bluuebunny/crossref_metadata_2025_split huggingface dataset:
JMJD2A contributes to breast cancer progression through transcriptional repression of the tumor suppressor ARHI
Authors: Li Li-Liang , Xue Ai-Min , Li Bei-Xu , Shen Yi-Wen , Li Yu-Hua , Luo Cheng-Liang , Zhang Ming-Chang , Jiang Jie-Qing , Xu Zu-De , Xie Jian-Hui , Zhao Zi-Qin 
Published: May 2014

Abstract
Introduction
Breast cancer is a worldwide health problem and the leading cause of cancer death among females. We previously identified Jumonji domain containing 2A (JMJD2A) as a critical mediator of breast cancer proliferation, migration and invasion. We now report that JMJD2A could promote breast cancer progression through transcriptional repression of the tumor suppressor aplasia Ras homolog member I (ARHI).

Methods
Immunohistochemistry was performed to examine protein expressions in 155 cases of breast cancer and 30 non-neoplastic tissues. Spearman correlation analysis was used to analyze the correlation between JMJD2A expression and clinical parameters as well as several tumor regulators in 155 cases of breast cancer. Gene and protein expressions were monitored by quantitative polymerase chain reaction (qPCR) and Western blot. Results from knockdown of JMJD2A, overexpression of JMJD2A, Co-immunoprecipitation (Co-IP) assay, dual luciferase reporter gene assay and chromatin immunoprecipitation (ChIP) elucidated molecular mechanisms of JMJD2A action in breast cancer progression. Furthermore, the effects of ARHI overexpression on JMJD2A-mediated tumor progression were investigated in vitro and in vivo. For in vitro experiments, cell proliferation, wound-healing, migration and invasion were monitored by cell counting, scratch and Boyden Chamber assays. For in vivo experiments, control cells and cells stably expressing JMJD2A alone or together with ARHI were inoculated into mammary fat pads of mice. Tumor volume, tumor weight and metastatic nodules were measured by caliper, electronic balance and nodule counting, respectively.

Results
JMJD2A was highly expressed in human breast cancers and positively correlated with tumor progression. Knockdown of JMJD2A increased ARHI expression whereas overexpression of JMJD2A decreased ARHI expression at both protein and mRNA levels. Furthermore, E2Fs and histone deacetylases were involved in the transcriptional repression of ARHI expression by JMJD2A. And the aggressive behavior of JMJD2A in breast cancers could be reversed by re-expression of ARHI in vitro and in vivo.

Conclusion
We demonstrated a cancer-promoting effect of JMJD2A and defined a novel molecular pathway contributing to JMJD2A-mediated breast cancer progression.
SoxNeuro orchestrates central nervous system specification and differentiation in Drosophila and is only partially redundant with Dichaete
Authors: Ferrero Enrico , Fischer Bettina , Russell Steven 
Published: May 2014

Abstract
Background
Sox proteins encompass an evolutionarily conserved family of transcription factors with critical roles in animal development and stem cell biology. In common with vertebrates, the Drosophila group B proteins SoxNeuro and Dichaete are involved in central nervous system development, where they play both similar and unique roles in gene regulation. Sox genes show extensive functional redundancy across metazoans, but the molecular basis underpinning functional compensation mechanisms at the genomic level are currently unknown.

Results
Using a combination of genome-wide binding analysis and gene expression profiling, we show that SoxNeuro directs embryonic neural development from the early specification of neuroblasts through to the terminal differentiation of neurons and glia. To address the issue of functional redundancy and compensation at a genomic level, we compare SoxNeuro and Dichaete binding, identifying common and independent binding events in wild-type conditions, as well as instances of compensation and loss of binding in mutant backgrounds.

Conclusions
We find that early aspects of group B Sox functions in the central nervous system, such as stem cell maintenance and dorsoventral patterning, are highly conserved. However, in contrast to vertebrates, we find that Drosophila group B1 proteins also play prominent roles during later aspects of neural morphogenesis. Our analysis of the functional relationship between SoxNeuro and Dichaete uncovers evidence for redundant and independent functions for each protein, along with unexpected examples of compensation and interdependency, thus providing new insights into the general issue of transcription factor functional redundancy.
Lentiviral and targeted cellular barcoding reveals ongoing clonal dynamics of cell lines in vitro and in vivo
Authors: Porter Shaina N , Baker Lee C , Mittelman David , Porteus Matthew H 
Published: May 2014

Abstract
Background
Cell lines are often regarded as clonal, even though this simplifies what is known about mutagenesis, transformation and other processes that destabilize them over time. Monitoring these clonal dynamics is important for multiple areas of biomedical research, including stem cell and cancer biology. Tracking the contributions of individual cells to large populations, however, has been constrained by limitations in sensitivity and complexity.

