bluuebunny/crossref_metadata_2025_split huggingface dataset:
Analysis of road traffic injuries and casualties in China: a ten-year nationwide longitudinal study
Authors: Qi Miao , Hu Xiuli , Li Xiahong , Wang Xue , Shi Xiuquan 
Published: September 2022

Background
Road traffic injuries (RTIs) are a serious global problem, and a huge challenge for both economic development and public health.

Methods
This longitudinal study was based on the national data from Chinese authorities. Descriptive analysis was utilized to analyze the prevalence and trend of RTIs among different types, groups and regions. In addition, ridge regression or/and curve regression were also used to explore the relationship between those possible influencing factors and RTIs.

Results
From 2010 to 2019, the death toll from motor vehicle accidents (MVAs) decreased firstly and then increased, while the death toll from non-MVAs continued to rise since 2012, and the death toll from pedestrian and occupant accidents fluctuated only a little. The mortality rate of MVA was relatively stable from 2010 to 2012, and declined from 2013. The mortality rate of motor vehicle accidents was higher in rural than urban, the same to male compared with female. The results of ridge regression showed that gross domestic product (GDP)-per-capita, total population, number of health personnel and car ownership were positively correlated with the death toll of non-MVAs (P < 0.05). Additionally, the results of curve regression suggested that the quadratic or cubic relationship between each factor and the number of MVAs was well fitted, while only partially fitted in fatalities.

Conclusions
In recent years, RTIs in China show different trends, and the problem of non-motor vehicle traffic injuries has been neglected which should be paid more attention. Moreover, according to the new trends and traffic conditions in RTIs revealed in this study, it is necessary to formulate targeted intervention measures establish a multi-faceted comprehensive safety system to reduce the disease burden of RTIs as well as the total injuries.
miR-378 associated with proliferation, migration and apoptosis properties in A549 cells and targeted NPNT in COPD
Authors: Qian Guoqing , Liao Qi , Li Guoxiang , Yin Fengying 
Published: September 2022

Background
microRNAs contribute to the development and progression of chronic obstructive pulmonary disease (COPD). However, the underlying molecular mechanisms are largely unclear. The goal of this study was to investigate the roles of miR-378 in alveolar epithelial type II cells and identify molecular mechanisms which contribute to the pathogenesis of COPD.

Materials and methods
Human alveolar epithelial (A549) cells were cultured in Dulbecco’s Modified Eagle Medium. Cell proliferation was studied by using a cell counting kit-8 (CCK-8) and colony formation assays. Cell apoptosis and cell cycle were analyzed by flow cytometry and wound healing and Transwell were used to analyze the cell migration and. We performed bioinformatics analysis including target gene prediction, gene ontology (GO), Kyoto Encyclopedia of Genes and Genome (KEGG) pathway enrichment and construction of protein-protein interaction (PPI) network. The expression of miR-378 and NPNT from publically available expression microarray of COPD lung tissues was analyzed.

Results
Overexpression of miR-378 significantly increases cell proliferation, migration, and suppress apoptosis. GO analysis demonstrated that the miR-378 involved in transcription, vascular endothelial growth factor receptor signaling pathway, phosphatidylinositol 3-kinase signaling, cell migration, blood coagulation, cell shape, protein stabilization and phosphorylation. Pathway enrichment showed that the 1,629 target genes of miR-378 were associated with mTOR, ErbB, TGF-β, MAPK, and FoxO signaling pathways. Notably, miR-378 directly targets Nephronectin in A549 cells, and miR-378 was upregulated while NPNT was downregulated in COPD lung tissue samples.

