bluuebunny/crossref_metadata_2025_split huggingface dataset:
Mentalizing after mentalization based treatment
Authors: Johnson Emma Louise , Mutti Marie-France , Springham Neil , Xenophontes Ioanna 
Published: March 2016

Purpose
– The purpose of this paper is to examine a gap in knowledge about the interaction between mentalizing skills and social inclusion activity immediate after completing an intensive mentalization-based treatment (MBT) program.

Design/methodology/approach
– Lived experience was explored through the use of timelines, repeated cycles of audio-recorded focus groups and inductive thematic analysis.

Findings
– Destructive cycles between self-hatred and social-exclusion were first disrupted by MBT because people felt understood. Being understood reduced self-hatred which was an essential precursor for attempting new forms of mentalizing in social interactions. This process was challenging but continued as a virtuous cycle after treatment finished.

Research limitations/implications
– The sample was limited because at three, it was small. However, the study was co-produced between professional and service users at all stages. Lived experience was carefully explored in depth and triangulated between three people. The authors acknowledge too that they have reflected on experience within only one to three years after MBT finished. Future studies might usefully replicate the methodology to trace experience up to the eight year follow up point undertaken by Bateman and Fonagy (2008).

Practical implications
– There is a great sense of loss for service users when therapy ends and that ending needs to be managed on both sides. Service users start to acquire powerful new skills and thought processes at the end of therapy. While this may not be overwhelming, they will not be used to them and so it helps when therapists help service users think about their plans and ideas for things they want to do or changes they might make in their lives.

Originality/value
– While supporting quantitative data about the outcome of therapy, this study offers the type of qualitative detail about how the psychological and social interact post-therapy, which can inform the successful management of those processes by those involved.
Remarkable lives: Clare Campbell in conversation with Jerome Carson
Authors: Campbell Clare , Carson Jerome 
Published: March 2016

Purpose
– The purpose of this paper is to provide a profile of Clare Campbell.

Design/methodology/approach
– Clare provides a short autobiographical account of her life. Clare is then interviewed by Jerome and describes the life enhancing impact of creativity in her own life.

Findings
– Clare describes her work initially with Wild Woman workshops and then Big Love Sista.

Research limitations/implications
– Big Love Sista started when some 40 women all came and painted self-portraits in Clare’s house, which led to an exhibition of 100 life sized portraits on women in recovery from difficult life events.

Practical implications
– Apart from the healing power of Art, Clare’s work shows the power of bringing leaders together with disadvantaged groups, using the medium of the circle to provide unique experiential change.

Social implications
– Community leaders have access to lots of resources and opportunities. In coming together with disadvantaged groups, they can serve as role models, but equally they can be inspired by those they encounter in the medium of the circle.

Originality/value
– Clare and those colleagues she has worked with over the years has shown the power of community and the transformative effects of groupwork. Few individuals can have had such a dramatic effect on so many people.
Draft Genome Sequence of
Chromobacterium violaceum
Strain CV017
Authors: Wang Xiaofei , Hinshaw Kara C. , Macdonald Stuart J. , Chandler Josephine R. 
Published: March 2016

ABSTRACT

We announce the draft genome sequence for
Chromobacterium violaceum
strain CV017, used as a model and tool to understand acyl-homoserine lactone-dependent quorum sensing. The assembly consists of 4,774,638-bp contained in 211 scaffolds.
Draft Genome Sequences of Two Extensively Drug-Resistant Strains of
Mycobacterium tuberculosis
Belonging to the Euro-American S Lineage
Authors: Malinga Lesibana A. , Abeel Thomas , Desjardins Christopher A. , Dlamini Talent C. , Cassell Gail , Chapman Sinéad B. , Birren Bruce W. , Earl Ashlee M. , van der Walt Martie 
Published: March 2016

ABSTRACT
We report the whole-genome sequencing of two extensively drug-resistant tuberculosis strains belonging to the Euro-American S lineage. The RSA 114 strain showed single-nucleotide polymorphisms predicted to have drug efflux activity.
Petroleum systems asymmetry across the South Atlantic Equatorial Margins
Authors: Dickson William , Schiefelbein Craig F. , Odegard Mark E. , Zumberge John E. 
Published: March 2016

