bluuebunny/crossref_metadata_2025_split huggingface dataset:
Enterobacter asburiae KE17 association regulates physiological changes and mitigates the toxic effects of heavy metals in soybean
Authors: Kang S.‐M. , Radhakrishnan R. , You Y.‐H. , Khan A.‐L. , Lee K.‐E. , Lee J.‐D. , Lee I.‐J. 
Published: May 2015

AbstractThis study aimed to elucidate the role played by Enterobacter asburiae KE17 in the growth and metabolism of soybeans during copper (100 μm Cu) and zinc (100 μm Zn) toxicity. When compared to controls, plants grown under Cu and Zn stress exhibited significantly lower growth rates, but inoculation with E. asburiae KE17 increased growth rates of stressed plants. The concentrations of plant hormones (abscisic acid and salicylic acid) and rates of lipid peroxidation were higher in plants under heavy metal stress, while total chlorophyll, carotenoid content and total polyphenol concentration were lower. While the bacterial treatment reduced the abscisic acid and salicylic acid content and lipid peroxidation rate of Cu‐stressed plants, it also increased the concentration of photosynthetic pigments and total polyphenol. Moreover, the heavy metals induced increased accumulation of free amino acids such as aspartic acid, threonine, serine, glycine, alanine, leucine, isoleucine, tyrosine, proline and gamma‐aminobutyric acid, while E. asburiae KE17 significantly reduced concentrations of free amino acids in metal‐affected plants. Co‐treatment with E. asburiae KE17 regulated nutrient uptake by enhancing nitrogen content and inhibiting Cu and Zn accumulation in soybean plants. The results of this study suggest that E. asburiae KE17 mitigates the effects of Cu and Zn stress by reprogramming plant metabolic processes.
Multitasking: Effects of processing multiple auditory feature patterns
Authors: Miller Tova , Chen Sufen , Lee Wei Wei , Sussman Elyse S. 
Published: May 2015

AbstractERPs and behavioral responses were measured to assess how task‐irrelevant sounds interact with task processing demands and affect the ability to monitor and track multiple sound events. Participants listened to four‐tone sequential frequency patterns, and responded to frequency pattern deviants (reversals of the pattern). Irrelevant tone feature patterns (duration and intensity) and respective pattern deviants were presented together with frequency patterns and frequency pattern deviants in separate conditions. Responses to task‐relevant and task‐irrelevant feature pattern deviants were used to test processing demands for irrelevant sound input. Behavioral performance was significantly better when there were no distracting feature patterns. Errors primarily occurred in response to the to‐be‐ignored feature pattern deviants. Task‐irrelevant elicitation of ERP components was consistent with the error analysis, indicating a level of processing for the irrelevant features. Task‐relevant elicitation of ERP components was consistent with behavioral performance, demonstrating a “cost” of performance when there were two feature patterns presented simultaneously. These results provide evidence that the brain tracked the irrelevant duration and intensity feature patterns, affecting behavioral performance. Overall, our results demonstrate that irrelevant informational streams are processed at a cost, which may be considered a type of multitasking that is an ongoing, automatic processing of task‐irrelevant sensory events.
Disseminated lymphoma with large granular lymphocyte morphology diagnosed in a horse via abdominal fluid and transtracheal wash cytology
Authors: Mastrorilli Cinzia , Cesar Fernanda , Joiner Kellye , Wooldridge Anne A. , Christopherson Pete W. 
Published: May 2015