Conclusions
These findings suggest that miR-378 can regulate the proliferation, migration, and apoptosis of A549 cells and target NPNT. miR-378 increased in COPD lung tissues while NPNT decreased, and might prove a potential target for novel drug therapy.
Lipase Production by Acinetobacter radioresistens in the Presence of a Nonwoven Fabric
Authors: Shen Chi‐Chih , Wu Jau‐Yann , Chen Chuh‐Yung , Chen Teh‐Liang 
Published: July 2002

AbstractLipase production by Acinetobacter radioresistens was performed in a 2‐L tank fermentor equipped with a nonwoven fabric, which was made of nylon 6 fiber and coated with a hydrophobic acrylic resin. The fermentation medium contained 2% (v/v) n‐hexadecane as the carbon source. The use of the nonwoven fabric was intended for the dispersion of hydrocarbons; thus, the contact surface for the cells to assimilate n‐hexadecane can be increased without using emulsifiers. The formation of lipase was found to be growth‐associated when the cells grew on n‐hexadecane. The use of the nonwoven fabric increased the lipase yield by 130%. Further supplementation of 0.1% (v/v) olive oil to the medium could markedly shorten the fermentation time, and thus increase the volumetric productivity. The use of the nonwoven fabric offered two additional advantages in the lipase fermentation: ease of foam control and favorable partition of lipase in the aqueous phase.
On a Recent “Review Essay” in JHET
Authors: Kurz Heinz D. , Salvadori Neri 
Published: July 2002

On September 22, 1994 we signed a contract with Edward Elgar Publishing Limited to edit The Elgar Companion to Classical Economics (ECCE) (Kurz and Salvadori 1998). Dr. Terry Peach accepted our invitation (dated January 10, 1995) to contribute an entry to ECCE by July 15, 1995. He was reminded of the deadline in a letter dated June 19 and again in a letter dated August 28, when we suggested a new deadline of September 30. Our only response from Peach was a letter dated September 5, also to the publisher, informing us that he had “to rescind [his] offer to contribute an entry.” This unexpected withdrawal was justified on the following grounds:My critical position on the Sraffa-inspired history of economic thought, and particularly on the “Sraffian” interpretation of Ricardo, is probably well known to you. After long deliberation I have decided that I cannot in all conscience make even a minor contribution to a project which, to a pronounced degree, apparently seeks to promote a particular version of the history of economic thought to which I am profoundly opposed.
Web strategies for professional publishers: developing an information services portal
Authors: Klein Donald C. 
Published: July 2002

ABSTRACTThis paper examines how the free distribution of electronic information on the internet is rapidly changing the commercial environment for small to medium‐sized print publishers, and suggests some recommendations for publishers in the process of establishing their own web strategies. It begins by addressing the concept of the ‘network economy’ and the way in which electronic networks have changed the fundamental economics of many businesses. It then suggests seven recommendations for learned and professional society publishers adapting their own business models to the web, highlighting the need to differentiate print from electronic products by building an electronic information services portal for current members and subscribers.
Finite time blow-up for the inhomogeneous equation 𝑢_{𝑡}=Δ𝑢+𝑎(𝑥)𝑢^{𝑝}+𝜆𝜙 in 𝑅^{𝑑}
Authors: Pinsky Ross 
Published: July 2002

We consider the inhomogeneous equation

a
m
p
;

u

t

=
Δ
u
+
a
(
x
)

u

p

+
λ
ϕ
(
x
)
in

R

d

,
t
∈
(
0
,
T
)
,

a
m
p
;
u
(
x
,
0
)
=
f
(
x
)
,

\begin{equation*} \begin {split} & u_{t}=\Delta u+a(x)u^{p}+\lambda \phi (x) \text {in} R^{d}, t\in (0,T),\\ &u(x,0)=f(x),\end{split}\end{equation*}

where

a
,
ϕ
≩
0

a,\phi \gneqq 0

,

λ
>
0

\lambda >0

and

f
≥
0

f\ge 0

, and give criteria on

p
,
d
,
a

p,d,a

, and

ϕ
\phi

which determine whether for all

λ
\lambda

and all

f
f

the solution blows up in finite time or whether for

λ
\lambda

and

f
f

sufficiently small, the solution exists for all time.
GenXref. VI: Automatic generation of links between two heterogeneous databases.
Authors: Achard F , Dessen P 
Published: July 2002

Abstract
MOTIVATION: A large proportion of the information found in public databases is not sufficiently cross-referenced. We developed genXref, an automated system for link inference, because embarking on a manual cross-referencing of genome data would require too much expensive human expertise. It uses information retrieval technology to generate links between objects of heterogeneous databases. RESULTS: GenXref was used to generate links between GDB genes and Genbank human sequences. It resulted in &gt; 10,000 links with a precision of 83% and a recall of approximately 32%.
Mapper: an intelligent restriction mapping tool.
Authors: Inglehart J A , Nelson P C , Zou Y 
Published: July 2002