Results
We utilize cellular barcoding methods to simultaneously track the clonal contributions of tens of thousands of cells. We demonstrate that even with optimal culturing conditions, common cell lines including HeLa, K562 and HEK-293 T exhibit ongoing clonal dynamics. Starting a population with a single clone diminishes but does not eradicate this phenomenon. Next, we compare lentiviral and zinc-finger nuclease barcode insertion approaches, finding that the zinc-finger nuclease protocol surprisingly results in reduced clonal diversity. We also document the expected reduction in clonal complexity when cells are challenged with genotoxic stress. Finally, we demonstrate that xenografts maintain clonal diversity to a greater extent than in vitro culturing of the human non-small-cell lung cancer cell line HCC827.

Conclusions
We demonstrate the feasibility of tracking and quantifying the clonal dynamics of entire cell populations within multiple cultured cell lines. Our results suggest that cell heterogeneity should be considered in the design and interpretation of in vitro culture experiments. Aside from clonal cell lines, we propose that cellular barcoding could prove valuable in modeling the clonal behavior of heterogeneous cell populations over time, including tumor populations treated with chemotherapeutic agents.
Defects in the synthetic pathway prevent DIF-1 mediated stalk lineage specification cascade in the non-differentiating social amoeba, Acytostelium subglobosum
Authors: Mohri Kurato , Hata Takashi , Kikuchi Haruhisa , Oshima Yoshiteru , Urushihara Hideko 
Published: May 2014

ABSTRACT
Separation of somatic cells from germ-line cells is a crucial event for multicellular organisms, but how this step was achieved during evolution remains elusive. In Dictyostelium discoideum and many other dictyostelid species, solitary amoebae gather and form a multicellular fruiting body in which germ-line spores and somatic stalk cells differentiate, whereas in Acytostelium subglobosum, acellular stalks form and all aggregated amoebae become spores. In this study, because most D. discoideum genes known to be required for stalk cell differentiation have homologs in A. subglobosum, we inferred functional variations in these genes and examined conservation of the stalk cell specification cascade of D. discoideum mediated by the polyketide differentiation-inducing factor-1 (DIF-1) in A. subglobosum. Through heterologous expression of A. subglobosum orthologs of DIF-1 biosynthesis genes in D. discoideum, we confirmed that two of the three genes were functional equivalents, while DIF-methyltransferase (As-dmtA) involved at the final step of DIF-1 synthesis was not. In fact, DIF-1 activity was undetectable in A. subglobosum lysates and amoebae of this species were not responsive to DIF-1, suggesting a lack of DIF-1 production in this species. On the other hand, the molecular function of an A. subglobosum ortholog of DIF-1 responsive transcription factor was equivalent with that of D. discoideum and inhibition of polyketide synthesis caused developmental arrest in A. subglobosum, which could not be rescued by DIF-1 addition. These results suggest that non-DIF-1 polyketide cascades involving downstream transcription factors are required for fruiting body development of A. subglobosum.
Helix-sense-selective Degradation of Poly[4-dodecyloxy-3,5-bis(hydroxymethyl)phenylacetylene] by Selective Photocyclic Aromatization (SCAT) Using Circularly Polarized Light (CPL)
Authors: Miyata Mari , Teraguchi Masahiro , Endo Hiromichi , Kaneko Takashi , Aoki Toshiki 
Published: May 2014

Abstract
Helix-sense-selective photodegaradation of poly[4-dodecyloxy-3,5-bis(hydroxymethyl)phenylacetylene] (poly(DoDHPA)) in membrane state was achieved by selective photocyclic aromatization (SCAT) using single-handed circularly polarized light (CPL). This is the first example of kinetic optical resolution of helical polymers by using CPL.
Synthesis of Bio-based Monomer from Vegetable Oil Fatty Acids and Design of Functionalized Greener Polyester
Authors: Rahim Noor Farisha Abd , Watanabe Kohtaro , Ariffin Hidayah , Andou Yoshito , Hassan Mohd Ali , Shirai Yoshihito 
Published: May 2014