AbstractA 22‐year‐old Tennessee Walking Horse mare was presented to the Auburn University Large Animal Teaching Hospital with a 3‐day history of lethargy, anorexia, and mild signs of colic. The mare had a several‐month history of weight loss and refractory cough. Physical examination revealed an increased respiratory rate, and crackles and wheezes were heard on thoracic auscultation. Thoracic ultrasonographic examination showed disseminated, minor, bilateral comet tail‐like lesions on the parietal pleural surfaces. Abdominal ultrasonographic examination was unremarkable. Trans‐rectal palpation revealed a firm small colon impaction with concomitant diarrhea. Laboratory data were characterized by a very pronounced acute inflammatory leukogram with severe neutropenia and significant left shift, evidence of hepatocellular damage/necrosis, cholestasis, and possibly mixed metabolic alkalosis and acidosis. On cytologic evaluation of a peritoneal fluid sample, there were many large granular lymphocytes (LGL). Large numbers of LGL were also observed on cytologic examination of a subsequent transtracheal wash. The final cytologic interpretation was disseminated lymphoma with LGL morphology. Due to worsening of the clinical signs and poor prognosis, the mare was euthanized. On necropsy and in histopathologic examination, disseminated lymphoma with LGL morphology was noted in a mesenteric lymph node, lungs, liver, spleen, kidneys, and right dorsal colon. Lymphoma with LGL morphology is rarely diagnosed in the horse. This report provides unique cytologic findings of a case of disseminated lymphoma with LGL morphology in a horse, confirmed with histopathologic evaluation.
Propensity of Soot Deposition in a Rectangular Exhaust Gas Recirculation Cooler Using Kalman Filter
Authors: Mirsadraee Alireza , Reza Malayeri M. 
Published: May 2015

Abstract
The detection of fouling in exhaust gas recirculation (EGR) coolers of diesel engines should be fast and accurate. This would facilitate deciding an effective strategy to combat fouling and to prolong the lifetime of EGR coolers. In the present study, the propensity of soot deposition in a rectangular EGR cooler is modeled using Kalman filters. Noises, coherent feature of many deposition processes which can be resulted from measurement sensors such as thermocouples or incidental deposit flake-off, are also considered in the model. The Kalman filter minimizes the estimation error covariance by considering the measurement and process noise covariance matrices while it can simultaneously handle the noisy data. The results are characterized with measurement process noise covariance. The relation between these two defines the smoothness and shape of the estimated trend of fouling resistance. Comparisons of the experimental data and the resultant model confirmed the usefulness of the applied method for various operating conditions of an EGR cooler prone to particulate deposition of soot particles. The paper proceeds with the impact of such models in monitoring fouling and taking an appropriate mitigation approach in diesel engines.
Abstract 1470: The association of miR-21, HER-2/neu, and PTEN expression and clinical outcome of breast cancer
Authors: Lin Hsiao-Ching , Cheng Ya-Wen , Hsu Nan-Yung 
Published: May 2015

Abstract
Objective: Over the last decade, the incidence of breast cancer increased year by year, and the mortality rate is the top of female cancer in Taiwan. Previous study showed that overexpression of miR-21 was associated with recurrence in breast cancer. The aim of this study was to analyze the association of miR-21 expression and clinic pathologic data and to investigate whether the effect of miR-21 through PTEN pathway.
Materials and Methods: A total of 120 female breast cancer patients, who were enrolled at a single medical center in Taichung. MiR-21, PTEN, hormone receptor (estrogen receptor,progesterone receptor) and
HER-2 (human Epidermal Growth Factor Receptor 2) receptor were analyzed by quantitative RT-PCR. The function of invasion and migration of four breast cancer cell lines (T-47D, MDA-MB-231, MCF-7 and BT-474) were analyzed by invasion and migration assay and wound healing assay.
Results: Our data showed that no significantly difference was found between miR-21 and PTEN. MiR-21 expression was positive correlated with HER-2/neu mRNA levels (P=0.038). Patients with high miR-21 level had poor disease-free survival (p=0.047) compared with low miR-21 level patients. In addition, patients with high PTEN level had poor disease-free survival (P=0.024). We also found that patients with miR-21 high/ HER-2/neu high or miR-21 high/ PTEN high had poor disease-free survival (miR-21/HER-2/neu, p=0.009; miR-21/PTEN, p=0.003). Thus, we suggested that the expressions of miR-21, HER-2/neu and PTEN play important roles in prognosis and associated with recurrence in breast cancer. These results were also confirmed in cell model experiments.
Conclusion: In this study, we found that the expression of miR-21, HER-2/neu, and PTEN were associated with the recurrence of breast cancer in Taiwan. Thus, we suggested that the other pathways maybe involved in miR-21 mediated pathogenesis of breast cancer.
Citation Format: Hsiao-Ching Lin, Ya-Wen Cheng, Nan-Yung Hsu. The association of miR-21, HER-2/neu, and PTEN expression and clinical outcome of breast cancer. [abstract]. In: Proceedings of the 105th Annual Meeting of the American Association for Cancer Research; 2014 Apr 5-9; San Diego, CA. Philadelphia (PA): AACR; Cancer Res 2014;74(19 Suppl):Abstract nr 1470. doi:10.1158/1538-7445.AM2014-1470
Abstract 1513: Use of complex oligonucleotide libraries for concurrent high-resolution fluorescence imaging of both DNA and RNA in various sample types
Authors: Ach Robert A. , Tsang Peter , Scheffer-Wong Alicia , Bruhn Laurakay , Powell Weston , Engreitz Jesse , LaSalle Janine , Guttman Mitchell , Yamada Alice 
Published: May 2015