Abstract
MOTIVATION: To determine the most powerful artificial intelligence techniques for automated restriction mapping, and use them to create a powerful multiple-enzyme restriction mapping tool. RESULTS: The most effective search engine utilized model-driven exhaustive search and a form of binary logic pruning based on Pratt's separation theory. Additional experimentation led to the development of an input preprocessing module which significantly speeds up searches, and an output post-processing module which enables users to analyze large solution sets and reduce their apparent complexity. AVAILABILITY: An executable version of the resultant tool, Mapper, can be downloaded from our Web site (http://www.ai.eecs.uic.edu) by selecting the 'Software' option. CONTACT: nelson@eecs.uic.edu (http://www.ai.eecs.uic.edu/√±elson).
Analysis of DNA curvature using artificial neural networks.
Authors: Parbhane R V , Tambe S S , Kulkarni B D 
Published: July 2002

Abstract
MOTIVATION: Our aim is to utilize an artificial neural network (ANN) for the prediction of DNA curvature in terms of retardation anomaly. RESULTS: An ANN capturing the role of phasing, increased helix flexibility, run of poly(A) tracts and flanking base pair effects in determining the extent of DNA curvature has been developed. The network predictions validate the known experimental results and also explain how the base pairs other than ApA affect the curvature. The results suggest that ANN can be used as a model-free tool for studying DNA curvature. AVAILABILITY: The optimal weights and the procedure to compute the retardation anomaly value are available on request from the authors. CONTACT: bdk@ems. ncl.res.in
A method for comparing circular genomes from gene locations: application to mitochondrial genomes.
Authors: Horimoto K , Suyama M , Toh H , Mori K , Otsuka J 
Published: July 2002

Abstract
MOTIVATION: Data on the entire structures of organelle and bacterial genomes, most of which are known to be circular, have accumulated at a rapid pace. This information enables us to utilize the locations of homologous gene pairs for measuring the dissimilarity between complete genomic structures. RESULTS: A macroscopic distance is presented for comparing circular genomes from their overall structures, on the basis of the locations of two pairs of homologous genes on the compared genomes. The novel aspect of our method is that the comparison between the genomes automatically reveals a relationship based on the information on all gene locations, by incorporating the mobility of each gene, which includes not only the gene order, but also the relative location between gene pairs. The plausibility of the newly defined distances is evaluated by means of 44 mitochondrial genomes. The genome distance shows high performance for quantitatively describing the differences between the gene organizations of the genomes. AVAILABILITY: Since the programs implementing these calculations require well-arranged gene organization data, they have not been released yet. However, one of the authors will analyze circular genomes upon request. Data on the gene organizations may be submitted electronically to the address below.
WWW access to the SYSTERS protein sequence cluster set.
Authors: Krause A , Nicod√®me P , Bornberg-Bauer E , Rehmsmeier M , Vingron M 
Published: July 2002

Abstract
SUMMARY: We present a Web server where the SYSTERS cluster set of the non-redundant protein database consisting of sequences from SWISS-PROT and PIR is being made available for querying and browsing. The cluster set can be searched with a new sequence using the SSMAL search tool. Additionally, a multiple alignment is generated for each cluster and annotated with domain information from the Pfam protein family database. AVAILABILITY: The server address is http://www.dkfz-heidelberg.de/tbi/services/cluster/ systersform
Revealing hidden interval graph structure in STS-content data.
Authors: Harley E , Bonner A , Goodman N 
Published: July 2002

Abstract
MOTIVATION: STS-content data for genomic mapping contain numerous errors and anomalies resulting in cross-links among distant regions of the genome. Identification of contigs within the data is an important and difficult problem. RESULTS: This paper introduces a graph algorithm which creates a simplified view of STS-content data. The shape of the resulting structure graph provides a quality check - coherent data produce a straight line, while anomalous data produce branches and loops. In the latter case, it is sometimes possible to disentangle the various paths into subsets of the data covering contiguous regions of the genome, i.e. contigs. These straight subgraphs can then be analyzed in standard ways to construct a physical map. A theoretical basis for the method is presented along with examples of its application to current STS data from human genome centers. AVAILABILITY: Freely available on request.
A vector-based method for drawing RNA secondary structure.
Authors: Han K , Kim D , Kim H J 
Published: July 2002

