALSE) C6) Monotonic increase with species turnover (TRUE/FALSE) C7) Monotonic increase with decoupling of species ranks (TRUE/FALSE) C8) Monotonic increase with differences in evenness (TRUE/FALSE) C9) Beta under extreme decoupling of species ranks < beta when species turnover is complete (TRUE/FALSE) C10) Beta under extreme differences in evenness < beta when species turnover is complete (TRUE/FALSE) C11) Symmetry (Beta(x1, x2)==Beta(x2,x1)) (TRUE/FALSE) C12) Double zero asymmetry (TRUE/FALSE) C13) Beta does not decrease in a series of nested assemblages (TRUE/FALSE) C14) Independence of species replication (RMSE) C15) Independence of the measurement units (RMSE) C16) Independence of differences in abundance (RMSE) Sampling properties S1) Independence of sample size (RMSE) S2) Independence of unequal sample sizes (RMSE) Personality properties P1) Sensitivity to nestedness R P2) Relative sensitivity to nestedness and turnover components of beta P3) Relative sensitivity to decoupling of species ranks and species turnover components of beta P4) Relative sensitivity to evenness differences and species turnover components of beta P5) Relative sensitivity to turnover in rare versus common species We also consider two additional scenarios in our discussion and report the results in the Supplementary Information E1) Patterns of turnover predicted by a positive occupancy-abundance relationship (ONR): rare species are more likely to be turned over E2) Scale-dependence of beta-diversity.…”

Systematic review of evidence for the impact and effectiveness of the 1-3-7 strategy for malaria elimination by Richard J. Maude (9416228)

“…</p><h2>Conclusion </h2><p dir="ltr">Overall, the 1-3-7 approach was effectively implemented with a concomitant decrease in cases in malaria elimination settings, however, it was not possible to quantify impact as it was not implemented in isolation. …”

S1 File - by Ewelina Kosmider (11084603)

“…<div><p>To assess whether biomarkers of systemic inflammation are associated with HIV acquisition or with the timing of ART initiation (“immediate”, at diagnosis, versus “deferred”, at 24 weeks post-diagnosis) in men-who-have-sex-with-men (MSM) and transgender women, we conducted a retrospective study comparing inflammatory biomarkers in participants’ specimens collected before infection and after ≥2 years of effective ART. …”

Presentation_1_Stay-at-home and face mask policy intentions inconsistent with incidence and fatality during the US COVID-19 pandemic.pdf by Samuel X. Wu (13954158)

“…States with SAH orders showed a potential 50–60% decrease in infection and fatality during the SAH period (about 45 days). …”

Table_1_Resistance against two lytic phage variants attenuates virulence and antibiotic resistance in Pseudomonas aeruginosa.xlsx by Juan Carlos García-Cruz (11719459)

“…Nevertheless, bacterial killing promotes the selection of resistant clones which sometimes may exhibit a decrease in bacterial virulence or antibiotic resistance.…”

Table3_Defining the Dynamic Regulation of O-GlcNAc Proteome in the Mouse Cortex---the O-GlcNAcylation of Synaptic and Trafficking Proteins Related to Neurodegenerative Diseases.xls... by Van N Huynh (11498971)

“…Pharmacological increase of protein O-GlcNAcylation by Thiamet G (TG) has been shown to decrease tau phosphorylation and neurotoxicity, and proposed as a therapy in Alzheimer’s disease (AD). …”

Data_Sheet_1_Novel Quorum Quenching YtnP Lactonase From Bacillus paralicheniformis Reduces Pseudomonas aeruginosa Virulence and Increases Antibiotic Efficacy in vivo.pdf by Lidija Djokic (12716498)

“…<p>Bacterial infections have become increasingly difficult to treat due to the occurrence of antibiotic-resistant strains. A promising strategy to increase the efficacy of therapy is to combine antibacterials with agents that decrease pathogen virulence via the modulation of the quorum sensing (QS). …”

Image 9_Wip1 inhibitor CCT007093 alleviates immune exhaustion of lymphocytes via p65 NF-κB and YY1 in chronic hepatitis B virus infection in mice.tif by Yu-Syuan You (21288113)

“…</p>Methods<p>We focused on CCT007093, a Wip1 inhibitor, screened for its distinctive capacity to simultaneously decrease PD-1 and FcγRIIB expression in B cells.…”

Table_1_Effects of dietary arginine supplementation on growth performance, antioxidant capacity, intestinal digestive enzyme activity, muscle transcriptome, and gut health of Sinip... by Liyun Ding (3944732)

“…Fish fed a 3.37% arginine diet had the highest TSOD activity in the serum and liver. …”