Abstract
Fluorescence in situ Hybridization (FISH) is a powerful technique for determining the localization specific nucleic acid sequences within individual cells. Previously, the use of FISH has often been dependent upon access to cloned template DNA for the generation of probes, which can be difficult if clones for specific regions are unavailable, or if the genomic region of interest contains repetitive and/or other problematic sequences. We have developed the ability to chemically synthesize DNA in massively parallel reactions, which we have used to produce libraries of oligonucleotides up to 200 bases in length that can be utilized for the generation of FISH probes. The sequences of the oligonucleotides in these libraries are selected in silico using empirically determined criteria so as to avoid repetitive elements or regions homologous to other non-targeted loci. We have found that these oligonucleotide library-derived FISH probes can detect human genomic regions as small as 1.8 kb and as large as whole chromosomes in both metaphase and interphase cells, using the same simple assay protocol. Because of the inherent flexibility in our probe design methods, we can readily visualize regions rich in repeats and/or GC content. We have also used these oligonucleotide library-derived FISH probes to detect the localization of a variety of both coding and non-coding RNAs in fixed tissue culture cells and formalin-fixed paraffin-embedded tissue sections, using both conventional fluorescence and structured illumination microscopy. Simultaneous hybridization of FISH probes labeled with different fluorophores enables visualization of multiple sequences at once. Using probes designed specifically to transcribed vs. non-transcribed regions has enabled the simultaneously detect DNA and RNA from the same locus, or from two different loci, in the same FISH assay. The ability to generate high performance FISH probes using chemically synthesized oligo libraries that can simultaneously detect DNA and RNA yields a valuable tool for studies of how localization of specific nucleic acids impacts biological function.
Citation Format: Robert A. Ach, Peter Tsang, Alicia Scheffer-Wong, Laurakay Bruhn, Weston Powell, Jesse Engreitz, Janine LaSalle, Mitchell Guttman, Alice Yamada. Use of complex oligonucleotide libraries for concurrent high-resolution fluorescence imaging of both DNA and RNA in various sample types. [abstract]. In: Proceedings of the 105th Annual Meeting of the American Association for Cancer Research; 2014 Apr 5-9; San Diego, CA. Philadelphia (PA): AACR; Cancer Res 2014;74(19 Suppl):Abstract nr 1513. doi:10.1158/1538-7445.AM2014-1513
Abstract 1529: Ovarian low grade serous cancer: Mutation analysis with a comprehensive 409 cancer gene panel
Authors: Tsang Yvonne T. , Izaguirre Daisy , Kwan Suet-Yan , Mok Samuel C. , Gershenson David , Wong Kwong-Kwok 
Published: May 2015