Abstract
We describe an examination of two lines of evidence, tectono-structural evolution and hydrocarbon geochemistry, of asymmetric opening of the Atlantic Equatorial Margin. Our structural mapping used compilations of geophysical data and a review of both published literature and oil company public presentations. Geochemically, we accessed regional non-exclusive oil studies of the conjugate margins of Africa and South America, plus considerable published material. A group of non-exclusive oils was refined to 286, which clustered into five families, all represented along the NE Brazil margin but only one along the West African Transform (WAT) margin. Multiple lacustrine-sourced oils were seen around the South Atlantic, including NE Brazil, but a rich, oil-prone lacustrine source was not indicated offshore Ivory Coast and Ghana. Despite minor evidence of mixed source, possibly lacustrine stringers within an alluvial to marine setting, the predominant source is marine Cretaceous (Cenomanian–Turonian and possibly Albian). We find that opening asymmetry (a) biased the location of lacustrine (Early to mid-Cretaceous prerift to early synrift) source rocks to the NE Brazil margin and (b) locally narrowed the width of the optimal marine (Mid-Late Cretaceous postrift) WAT Margin source kitchens. Burial of the latter has aggravated the risk of late charge from light (condensate and gas) hydrocarbons.
Genomic Profiling of Pediatric Acute Myeloid Leukemia Reveals a Changing Mutational Landscape from Disease Diagnosis to Relapse
Authors: Farrar Jason E. , Schuback Heather L. , Ries Rhonda E. , Wai Daniel , Hampton Oliver A. , Trevino Lisa R. , Alonzo Todd A. , Guidry Auvil Jaime M. , Davidsen Tanja M. , Gesuwan Patee , Hermida Leandro , Muzny Donna M. , Dewal Ninad , Rustagi Navin , Lewis Lora R. , Gamis Alan S. , Wheeler David A. , Smith Malcolm A. , Gerhard Daniela S. , Meshinchi Soheil 
Published: March 2016

AbstractThe genomic and clinical information used to develop and implement therapeutic approaches for acute myelogenous leukemia (AML) originated primarily from adult patients and has been generalized to patients with pediatric AML. However, age-specific molecular alterations are becoming more evident and may signify the need to age-stratify treatment regimens. The NCI/COG TARGET-AML initiative used whole exome capture sequencing (WXS) to interrogate the genomic landscape of matched trios representing specimens collected upon diagnosis, remission, and relapse from 20 cases of de novo childhood AML. One hundred forty-five somatic variants at diagnosis (median 6 mutations/patient) and 149 variants at relapse (median 6.5 mutations) were identified and verified by orthogonal methodologies. Recurrent somatic variants [in (greater than or equal to) 2 patients] were identified for 10 genes (FLT3, NRAS, PTPN11, WT1, TET2, DHX15, DHX30, KIT, ETV6, KRAS), with variable persistence at relapse. The variant allele fraction (VAF), used to measure the prevalence of somatic mutations, varied widely at diagnosis. Mutations that persisted from diagnosis to relapse had a significantly higher diagnostic VAF compared with those that resolved at relapse (median VAF 0.43 vs. 0.24, P &lt; 0.001). Further analysis revealed that 90% of the diagnostic variants with VAF &gt;0.4 persisted to relapse compared with 28% with VAF &lt;0.2 (P &lt; 0.001). This study demonstrates significant variability in the mutational profile and clonal evolution of pediatric AML from diagnosis to relapse. Furthermore, mutations with high VAF at diagnosis, representing variants shared across a leukemic clonal structure, may constrain the genomic landscape at relapse and help to define key pathways for therapeutic targeting. Cancer Res; 76(8); 2197–205. ©2016 AACR.
Pathway Analysis of Genome-wide Association Study in Childhood Leukemia among Hispanics
Authors: Hsu Ling-I , Briggs Farren , Shao Xiaorong , Metayer Catherine , Wiemels Joseph L. , Chokkalingam Anand P. , Barcellos Lisa F. 
Published: March 2016

