Protein Sequence Annotation Tool (PSAT): a centralized web-based meta-server for high-throughput sequence annotations

The EC2KEGG output for the RV1423 analysis sorted in ascending order by the FDR value. (XLSX 58 kb

Marital status, education, and income in relation to the risk of esophageal and gastric cancer by histological type and site

BACKGROUND: Marital status, income, and education might influence the risk of esophageal and gastric cancer, but the literature is limited. A large study addressing subtypes of these tumors was used to clarify these associations. METHODS: A nationwide, Swedish population–based cohort study from 1991 to 2010 included individuals who were 50 years old or older. Data on exposures, covariates, and outcomes were obtained from well-maintained registers. Four esophagogastric tumor subtypes were analyzed in combination and separately: esophageal adenocarcinoma, esophageal squamous cell carcinoma, cardia adenocarcinoma, and noncardia gastric adenocarcinoma. Poisson regression was used to estimate incidence rate ratios (IRRs) and 95% confidence intervals (CIs). Analyses were stratified by sex and adjusted for confounders. RESULTS: Among 4,734,227 participants (60,634,007 person-years), 24,095 developed esophageal or gastric cancer. In comparison with individuals in a long marriage, increased IRRs were found among participants who were in a shorter marriage or were never married, remarried, divorced, or widowed. These associations were indicated for each tumor subtype but were generally stronger for esophageal squamous cell carcinoma. Higher education and income were associated with decreased IRRs in a seemingly dose-response manner and similarly for each subtype. In comparison with the completion of only primary school, higher tertiary education rendered an IRR of 0.64 (95% CI, 0.60-0.69) for men and an IRR of 0.68 (95% CI, 0.61-0.75) for women. Comparing participants in the highest and lowest income brackets (highest 20% vs lowest 20%) revealed an IRR of 0.74 (95% CI, 0.70-0.79) for men and an IRR of 0.83 (95% CI, 0.76-0.91) for women. CONCLUSIONS: Divorce, widowhood, living alone, low educational attainment, and low income increase the risk of each subtype of esophageal and gastric cancer. These associations require attention when high-risk individuals are being identified.The Swedish Research Council (Swedish Initiative for Research on Microdata in the Social and Medical Sciences).Accepte

Targeted genome editing across species using ZFNs and TALENs

Evolutionary studies necessary to dissect diverse biological processes have been limited by the lack of reverse genetic approaches in most organisms with sequenced genomes. We established a broadly applicable strategy using zinc finger nucleases (ZFNs) and transcription activator-like effector nucleases (TALENs) for targeted disruption of endogenous genes and cis-acting regulatory elements in diverged nematode species

"Homework feedback is...": Elementary and middle school teachers' conceptions of homework feedback

This study explored mathematics teachers' conceptions of the homework feedback focusing on four key aspects: definition, purpose, types, and perceived impact. Forty-seven teachers from elementary and middle schools participated in six focus groups. Data were analyzed using content analysis. To enhance the trustworthiness of findings, classroom observations were used for triangulation of data. Participants conceptualized homework feedback in three directions (i.e., teachers' feedback provided to students, students' feedback provided to teachers, and homework self-feedback), being teachers' monitoring of students' learning the purpose reported by most teachers. Participants also reported the types of homework feedback more frequently used in class (e.g., checking homework completion, checking homework on the board), and their perceived impact on students. Findings provide valuable information to deepen the understanding of the homework feedback process, which may help develop new avenues for future research.This study was conducted at Psychology Research Centre (UID/PSI/01662/2013), University of Minho, and supported by the Portuguese Foundation for Science and Technology and the Portuguese Ministry of Science, Technology and Higher Education through national funds and co-financed by FEDER through COMPETE2020 under the PT2020 Partnership Agreement (POCI-01-0145-FEDER-007653). JC was supported by a Ph.D. fellowship from the Portuguese Foundation for Science and Technology (FCT - SFRH/BD/95341/2013).info:eu-repo/semantics/publishedVersio

BIOINFORMATICS APPLICATIONS NOTE doi:10.1093/bioinformatics/bti778 Gene expression PAGE: phase-shifted analysis of gene expression

Summary: Grouping of gene expression patterns across biological experiments, treatments and time-series data is performed in q-intervals of measurements using phase-shifted analysis of gene expression (PAGE); a Java-based tool to find clusters of genes that share trends of expression profiles within the dataset. The patterns and genes within q-Clusters are visualized in trend plots and compared to determine biological relevance from the gene annotations. Availability: PAGE is available a

On super vertex-graceful unicyclic graphs

summary:A graph $G$ with $p$ vertices and $q$ edges, vertex set $V(G)$ and edge set $E(G)$, is said to be super vertex-graceful (in short SVG), if there exists a function pair $(f, f^+)$ where $f$ is a bijection from $V(G)$ onto $P$, $f^+$ is a bijection from $E(G)$ onto $Q$, $f^+((u, v)) = f(u) + f(v)$ for any $(u, v) \in E(G)$, $$Q = \begin{cases} \{\pm 1,\dots , \pm \frac 12q\},&\text {if $q$ is even,}\\ \{0, \pm 1, \dots , \pm \frac 12(q-1)\},&\text {if $q$ is odd,} \end{cases}$$ and $$P = \begin{cases} \{\pm 1,\dots , \pm \frac 12p\},&\text {if $p$ is even,}\\ \{0, \pm 1, \dots , \pm \frac 12(p-1)\},&\text {if $p$ is odd.} \end{cases}$$ \endgraf We determine here families of unicyclic graphs that are super vertex-graceful