Abstract
MOTIVATION: To produce a polygonal display of RNA secondary structure with minimal overlap and distortion of structural elements, with minimal search for positioning them, and with minimal user intervention. RESULTS: A new algorithm for automatically drawing RNA secondary structure has been developed. The algorithm represents the direction and space for a structural element using vector and vector space. Two heuristics are used. The first heuristic is concerned with ordering structural elements to be positioned and the second with positioning them in space. The algorithm and a graphical user interface have been implemented in a working program called VizQFolder on IBM PC compatibles. Experimental results demonstrate that VizQFolder is capable of automatically generating nearly overlap-free polygonal displays for long RNA molecules. The only distortion performed to avoid overlap is the rotation of helices, leading to efficient generation of a polygonal display without sacrificing its readability. VizQFolder is not coupled to a specific prediction program of RNA secondary structure, and thus can be used for visualizing secondary structure models obtained by any means. AVAILABILITY: The executable code of VizQFolder is available at http://automation.inha.ac.kr/khan. It can also be obtained from the authors upon request.
WebBLAST 2.0: an integrated solution for organizing and analyzing sequence data.
Authors: Ferlanti E S , Ryan J F , Makalowska I , Baxevanis A D 
Published: July 2002

Abstract
SUMMARY: WebBLAST is a suite of programs intended to assist in organizing sequencing data and to provide first-pass sequence analysis in an automated fashion. Data processing is fully automated, with end-users being presented both graphical and tabular summaries of data that can be viewed using any Web browser. AVAILABILITY: The program is free and available at http://genome.nhgri.nih. gov/webblast.
Regression trees for analysis of mutational spectra in nucleotide sequences.
Authors: Berikov V B , Rogozin I B 
Published: July 2002

Abstract
MOTIVATION: The study and comparison of mutational spectra is an important problem in molecular biology, because these spectra often reveal important features of the action of various mutagens and the functioning of repair/replication enzymes. As is known, mutability varies significantly along nucleotide sequences: mutations often concentrate at certain positions in a sequence, otherwise termed 'hotspots'. RESULTS: Herein, we propose a regression analysis method based on the use of regression trees in order to analyse the influence of nucleotide context on the occurrence of such hotspots. The REGRT program developed has been tested on simulated and real mutational spectra. For the G:C--&gt;T:A mutational spectra induced by Sn1 alkylating agents (nine spectra), the prediction accuracy was 0. 99. AVAILABILITY: The REGRT program is available upon request from V.Berikov.
Integrated databases and computer systems for studying eukaryotic gene expression.
Authors: Kolchanov N A , Ponomarenko M P , Frolov A S , Ananko E A , Kolpakov F A , Ignatieva E V , Podkolodnaya O A , Goryachkovskaya T N , Stepanenko I L , Merkulova T I , Babenko V V , Ponomarenko Y V , Kochetov A V , Podkolodny N L , Vorobiev D V , Lavryushev S V , Grigorovich D A , Kondrakhin Y V , Milanesi L , Wingender E , Solovyev V , Overton G C 
Published: July 2002