Abstract
Background: The incidence of acute lymphoblastic leukemia (ALL) is nearly 20% higher among Hispanics than non-Hispanic Whites. Previous studies have shown evidence for association between risk of ALL and variation within IKZF1, ARID5B, CEBPE, CDKN2A, GATA3, and BM1-PIP4K2A genes. However, variants identified only account for &lt;10% of the genetic risk of ALL.
Methods: We applied pathway-based analyses to genome-wide association study (GWAS) data from the California Childhood Leukemia Study to determine whether different biologic pathways were overrepresented in childhood ALL and major ALL subtypes. Furthermore, we applied causal inference and data reduction methods to prioritize candidate genes within each identified overrepresented pathway, while accounting for correlation among SNPs.
Results: Pathway analysis results indicate that different ALL subtypes may involve distinct biologic mechanisms. Focal adhesion is a shared mechanism across the different disease subtypes. For ALL, the top five overrepresented Kyoto Encyclopedia of Genes and Genomes pathways include axon guidance, protein digestion and absorption, melanogenesis, leukocyte transendothelial migration, and focal adhesion (PFDR &lt; 0.05). Notably, these pathways are connected to downstream MAPK or Wnt signaling pathways which have been linked to B-cell malignancies. Several candidate genes for ALL, such as COL6A6 and COL5A1, were identified through targeted maximum likelihood estimation.
Conclusions: This is the first study to show distinct biologic pathways are overrepresented in different ALL subtypes using pathway-based approaches, and identified potential gene candidates using causal inference methods.
Impact: The findings demonstrate that newly developed bioinformatics tools and causal inference methods can provide insights to furthering our understanding of the pathogenesis of leukemia. Cancer Epidemiol Biomarkers Prev; 25(5); 815–22. ©2016 AACR.
Impact of Pre-analytic Blood Sample Collection Factors on Metabolomics
Authors: Townsend Mary K. , Bao Ying , Poole Elizabeth M. , Bertrand Kimberly A. , Kraft Peter , Wolpin Brian M. , Clish Clary B. , Tworoger Shelley S. 
Published: March 2016

Abstract
Background: Many epidemiologic studies are using metabolomics to discover markers of carcinogenesis. However, limited data are available on the influence of pre-analytic blood collection factors on metabolite measurement.
Methods: We quantified 166 metabolites in archived plasma from 423 Health Professionals Follow-up Study and Nurses' Health Study participants using liquid chromatography–tandem mass spectrometry (LC-MS). We compared multivariable-adjusted geometric mean metabolite LC-MS peak areas across fasting time, season of blood collection, and time of day of blood collection categories.
Results: The majority of metabolites (160 of 166 metabolites) had geometric mean peak areas that were within 15% comparing samples donated after fasting 9 to 12 versus ≥13 hours; greater differences were observed in samples donated after fasting ≤4 hours. Metabolite peak areas generally were similar across season of blood collection, although levels of certain metabolites (e.g., bile acids and purines/pyrimidines) tended to be different in the summer versus winter months. After adjusting for fasting status, geometric mean peak areas for bile acids and vitamins, but not other metabolites, differed by time of day of blood collection.
Conclusion: Fasting, season of blood collection, and time of day of blood collection were not important sources of variability in measurements of most metabolites in our study. However, considering blood collection variables in the design or analysis of studies may be important for certain specific metabolites, particularly bile acids, purines/pyrimidines, and vitamins.
Impact: These results may be useful for investigators formulating analysis plans for epidemiologic metabolomics studies, including determining which metabolites to a priori exclude from analyses. Cancer Epidemiol Biomarkers Prev; 25(5); 823–9. ©2016 AACR.
HPV Infection among Sexual Minority Women: Does it Matter How Sexual Orientation Is Measured?
Authors: Reiter PL , McRee AL 
Published: March 2016