Abstract
In order to design sustainable materials from vegetable oil-based fatty acids, we propose herewith a method to obtain unsaturated dicarboxylic acids as a polymerizable monomer through metathesis reaction of oleic and linoleic acids with the 2nd generation Grubbs catalyst. Subsequently, functional green polyester was produced from dicarboxylic acids and aromatic diol. Dicarboxylic acid having similar structure i.e., octadec-9-enedioic acid was successfully obtained from metathesis of both oleic and linoleic acids. Condensation polymerization of octadec-9-enedioic acid with 1,6-hexanediol and 4,4′-biphenol was carried out and it was shown that polymer with aromatic backbone had higher glass-transition temperature than aliphatic polyester.
Approximating Sparse Covering Integer Programs Online
Authors: Gupta Anupam , Nagarajan Viswanath 
Published: May 2014

A covering integer program (CIP) is a mathematical program of the form min{c⊤ x ∣ Ax ≥ 1, 0 ≤ x ≤ u, x ∈ ℤn}, where all entries in A, c, u are nonnegative. In the online setting, the constraints (i.e., the rows of the constraint matrix A) arrive over time, and the algorithm can only increase the coordinates of x to maintain feasibility. As an intermediate step, we consider solving the covering linear program (CLP) online, where the integrality constraints are dropped. Our main results are (a) an O(log k)-competitive online algorithm for solving the CLP, and (b) an O(log k · log l)-competitive randomized online algorithm for solving the CIP. Here k ≤ n and l ≤ m respectively denote the maximum number of nonzero entries in any row and column of the constraint matrix A. Our algorithm is based on the online primal-dual paradigm, where a novel ingredient is to allow dual variables to increase and decrease throughout the course of the algorithm. It is known that this result is the best possible for polynomial-time online algorithms, even in the special case of set cover (where all entries in A, c, and u are 0 or 1.
Psychological experiences and quality of life in patients awaiting coronary artery bypass graft
Authors: Al-Hassan Mousa , Ahmed Samira , Akhu-Zahea Laila , Hayudini Jahara 
Published: May 2014

Background: Coronary artery bypass graft surgery improves quality of life and survival rates. However, prolonged waits for this surgery are inevitable in countries having nationalized healthcare systems. Although no significant decline in the waiting times for this surgery has been demonstrated, recent research in psychological experiences of the patients is lacking Objectives: 1) To describe psychological experiences, anxiety and uncertainty, and quality of life in Omani patients awaiting coronary artery bypass graft. 2) To examine the significance of sociodemographics, health characteristics and the waiting time in predicting anxiety and uncertainty. 3) To examine the independent effect of anxiety and uncertainty in predicting quality of life of the patients. Methods: This study used a cross-sectional design. To obtain the required information, two nurses interviewed a convenience sample of hospitalized patients for coronary artery bypass graft (N = 84) between May 2011 and June 2012. Three regression analyses were used to identify significant predictors of anxiety, uncertainty and quality of life. Results: Literate patients and those with infrequent hospital admissions were more likely to experience high levels of anxiety, whereas, patients without myocardial infarction but having hypertension, and those who waited for the surgery 60 days or less were more likely to report greater uncertainty. Exercising regularly, low family monthly income and short duration since diagnosis with coronary artery disease significantly predicted better quality of life Conclusion: Physiological disruptions and concomitant chronic illnesses have significant effects on the psychological experiences and quality of life of the patients. Keywords: Anxiety, Coronary Artery Bypass Graft, Quality Of Life, Uncertainty, Waiting Time.
Factors effecting on involvement of nurse leaders in policy making for nursing in Iran: a qualitative study
Authors: Aarabi Akram , Cheraghi Mohammad Ali , Ghiyasvandian Shahrzad 
Published: May 2014

Background: During recent years involvement of Iranian nurse leaders in policy making for nursing has been increased, but still there are many disputations about policy making for nursing in Iran. Objectives: This study intended to explore and describe factors effecting on Involvement of nurse leaders in policy making for nursing in Iran. Method: A qualitative design involving face-to-face, semi-structured interviews by 20 nurse leaders and physicians who had key positions in policy making for nursing had been audio taped and transcribed. Using a conventional content analysis approach, data were analyzed. Results: After open coding and categorizing data three main categories created; include: performance of nurses and nurse leaders; opportunities face to nurse leaders; and conditions governing the healthcare system. Conclusion: Some factors effecting involvement of nurse leaders in policy making for nursing in Iran do not have wide differences with other studies in this field. Although many factors had been mentioned in this study, frequency of codes showed that performance of nurses and nurse leaders acted as a barrier and have had the most effects on involvement. Meanwhile, despite the obstacles, there are abundant opportunities before nurse leaders to making policies and they should apply them to modify these obstacles. Keywords: Health System, Involvement, Iran, Nurse Leaders, Policy Making.
Experimental Method to Study the Effects of Fabric Anisotropy on Elastic Shear Modulus of Sand
Authors: Li Bo , Zeng Xiangwu , Ming Haiyan 
Published: May 2014