Abstract
MOTIVATION: The goal of the work was to develop a WWW-oriented computer system providing a maximal integration of informational and software resources on the regulation of gene expression and navigation through them. Rapid growth of the variety and volume of information accumulated in the databases on regulation of gene expression necessarily requires the development of computer systems for automated discovery of the knowledge that can be further used for analysis of regulatory genomic sequences. RESULTS: The GeneExpress system developed includes the following major informational and software modules: (1) Transcription Regulation (TRRD) module, which contains the databases on transcription regulatory regions of eukaryotic genes and TRRD Viewer for data visualization; (2) Site Activity Prediction (ACTIVITY), the module for analysis of functional site activity and its prediction; (3) Site Recognition module, which comprises (a) B-DNA-VIDEO system for detecting the conformational and physicochemical properties of DNA sites significant for their recognition, (b) Consensus and Weight Matrices (ConsFrec) and (c) Transcription Factor Binding Sites Recognition (TFBSR) systems for detecting conservative contextual regions of functional sites and their recognition; (4) Gene Networks (GeneNet), which contains an object-oriented database accumulating the data on gene networks and signal transduction pathways, and the Java-based Viewer for exploration and visualization of the GeneNet information; (5) mRNA Translation (Leader mRNA), designed to analyze structural and contextual properties of mRNA 5'-untranslated regions (5'-UTRs) and predict their translation efficiency; (6) other program modules designed to study the structure-function organization of regulatory genomic sequences and regulatory proteins. AVAILABILITY: GeneExpress is available at http://wwwmgs.bionet.nsc. ru/systems/GeneExpress/ and the links to the mirror site(s) can be found at http://wwwmgs.bionet.nsc.ru/mgs/links/mirrors.html+ ++.
Fels-Rand: an Xlisp-Stat program for the comparative analysis
of data under phylogenetic uncertainty
Authors: Blomberg Simon 
Published: July 2002

Abstract
Motivation: Currently available programs for the comparative analysis of phylogenetic data do not perform optimally when the phylogeny is not completely specified (i.e. the phylogeny contains polytomies). Recent literature suggests that a better way to analyse the data would be to create random trees from the known phylogeny that are fully-resolved but consistent with the known tree. A computer program is presented, Fels-Rand, that performs such analyses. A randomisation procedure is used to generate trees that are fully resolved but whose structure is consistent with the original tree. Statistics are then calculated on a large number of these randomly-generated trees. Fels-Rand uses the object-oriented features of Xlisp-Stat to manipulate internal tree representations. Xlisp-Stat’s dynamic graphing features are used to provide heuristic tools to aid in analysis, particularly outlier analysis. The usefulness of Xlisp-Stat as a system for phylogenetic computation is discussed.
Availability: Available from the author or at http://www.uq.edu.au/~ansblomb/Fels-Rand.sit.hqx. Xlisp-Stat is available from http://stat.umn.edu/~luke/xls/xlsinfo/xlsinfo.html.
Contact: s.blomberg@abdn.ac.uk
QTL Express: mapping quantitative trait loci in simple and
complex pedigrees
Authors: Seaton George , Haley Chris S. , Knott Sara A. , Kearsey Mike , Visscher Peter M. 
Published: July 2002

Abstract
Summary: QTL Express is the first application for Quantitative Trait Locus (QTL) mapping in outbred populations with a web-based user interface. User input of three files containing a marker map, trait data and marker genotypes allows mapping of single or multiple QTL by the regression approach, with the option to perform permutation or bootstrap tests.
Availability: http://qtl.cap.ed.ac.uk/
Contact: george.seaton@ed.ac.uk
* To whom correspondence should be addressed.
The generation of long telomere overhangs in human cells:
a model and its implication
Authors: Hao Yu-hua , Tan Zheng 
Published: July 2002

Abstract
Motivation: Linear chromosomes carry on both ends repetitive DNA sequences called telomere. In the conventional model of semi-conservative DNA replication, the 3′-end of a linear DNA strand cannot be fully replicated, resulting in a single-stranded 3′ overhang at one end of the double-stranded DNA product. In this model, the length of the overhang is expected to be about the size of an RNA primer (about nine nucleotides for human cells). However, it has been found that the telomere overhangs in human cells can be as long as several hundred nucleotides. At present, the opinion regarding how such long overhangs are produced is controversial.
Results: In order to gain insight into the mechanism by which long telomere overhangs are produced, we derived a mathematical model that can perfectly describe the length distribution of telomere overhangs in several human cell strains. The model suggests that the production of telomere overhangs can be explained by three contributions corresponding to three regions on the G-rich telomere template strand, namely, the region occupied by the last primer, that missed out by this primer at its 5′-side and the 3′-terminus of the template strand that is inaccessible to primase. The model can also be used to simulate incomplete telomere replication.
Contact: tanclswu@public.wh.hb.cn
* To whom correspondence should be addressed.