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in creator/contributor: "Lawrence Berkeley National Laboratory. Life Sciences Division."  
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Laminin and biomimetic extracellular elasticity enhance functional differentiation in mammary epithelia

Description: In the mammary gland, epithelial cells are embedded in a 'soft' environment and become functionally differentiated in culture when exposed to a laminin-rich extracellular matrix gel. Here, we define the processes by which mammary epithelial cells integrate biochemical and mechanical extracellular cues to maintain their differentiated phenotype. We used single cells cultured on top of gels in conditions permissive for {beta}-casein expression using atomic force microscopy to measure the elastici… more
Date: October 20, 2008
Creator: Alcaraz, Jordi; Xu, Ren; Mori, Hidetoshi; Nelson, Celeste M.; Mroue, Rana; Spencer, Virginia A. et al.
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Partner: UNT Libraries Government Documents Department
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Prognostic breast cancer signature identified from 3D culture model accurately predicts clinical outcome across independent datasets

Description: One of the major tenets in breast cancer research is that early detection is vital for patient survival by increasing treatment options. To that end, we have previously used a novel unsupervised approach to identify a set of genes whose expression predicts prognosis of breast cancer patients. The predictive genes were selected in a well-defined three dimensional (3D) cell culture model of non-malignant human mammary epithelial cell morphogenesis as down-regulated during breast epithelial cell a… more
Date: October 20, 2008
Creator: Martin, Katherine J.; Patrick, Denis R.; Bissell, Mina J. & Fournier, Marcia V.
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Partner: UNT Libraries Government Documents Department
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Reconstruction from Uniformly Attenuated SPECT Projection Data Using the DBH Method

Description: An algorithm was developed for the two-dimensional (2D) reconstruction of truncated and non-truncated uniformly attenuated data acquired from single photon emission computed tomography (SPECT). The algorithm is able to reconstruct data from half-scan (180o) and short-scan (180?+fan angle) acquisitions for parallel- and fan-beam geometries, respectively, as well as data from full-scan (360o) acquisitions. The algorithm is a derivative, backprojection, and Hilbert transform (DBH) method, which in… more
Date: March 20, 2008
Creator: Huang, Qiu; You, Jiangsheng; Zeng, Gengsheng L. & Gullberg, Grant T.
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Partner: UNT Libraries Government Documents Department
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The DNA repair endonuclease XPG interacts directly and functionally with the WRN helicase defective in Werner syndrome

Description: XPG is a structure-specific endonuclease required for nucleotide excision repair (NER). XPG incision defects result in the cancer-prone syndrome xeroderma pigmentosum, whereas truncating mutations of XPG cause the severe postnatal progeroid developmental disorder Cockayne syndrome. We show that XPG interacts directly with WRN protein, which is defective in the premature aging disorder Werner syndrome, and that the two proteins undergo similar sub-nuclear redistribution in S-phase and co-localiz… more
Date: April 20, 2011
Creator: Trego, Kelly S.; Chernikova, Sophia B.; Davalos, Albert R.; Perry, J. Jefferson P.; Finger, L. David; Ng, Cliff et al.
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Partner: UNT Libraries Government Documents Department
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Stepwise DNA Methylation Changes Are Linked to Escape from Defined Proliferation Barriers and Mammary Epithelial Cell Immortalization

Description: The timing and progression of DNA methylation changes during carcinogenesis are not completely understood. To develop a timeline of aberrant DNA methylation events during malignant transformation, we analyzed genome-wide DNA methylation patterns in an isogenic human mammary epithelial cell (HMEC) culture model of transformation. To acquire immortality and malignancy, the cultured finite lifespan HMEC must overcome two distinct proliferation barriers. The first barrier, stasis, is mediated by th… more
Date: April 20, 2009
Creator: Novak, Petr; Jensen, Taylor J.; Garbe, James C.; Stampfer, Martha R. & Futscher, Bernard W.
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Partner: UNT Libraries Government Documents Department
open access

A Bayesian Approach for Image Segmentation with Shape Priors

Description: Color and texture have been widely used in image segmentation; however, their performance is often hindered by scene ambiguities, overlapping objects, or missingparts. In this paper, we propose an interactive image segmentation approach with shape prior models within a Bayesian framework. Interactive features, through mouse strokes, reduce ambiguities, and the incorporation of shape priors enhances quality of the segmentation where color and/or texture are not solely adequate. The novelties of … more
Date: June 20, 2008
Creator: Chang, Hang; Yang, Qing & Parvin, Bahram
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Partner: UNT Libraries Government Documents Department
open access