Abstract
Patients with ovarian serous cancer are usually younger and survive longer than patients with high-grade serous cancer. Unfortunately, most low-grade serous cancer patients eventually die of the disease because recurrent low-grade serous carcinoma is relative chemoresistant. So far, the known mutations identified in low-grade ovarian serous carcinomas and their putative precursor ovarian serous borderline tumors are BRAF and KRAS mutations. BRAF and KRAS mutations together have been identified in approximately 60% of serous borderline tumors and early stage low-grade serous carcinomas. However, BRAF mutation is rare in advanced-stage low-grade serous carcinomas. To further investigate the molecular pathogenesis of low-grade serous carcinoma, mutation analyses of 409 cancer related genes were performed in 21 low-grade ovarian serous carcinoma, 8 ovarian serous borderline tumors and one ovarian cystadenoma using next generation sequencer. A total of nineteen missense mutations were identified in 20 samples but ten samples had no detectable mutations. BRAF mutation was detected in 3 serous borderline tumors and one low-grade serous carcinoma. KRAS mutations were detected in three low-grade serous carcinomas. Other than BRAF and KRAS mutations, we also detected other prevalent mutations: ATRX mutations were detected in 3 low-grade ovarian serous carcinomas and a cystadenoma; KMT2C mutations were detected in 3 low-grade ovarian serous carcinomas; ATM mutations were detected in 2 low-grade ovarian serous carcinomas. Interestingly, both ATRX and MLL3 genes are involved in the chromatin remodeling. Moreover, both ATRX and ATM are involved in DNA damaging response. Thus, the pathogenesis of low-grade serous carcinoma may involve de-regulation of chromatin remodeling pathway and DNA damaging response. Further analysis of a large cohort of low-grade serous carcinomas for these prevalent mutations is ongoing.
Citation Format: Yvonne TM Tsang, Daisy Izaguirre, Suet-Yan Kwan, Samuel C. Mok, David Gershenson, Kwong-Kwok Wong. Ovarian low grade serous cancer: Mutation analysis with a comprehensive 409 cancer gene panel. [abstract]. In: Proceedings of the 105th Annual Meeting of the American Association for Cancer Research; 2014 Apr 5-9; San Diego, CA. Philadelphia (PA): AACR; Cancer Res 2014;74(19 Suppl):Abstract nr 1529. doi:10.1158/1538-7445.AM2014-1529
Abstract 1535: Immunohistochemistry predicts presence and type of TP53 mutation in high-grade serous carcinoma
Authors: Köbel Martin , Piskorz Anna , Liu Shuhong , Brenton James D. 
Published: May 2015