Table14_BuShen HuoXue decoction improves fertility through intestinal hsp-16.2-mediated heat-shock signaling pathway in Caenorhabditis elegans.DOCX by Kanglu Wu (16009853)

“…</p><p>Methods: Bisphenol A (BPA, 175 μg/mL) was used to establish a fertility-defective C. elegans model. …”

Fig 3 - by De-Shen Wang (6708986)

“…The dashed lines correspond to RECIST version 1.1 criteria, with PD indicating an increase of at least 20% in the sum of the diameters of target lesions from baseline, and PR defined as a minimum of 30% decrease in the sum of the diameters of target lesions from baseline. …”

Severe hyposmia and aberrant functional connectivity in cognitively normal Parkinson’s disease by Noritaka Yoneyama (4739127)

“…Both the PD-SH and PD-N/MH groups showed increased GMV in the bilateral posterior insula and its surrounding regions. A widespread significant decrease in amygdala FC beyond the decreased GMV areas and olfactory cortices were found in the PD-SH group compared with the HCs. …”

Jasmonate signalling pathway in strawberry: Genome-wide identification, molecular characterization and expression of <i>JAZ</i>s and <i>MYC</i>s during fruit development and ripeni... by Adrián Garrido-Bigotes (5204555)

“…Noteworthy, their expression levels exhibited a significant decrease from fruit development to ripening stages in <i>F</i>. × <i>ananassa</i>, along with others of the JA signalling-related genes such as <i>FaNINJA</i> and <i>FaJAM</i>s, encoding for negative regulators of JA responses. …”

Presentation_1_Long-Term Outcome After Out-of-Hospital Cardiac Arrest: An Utstein-Based Analysis.PPTX by Enrico Baldi (7540913)

“…Pre-hospital data, survival, and cerebral performance category score (CPC) at 1, 6, and 12 months and then every year up to 5 years after the event were analyzed for each patient.</p><p>Results: A decrease in survival was observed during the follow-up in all the Utstein categories. …”

Image1_BuShen HuoXue decoction improves fertility through intestinal hsp-16.2-mediated heat-shock signaling pathway in Caenorhabditis elegans.TIF by Kanglu Wu (16009853)

“…</p><p>Methods: Bisphenol A (BPA, 175 μg/mL) was used to establish a fertility-defective C. elegans model. …”

Data Sheet 1_Impact of iron chelation therapy on mitochondrial function, vascular integrity and inflammation in transfusion-dependent myelodysplastic syndromes.pdf by Regina García-Delgado (22589807)

“…</p>Results<p>Chelation therapy was associated with a ~55% decrease in serum ferritin and robust redox recovery: leukocyte H₂O₂ and superoxide decreased ~3.8-fold and ~3.2-fold, respectively (both p<0.0001), intracellular glutathione increased ~3.3-fold (p<0.0001), and mitochondrial membrane potential rose ~2.6-fold (p<0.0001). …”

DataSheet1_San-Huang-Yi-Shen Capsule Ameliorates Diabetic Nephropathy in Rats Through Modulating the Gut Microbiota and Overall Metabolism.docx by Xiuhai Su (11897969)

“…In this study, we used a high-fat diet (HFD) combined with streptozotocin (STZ) injection to establish a DN rat model. …”

Data_Sheet_1_Bacillus subtilis and Pichia farinose mixture improves growth performance and nutrient absorption capacity in broiler chicks.pdf by Huan Wang (109286)

“…Introduction<p>This study evaluated the effects of dietary supplementation of Bacillus subtilis and Pichia farinose mixture (BPM) on growth performance, apparent ileal digestibility, cecal bacteria counts, small intestinal morphology and digestive enzymes activities, and jejunal nutrient transporters gene expression in broiler chicks.</p>Methods<p>A total of 768 one-day-old Ross 308 broiler chicks were randomly Q18 assigned into 3 groups based on the initial body weight (42.00 ± 0.08 g). …”

Intestinal Microbial Metabolites Are Linked to Severity of Myocardial Infarction in Rats by Vy Lam (274720)

“…Hierarchical clustering of dissimilarities separated the levels of 284 identified metabolites from treated vs. untreated rats; 193 were altered by the antibiotic treatments with a tendency towards decreased metabolite levels. …”

Serum AAT confers resistance to STS in human neutrophils. by Theresia Sarabhai (4020563)

“…</b> Pooled patient serum was first diluted to a final concentration of 3 mg protein/ml. Then, serum was reduced for AAT by using an AAT-specific antibody and AAT decrease was further confirmed by Elisa. …”