Abstract
Fabric anisotropy of a granular soil may strongly influence its engineering properties and behavior. This paper presents the results of a new experimental study designed to measure the anisotropic shear moduli by simulating fabric anisotropy. Piezoelectric transducers were used to obtain the elastic shear modulus in vertical, horizontal, and 45° inclined planes (Gvh, Ghh, Gαh) of samples prepared by 0°, 45°, and 90° deposition angles. The measurements show a significant difference of G in these planes in soil samples because of the fabric anisotropy.
RNA-Guided Genome Editing in Drosophila with the Purified Cas9 Protein
Authors: Lee Jeong-Soo , Kwak Su-Jin , Kim Jungeun , Kim Ae-Kyeong , Noh Hae Min , Kim Jin-Soo , Yu Kweon 
Published: May 2014

Abstract
We report a method for generating Drosophila germline mutants effectively via injection of the complex of the purified Cas9 protein, tracrRNA, and gene-specific crRNAs, which may reduce delayed mutations because of the transient activity of the Cas9 protein, combined with the simple mutation detection in GO founders by the T7E1 assay.
Islamic Inheritance Law in Indonesia: The Influence of Hazairin's Theory of Bilateral Inheritance
Authors: Cammack Mark 
Published: May 2014

This article presents a relatively detailed account of Hazairin's theory that the Qur'an and the Traditions of the Prophet support what he refers to as a bilateral system of Islamic inheritance law. The second part of the article then examines recent developments in Islamic inheritance law in Indonesia, and argues that the law is moving, albeit slowly and tentatively, in the direction of an implementation of Hazairin's ideas.DOI: 10.15408/sdi.v10i1.639
Fiqh, Women and Human Rights: Competing Methodologies
Authors: Ahmad Ajmand 
Published: May 2014

This paper attempts to, firstly, examine in some depth various writers' investigations into Islam, women and human rights. Secondly, and more importantly, it attemps provide a clear conceptual framework within which to articulate a foundation for the subject in the future. Such a re-conceptualisation is necessary to anchor future attempts at law reform within an Islamic jurisprudential heritage. By re-locating the debate within the Islamic heritage, any articulation of human rights and Muslim women will have the authority of a fiqh-inspired methodology. For muslim women engaged in the struggle for human rights, such a strategy will be more successful than either employing secular "Western" feminist discourse or by claiming the right to interpret the original Islamic sources whilst ignoring fiqh history, methodology and terminology.DOI: 10.15408/sdi.v10i1.640
Islamic Contracts of Finance in Malaysia
Authors: Richards Matt 
Published: May 2014

This paper explores the legal issues that arise in several of the principal instruments currently used in Islamic financing in Malaysia. Through the document review, it is submitted that these financial instruments consist of English-Malaysian commercial law, albeit set within an Islamic periphery. A consideration of how Islamic law could affect the litigation of these instruments is also undertaken and it is further submitted that given the current statutory and judicial framework of Islamic banking in Malaysia, the effect of Islamic commercial law upon these contracts appears to be morally exhortative, rather than legally enforceable. Finally, it is concluded that Islamic law is presently consigned to the margins of these financial contracts, and the consequences that arise from this conclusion are discussed.DOI: 10.15408/sdi.v10i1.641
2002 Mount Beauty Workshop on Islam in Indonesia: Report
Authors: Hooker Virginia , Ricklefs M.C. 
Published: May 2014

The workshop invited each candidate to present her or his topic to colleagues. There followed debate and discussion about the topics, about conceptual complexities, and about the way in which the research of others shed light on each individual topic. Most of the students were at early stages of research (mostly in the first year of candidature), but three were at final stages (Syafi'i Anwar, Fatimah Husein and Saliy White). One candidate, Mohamad Hafiz, is working on the Syariah Court of Singapore. The discussions were vigorous and of great help to all participants.DOI: 10.15408/sdi.v10i1.642
Revelation in a Modern nation State: Muhammadiyah and Islamic Legal Reasoning in Indonesia
Authors: Hosen Nadirsyah 
Published: May 2014