Abstract
TP53 mutations are ubiquitous to ovarian high-grade serous carcinomas (HGSC) but uncommon in other types such as endometrioid carcinomas. Despite the advances in direct sequencing, this technology is not widely available for routine diagnostics. Significant improvements in standardization of immunohistochemistry (IHC) have dramatically improved sensitivity. We hypothesized that the pattern of p53 expression by IHC can predict the presence and group of TP53 mutations: complete absence indicating null mutations versus overexpression indicating missense mutation.
DNA extracted from 91 fresh frozen HGSC samples obtained from the Canadian Ovarian Experimental Unified Resource (COEUR) and from 66 formalin fixed paraffin embedded HGSC samples obtained from Calgary Laboratory Services were sequenced using TAmSeq methods for NGS. Additional Sanger sequencing was performed for confirmation or for identification of indel mutations. Accompanying tissue microarrays with 0.6 mm cores were constructed and immunohistochemistry for p53 was performed on a Leica Bond MAX platform using the DO-7 monoclonal antibody. The expression of p53 was scored in a 3-tier system: complete absence, wild type (any staining from 1-70%), overexpression (&gt;70% strong nuclear staining). Cytoplasmic localization was noted separately.
TP53 mutations were detected in 147/157 HGSC (94%). The type of mutation in descending order were missense 104/147 (71%), frameshift 17/147 (12%), stopgain 13/147 (9%), and splice site 13/147 (13%). 101/104 cases with TP53 missense mutations showed p53 overexpression (98% concordance) while 12/17 cases with frameshift, 11/13 cases with stopgain, and 7/13 with splicing (combined 70% concordance) showed the expected complete absence of p53 expression. The overall sensitivity of p53 IHC to predict the group of mutation was 89% (131/147). Only 6/147 (4%) cases with TP53 mutations showed a p53 wild type pattern, four those were splice site mutations, hence the sensitivity of p53 IHC to predict the presence of mutation is 94%. Interestingly, 7/10 cases with TP53 wild type or synonymous silent mutations showed aberrant p53 expression as either complete absence or overexpression, suggesting alternative abnormalities in the p53 pathway. The three cases with TP53 wild type and p53 wild type expression may not be HGSC.
We conclude that contemporary p53 immunohistochemistry is a useful, widely accessible, inexpensive complimentary test for direct TP53 sequencing.
Citation Format: Martin Köbel, Anna Piskorz, Shuhong Liu, James D. Brenton. Immunohistochemistry predicts presence and type of TP53 mutation in high-grade serous carcinoma. [abstract]. In: Proceedings of the 105th Annual Meeting of the American Association for Cancer Research; 2014 Apr 5-9; San Diego, CA. Philadelphia (PA): AACR; Cancer Res 2014;74(19 Suppl):Abstract nr 1535. doi:10.1158/1538-7445.AM2014-1535
Abstract 1559: TTC36, a novel chaperone of heat shock protein 70, functions as a tumor suppressor in hepatocellular carcinoma
Authors: Jiang Lingxi , Liu Ming , Li Yan , Guan Xinyuan 
Published: May 2015

Abstract
Hepatocellular carcinoma (HCC) is one of the most devastating human diseases characterized by high incidences and mortality rates. However, there is still limited knowledge of molecular mechanisms leading to the development of HCC. By using transcriptome sequencing profiling of non-tumor and HCC samples, a subset of differentially expressed genes have been identified. One of those genes, the TTC36 gene is down-regulated in HCC tissues compared with non-tumor tissues. Reduced expression of TTC36 is correlated with advanced tumor stages and decreased overall survival. Ectopic expression of TTC36 in HCC cells show decreased tumorigenic ability in vitro and vivo function assays. Silencing TTC36 expression with short hairpin RNA had the opposite effects. We had found that TTC36 promoted apoptosis of HCC cells by interacting with heat shock protein 70 and induced the activation of caspases-9, caspase-3 and PARP. Further characterization of TTC36 may provide a novel prognostic biomarker for HCC and shed light on better management of HCC treatment.
Note: This abstract was not presented at the meeting.
Citation Format: Lingxi Jiang, Ming Liu, Yan Li, Xinyuan Guan. TTC36, a novel chaperone of heat shock protein 70, functions as a tumor suppressor in hepatocellular carcinoma. [abstract]. In: Proceedings of the 105th Annual Meeting of the American Association for Cancer Research; 2014 Apr 5-9; San Diego, CA. Philadelphia (PA): AACR; Cancer Res 2014;74(19 Suppl):Abstract nr 1559. doi:10.1158/1538-7445.AM2014-1559
Abstract 1572: Dystrophin Is a tumor suppressor in human cancers with myogenic programs
Authors: Wang Yuexiang , Marino-Enriquez Adrian , Bennett Richard , Zhu Meijun , Eilers Grant , Antonescu Cristina , Fletche Christopher , Raut Chandrajit , Rijn Matt van de , Kunkel Louis , Demetri George , Fletcher Jonathan 
Published: May 2015