Genome-wide analysis of promoter architecture in Drosophila melanogaster

Description: Core promoters are critical regions for gene regulation in higher eukaryotes. However, the boundaries of promoter regions, the relative rates of initiation at the transcription start sites (TSSs) distributed within them, and the functional significance of promoter architecture remain poorly understood. We produced a high-resolution map of promoters active in the Drosophila melanogaster embryo by integrating data from three independent and complementary methods: 21 million cap analysis of gene e… more
Date: October 20, 2010
Creator: Hoskins, Roger A.; Landolin, Jane M.; Brown, James B.; Sandler, Jeremy E.; Takahashi, Hazuki; Lassmann, Timo et al.
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Partner: UNT Libraries Government Documents Department
open access

The organizing principle: microenvironmental influences in the normal and malignant breast

Description: The current paradigm for cancer initiation and progression rests on the groundbreaking discoveries of oncogenes and tumor suppressor genes. This framework has revealed much about the role of genetic alterations in the underlying signaling pathways central to normal cellular function and to tumor progression. However, it is clear that single gene theories or even sequential acquisition of mutations underestimate the nature of the genetic and epigenetic changes in tumors, and do not account for t… more
Date: August 20, 2002
Creator: Bissell, Mina; Radisky, Derek C.; Rizki, Aylin; Weaver, Valerie M. & Petersen, Ole W.
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Partner: UNT Libraries Government Documents Department
open access

Robust, high-throughput solution structural analyses by small angle X-ray scattering (SAXS)

Description: We present an efficient pipeline enabling high-throughput analysis of protein structure in solution with small angle X-ray scattering (SAXS). Our SAXS pipeline combines automated sample handling of microliter volumes, temperature and anaerobic control, rapid data collection and data analysis, and couples structural analysis with automated archiving. We subjected 50 representative proteins, mostly from Pyrococcus furiosus, to this pipeline and found that 30 were multimeric structures in solution… more
Date: July 20, 2009
Creator: Hura, Greg L.; Menon, Angeli L.; Hammel, Michal; Rambo, Robert P.; Poole II, Farris L.; Tsutakawa, Susan E. et al.
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Partner: UNT Libraries Government Documents Department
open access

Preimplantation genetic diagnosis for gender selection in the United States

Description: Preimplantation genetic diagnosis (PGD) of gender selection for non medical reasons has been considered an unethical procedure by several authors and agencies in the Western society on the basis of disrupting the sex ratio, being discriminatory againsts women and disposal of normal embryos of the non desired gender. In this study, the analysis of a large series of PGD procedures for gender selection from a wide geographical area in the United States, shows that in general there is no deviation … more
Date: August 20, 2009
Creator: Colls, P.; Silver, L.; Olivera, G.; Weier, J.; Escudero, T.; Goodall, N. et al.
Item Type: Refine your search to only Report
Partner: UNT Libraries Government Documents Department
open access

Tissue architecture: the ultimate regulator of breast epithelial function

Description: A problem in developmental biology that continues to take center stage is how higher organisms generate diverse tissues and organs given the same cellular genotype. In cell and tumor biology, the key question is not the production of form, but its preservation: how do tissues and organs maintain homeostasis, and how do cells within tissues lose or overcome these controls in cancer? Undoubtedly, mechanisms that maintain tissue specificity should share features with those employed to drive format… more
Date: October 20, 2003
Creator: Bissell, Mina J; Rizki, Aylin & Mian, Saira
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Partner: UNT Libraries Government Documents Department
open access

Multi-Modality Phantom Development

Description: Multi-modality imaging has an increasing role in the diagnosis and treatment of a large number of diseases, particularly if both functional and anatomical information are acquired and accurately co-registered. Hence, there is a resulting need for multi modality phantoms in order to validate image co-registration and calibrate the imaging systems. We present our PET-ultrasound phantom development, including PET and ultrasound images of a simple prostate phantom. We use agar and gelatin mixed wit… more
Date: March 20, 2009
Creator: Huber, Jennifer S.; Peng, Qiyu & Moses, William W.
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Partner: UNT Libraries Government Documents Department
open access

Visually Relating Gene Expression and in vivo DNA Binding Data

Description: Gene expression and in vivo DNA binding data provide important information for understanding gene regulatory networks: in vivo DNA binding data indicate genomic regions where transcription factors are bound, and expression data show the output resulting from this binding. Thus, there must be functional relationships between these two types of data. While visualization and data analysis tools exist for each data type alone, there is a lack of tools that can easily explore the relationship betwee… more
Date: September 20, 2011
Creator: Huang, Min-Yu; Mackey, Lester; Ker?; nen, Soile V. E.; Weber, Gunther H.; Jordan, Michael I. et al.
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Partner: UNT Libraries Government Documents Department
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