This article examines the attempt by Muhammadiyah to respond to the issue of returning to the primary sources -the Qur'an and the hadith -to resolve modern problems. The focus will be on the concept, method and source of ijtihad (legal reasoning) used by Muhammadiyah. The author will argue that Muhammadiyah faces several problems in formulating a method to reinterpret the Qur'an and the hadith and these will be critically analysed.DOI: 10.15408/sdi.v10i1.643
Violence under the Banner of Religion: The Case of Laskar Jihad and Laskar Kristus
Authors: Mulyadi Sukidi 
Published: May 2014

In the course of its history, religion has had a dual function in plural societies. Many scholars and religious leaders agree that religion has had a role in fostering peace, harmony and civility. However, other scholars see religion as a source of conflict and violence. The latter view is supported by numerous incidents of religious violence around the world. The work of Juergensmeyer for example, clearly shows how violence has occurred and spread under the banners of all religions.DOI: 10.15408/sdi.v10i2.631
Al-Islām wa Fatānīyūn fī Taylānd: Taḥaddīyat al-Māḍī wa Taṭallu’āt al-Mustaqbal
Authors: Ya'qub A. Ghani 
Published: May 2014

This article presents abroad discussion on the history of lslam in Patani. This discussion, which relies heavily on local sources of information, also provides an explanation of the various factors that have influenced the formation of the Patani Muslim community's culture, including social, economic and political elements.DOI: 10.15408/sdi.v10i2.633
Reinforcing Neo-Sufism in the Malay-Indonesian World: Shaṭṭārīyah Order in West Sumatra
Authors: Fathurahman Oman 
Published: May 2014

The article looks at the dynamics and developments in Neo-Sufist teachings from the 19th century until the mid-20th century, using the Shattariyyah order in West Sumatra as a case study. Along with looking at the spread of the Shattariyyah order in West Sumatra by way of Shaikh Burhanuddin Ulakan, a key figure in the order, this discussion will also focus on how Shattariyyah spread in this region, what changes took place in terms of the teachings of neo-Sufism, especially during the later period (19th and 20th centuries), and the nature of the Shattariyyah teacher- student silsilah (genealogy) in West Sumatra.DOI: 10.15408/sdi.v10i3.623
The Penyengat School: A Review of the Intellectual Tradition in the Malay-Riau Kingdom
Authors: Palawa Alimuddin Hassan 
Published: May 2014

The articles in al-Imam strongly influenced its readers not only in Riau, but also in Minangkabau and Malaysia. In response to the cultural background of the traditionalist and conservative Malay community, the magazine voiced the spirit of Islamic reform. For example, one of its contributors, ai-Hadi, stressed the urgency of education and reform for the Malay community, and fought strongly for practices not regarded as everyday Islam. Due to its broad reaching influence, the magazine played a pivotal role in the realization and continuation of religious and intellectual reform in Indonesia.DOI: 10.15408/sdi.v10i3.624
Al-Shabakah al-Tijārīyah li al-Sulṭanah al-Indūnīsīyah fī Qarn 15-17 M
Authors: Tjandrasasmita Uka 
Published: May 2014

This article concerns the trade networks of the lndonesian Sultanates in the 15-78 centuries A.D. The growth and development of the trade networks was closely connected to the process of navigation and the development of sen-routes. Due to the geographical nature of the Indonesian Archipelago, trade networks were developed by people living in the area. Important research into lndonesian history from a socio-economic approach, particularly in relation to trade, has been carried out by J.C. van Leur, O.W. Wolters, Meilink Roelofsz, Rita Rose Di Meglio, amongst others. Their opinions on particular issues have been used to support the historical facts related to the topic of this article.DOI: 10.15408/sdi.v10i3.625
Niqāt al-Iltiqā’ bayn Madhhad al-Taḥdīth al-Jadīd wa al-Ittijāh al-Taqlīdī al-Mutaṭawwir al-Judhūr al-Ma’rifīyah li Madhhab al-Jawharīyah al-Islāmīyah wa Intishāruhāfī Indūnīsīyā
Authors: Ala Abdul 
Published: May 2014

The roots of neos-modernism- a school of thought in Islam that was succesfull in Indonesia in the 1980s-strongly relate to Islamic liberalism. This reality requires us to link recent discussions about liberal Islamic discourse with discussions on neo-modernism. The issue modernism must be addressed, because it is able to attract the attention of leaders of the Islamic community from various school of thought.DOI: 10.15408/sdi.v11i1.654