Abstract
Background: Sexual minority women are at risk for infection with human papillomavirus (HPV), yet little is known about the prevalence of HPV infection among this population. Further, it is not known how the prevalence of HPV infection might vary based on how sexual orientation is measured and operationalized. Methods: We analyzed data from the 2003–2012 National Health and Nutrition Examination Survey (NHANES) among women ages 20–59 (n = 7,132). We examined two dimensions of sexual orientation for each woman (sexual identity and sexual behavior), as well as multiple operational definitions for each dimension (aggregating sexual minority women into one group and disaggregating sexual minority women into subgroups). Weighted logistic regression models determined how HPV infection outcomes (any HPV type, high-risk HPV type, and vaccine-preventable HPV type) varied by dimension. Results: Similar patterns emerged for sexual identity and sexual behavior. In bivariate analyses, HPV infection outcomes were more common among non-heterosexual women compared to heterosexual women (any type: 49.7% vs. 41.1%; high-risk type: 37.0% vs. 27.9%), as well as among women who reported any same-sex partners compared to women who reported only opposite-sex partners (any type: 55.9% vs. 41.0%; high-risk type: 37.7% vs. 28.2%; vaccine-preventable type: 19.1% vs. 14.0%) (P &lt; 0.05). When we disaggregated dimensions of sexual orientation into subgroups, bisexual women and women who reported partners of both sexes had greater odds of HPV infection outcomes (P &lt; 0.05 in bivariate analyses). Multivariate models attenuated several of these differences, though lesbian women and women who reported only same-sex partners had lower odds of most HPV infection outcomes in multivariate analyses (P &lt; 0.05). Conclusions: HPV infection is common among sexual minority women. However, prevalence estimates vary slightly between sexual orientation dimensions and greatly depending on how a dimension is operationally defined. These findings highlight the importance of measuring sexual orientation in various ways and can help inform targeted HPV and cervical cancer prevention efforts for sexual minority women.
Perspectives from Healthcare Providers and Women about Completing Human Papillomavirus (HPV) Self-Testing at Home
Authors: Zimmermann BJ , Katz ML , Moore D , Paskett ED , Reiter PL 
Published: March 2016

Abstract
Purpose: Cervical cancer (CC) incidence and mortality rates are increased and CC screening rates are low among women living in Ohio Appalachia. Mailing human papillomavirus (HPV) self-tests to women to complete at home is a potential new strategy in the United States to engage women in the CC screening process. Our study sought to understand both providers' and women's perspectives on an HPV self-test that could be mailed to women and how those viewpoints may differ and/or concur. Methods: Focus groups were conducted (2014–2015) among: 1) healthcare providers practicing in four Federally Qualified Health Centers (FQHCs) located in three Ohio Appalachia counties; and 2) women living in Ohio Appalachia. Results: Providers (n = 28) and women (n = 15) were accepting of HPV self-testing, however, the reason for acceptance differed between groups. Providers thought HPV self-testing would increase the possibility that under-screened women would return to the healthcare system, while women thought completing HPV self-tests at home would eliminate logistical/psychological CC screening barriers. Facilitators of completing an HPV self-test at home reported by women included decreased embarrassment, and the time and money saved by avoiding a doctor's appointment. Barriers to completing an HPV self-test at home reported by providers and women included women not being aware of the test, concerns about incorrectly completing the test and potential contamination of the obtained specimen, potential discomfort associated with completing the test, safety of the sample when returning it through the mail, issues associated with communicating test results (timing, channel, findings), and needed follow-up care. Both providers and women stressed the importance of including educational information about HPV and cervical cancer and detailed HPV self-test instructions with the mailed device. Conclusions: Findings provide insights into the facilitators and barriers of completing an HPV self-test at home, returning it, reporting results, and providing needed follow-up care. This information will be useful in developing CC screening programs that include mailed HPV self-tests.
Platelet functional and transcriptional changes induced by intralipid infusion
Authors: Beaulieu Lea , Vitseva Olga , Tanriverdi Kahraman , Kucukural Alper , Mick Eric , Hamburg Naomi , Vita Joseph , Freedman Jane 
Published: March 2016

SummaryMultiple studies have shown the effects of long-term exposure to high-fat or western diets on the vascular system. There is limited knowledge on the acute effects of high circulating fat levels, specifically on platelets, which have a role in many processes, including thrombosis and inflammation. This study investigated the effects of acute, high-fat exposure on platelet function and transcript profile. Twenty healthy participants were given an intravenous infusion of 20% Intralipid emulsion and heparin over 6 hours. Blood samples were taken prior to and the day after infusion to measure platelet function and transcript expression levels. Platelet aggregation was not significantly affected by Intralipid infusion, but, when mitochondria function was inhibited by carbonyl cyanide 3-chlorophenylhydrazone (CCCP) or oligomycin, platelet aggregation was higher in the post-infusion state compared to baseline. Through RNA sequencing, and verified by RT-qPCR, 902 miRNAs and 617 mRNAs were affected by Intralipid infusion. MicroRNAs increased include miR-4259 and miR-346, while miR-517b and miR-517c are both decreased. Pathway analysis identified two clusters significantly enriched, including cell motility. In conclusion, acute exposure to high fat affects mitochondrial-dependent platelet function, as well as the transcript profile.
Recombinant human soluble thrombomodulin and mortality in sepsis-induced disseminated intravascular coagulation
Authors: Yamakawa Kazuma , Saito Shinjiro , Uchino Shigehiko , Kudo Daisuke , Iizuka Yusuke , Sanui Masamitsu , Takimoto Kohei , Mayumi Toshihiko , Ono Kota , Hayakawa Mineji ,   Japan Septic Disseminated Intravascular Coagulation (JSEPTIC DIC) study group
Published: March 2016