Abstract
Many common human mesenchymal tumors, including gastrointestinal stromal tumor (GIST), rhabdomyosarcoma (RMS), and leiomyosarcoma (LMS), feature myogenic differentiation. Although presumptive initiating mutations have been identified in these cancers, the subsequent mechanisms of malignant progression are not known. Here we report that intragenic deletion of the dystrophin-encoding and muscular dystrophy-associated DMD gene is a frequent mechanism by which myogenic tumors progress to high-grade, lethal sarcomas. Genome-wide SNP screens demonstrated DMD intragenic deletions in 23 of 38 myogenic sarcomas (61%) compared to 0 of 58 non-myogenic sarcomas (p &lt; 0.0001). Although DMD is an X-linked gene, somatic DMD deletions affected both sexes equally and DMD deletions in female patients involved the active X chromosome, resulting in functional DMD nullisomy. Dystrophin was expressed strongly in nonneoplastic and benign counterparts for GIST, RMS and LMS, and the DMD deletions in the malignant myogenic sarcomas clustered at the 5′ end of the gene, inactivating larger dystrophin isoforms, including 427kDa dystrophin, while preserving expression of an essential 71kDa isoform (Dp71) which is encoded by the DMD 3′ end. Dystrophin restoration inhibited myogenic sarcoma cell migration, invasion, anchorage independence, and invadopodia formation, and dystrophin inactivation was found in 96%, 100%, and 62% of metastatic GIST, embryonal RMS, and LMS, respectively. The genomic, clinicopathological and functional evidence validate dystrophin as a tumor suppressor and likely anti-metastatic factor, suggesting that therapies in development for muscular dystrophies may also have relevance in treatment of cancer.
Citation Format: Yuexiang Wang, Adrian Marino-Enriquez, Richard Bennett, Meijun Zhu, Grant Eilers, Cristina Antonescu, Christopher Fletche, Chandrajit Raut, Matt van de Rijn, Louis Kunkel, George Demetri, Jonathan Fletcher. Dystrophin Is a tumor suppressor in human cancers with myogenic programs. [abstract]. In: Proceedings of the 105th Annual Meeting of the American Association for Cancer Research; 2014 Apr 5-9; San Diego, CA. Philadelphia (PA): AACR; Cancer Res 2014;74(19 Suppl):Abstract nr 1572. doi:10.1158/1538-7445.AM2014-1572
Abstract 1591: Src is activated in cervical adenocarcinoma
Authors: Nishimura Masato , Tanimura Natsumi , Kawakita Takako , yoshidaa Kanako , Irahara Minoru 
Published: May 2015

Abstract
Src family tyrosine kinases are important factors for cell growth. Src is reported to be activated in ovarian mucinous adenocarcinoma, and correlates with oxaliplatin resistance. Cervical adenocarcinoma is thought to have worse prognosis compared with squamous cell carcinoma due to low response to chemotherapy and radiotherapy. So new therapy has been expected for cervical adenocarcinoma. We examined src expression by immunohistochemistry in cervical adenocarcinoma treated with surgery during 2001 to 2011 and association with clinico pathological findings. 36 invasive cancers and 1 adenocarcinoma in situ (AIS) and 12 normal cervical glands were examined. In invasive cancer, src was activated in 16/36 (44%) cases, especially in 9/15 (60%) of mucinous type. Src was also activated in AIS, but not in normal cervical glands. The frequency of parametrial invasion and lymphnode metastasis in Src positive and negative cases were 1/15 (7%) versus 1/18 (6%) and 2/15 (13%) versus 3/20 (15%) in respectively. There were no statistical differences between src positive and negative cases. 3 cases in src positive and 1 case in src negative recurred. Moreover, src was activated in I case of AIS, but not activated in adjacent normal gland. In summary, src activation is an early event in the carcinogenesis of cervical adenocarcinoma, and has possibility to be a new target in the treatment of cervical adenocarcinoma.
Citation Format: Masato Nishimura, Natsumi Tanimura, Takako Kawakita, Kanako yoshidaa, Minoru Irahara. Src is activated in cervical adenocarcinoma. [abstract]. In: Proceedings of the 105th Annual Meeting of the American Association for Cancer Research; 2014 Apr 5-9; San Diego, CA. Philadelphia (PA): AACR; Cancer Res 2014;74(19 Suppl):Abstract nr 1591. doi:10.1158/1538-7445.AM2014-1591