SummaryRecombinant human soluble thrombomodulin (rhTM) is a novel class of anticoagulants for treating disseminated intravascular coagulation (DIC). Although rhTM is widely used in clinical settings throughout Japan, there is limited clinical evidence supporting the use of rhTM in patients with sepsis-induced DIC. Furthermore, rhTM is not approved for DIC treatment in other countries. This study aimed to clarify the survival benefits of rhTM administration in critically ill patients. Data from 3,195 consecutive adult patients who were admitted to 42 intensive care units for the treatment of severe sepsis or septic shock between January 2011 and December 2013 were retrospectively analysed, and 1,784 patients were diagnosed with DIC based on the scoring algorithm from the Japanese Association for Acute Medicine DIC (n = 645, rhTM group; n = 1,139, control group). Propensity score matching created 452 matched pairs, and logistic regression analysis revealed a significant association between rhTM administration and lower in-hospital all-cause mortality in the propensity score-matched groups (odds ratio, 0.757; 95 % confidence interval, 0.574–0.999, p = 0.049). Inverse probability of treatment weighted and quintile-stratified analyses also revealed significant associations between rhTM administration and lower in-hospital all-cause mortality. Survival time in the propensity score-matched rhTM group was significantly longer than that in the propensity score-matched control group (hazard ratio, 0.781; 95 % confidence interval, 0.624–0.977, p = 0.03). Bleeding complications were not more frequent in the rhTM groups. In conclusion, this study demonstrated that rhTM administration is associated with reduced in-hospital all-cause mortality among patients with sepsis-induced DIC.
Lipoprotein(a) Levels Are Associated With Subclinical Calcific Aortic Valve Disease in White and Black Individuals
Authors: Cao Jing , Steffen Brian T. , Budoff Matthew , Post Wendy S. , Thanassoulis George , Kestenbaum Bryan , McConnell Joseph P. , Warnick Russell , Guan Weihua , Tsai Michael Y. 
Published: March 2016

Objective—
Lipoprotein(a) [Lp(a)] is a risk factor for calcific aortic valve disease (CAVD) but has not been evaluated across multiple races/ethnicities. This study aimed to determine whether Lp(a) cutoff values used in clinical laboratories to assess risk of cardiovascular disease identify subclinical CAVD and its severity and whether significant relations are observed across race/ethnicity.

Approach and Results—

Lp(a) concentrations were measured using a turbidimetric immunoassay, and subclinical CAVD was measured by quantifying aortic valve calcification (AVC) through computed tomographic scanning in 4678 participants of the Multi-Ethnic Study of Atherosclerosis. Relative risk and ordered logistic regression analysis determined cross-sectional associations of Lp(a) with AVC and its severity, respectively. The conventional 30 mg/dL Lp(a) clinical cutoff was associated with AVC in white (relative risk: 1.56; confidence interval: 1.24–1.96) and was borderline significant (
P
=0.059) in black study participants (relative risk: 1.55; confidence interval: 0.98–2.44). Whites with levels ≥50 mg/dL also showed higher prevalence of AVC (relative risk: 1.72; confidence interval: 1.36–2.17) than those below this level. Significant associations were observed between Lp(a) and degree of AVC in both white and black individuals. The presence of existing coronary artery calcification did not affect these associations of Lp(a) and CAVD. There were no significant findings in Hispanics or Chinese.

Conclusions—
Lp(a) cutoff values that are currently used to assess cardiovascular risk seem to be applicable to CAVD, but our results suggest race/ethnicity may be important in cutoff selection. Further studies are warranted to determine whether race/ethnicity influences Lp(a) and risk of CAVD incidence and its progression.