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Cold Spring Harbor Symposia on Quantitative Biology

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https://www.readbyqxmd.com/read/28424341/alterations-in-three-dimensional-organization-of-the-cancer-genome-and-epigenome
#1
Joanna Achinger-Kawecka, Phillippa C Taberlay, Susan J Clark
The structural and functional basis of the genome is provided by the three-dimensional (3D) chromatin state. To enable accurate gene regulation, enhancer elements and promoter regions are brought into close spatial proximity to ensure proper, cell type-specific gene expression. In cancer, genetic and epigenetic processes can deregulate the transcriptional program. To investigate whether the 3D chromatin state is also disrupted in cancer we performed Hi-C chromosome conformation sequencing in normal and prostate cancer cells and compared the chromatin interaction maps with changes to the genome and epigenome...
April 19, 2017: Cold Spring Harbor Symposia on Quantitative Biology
https://www.readbyqxmd.com/read/28424340/a-conversation-with-valerie-weaver
#2
(no author information available yet)
No abstract text is available yet for this article.
April 19, 2017: Cold Spring Harbor Symposia on Quantitative Biology
https://www.readbyqxmd.com/read/28424338/a-conversation-with-david-lyden
#3
(no author information available yet)
No abstract text is available yet for this article.
April 19, 2017: Cold Spring Harbor Symposia on Quantitative Biology
https://www.readbyqxmd.com/read/28424336/a-conversation-with-karen-cichowski
#4
(no author information available yet)
No abstract text is available yet for this article.
April 19, 2017: Cold Spring Harbor Symposia on Quantitative Biology
https://www.readbyqxmd.com/read/28424335/a-conversation-with-raghu-kalluri
#5
(no author information available yet)
No abstract text is available yet for this article.
April 19, 2017: Cold Spring Harbor Symposia on Quantitative Biology
https://www.readbyqxmd.com/read/28416577/normal-and-neoplastic-stem-cells
#6
Melissa N McCracken, Benson M George, Kevin S Kao, Kristopher D Marjon, Tal Raveh, Irving L Weissman
A stem cell is broadly defined as a cell that retains the capacity to self-renew, a feature that confers the ability to continuously make identical daughter cells or additional cells that will differentiate into downstream progeny. This highly regulated genetic program to retain "stemness" is under active investigation. Research in our laboratory has explored similarities and differences in embryonic, tissue-specific, and neoplastic stem cells and their terminally differentiated counterparts. In this review, we will focus on the contributions of our laboratory, in particular on the studies that identified the mouse hematopoietic stem cell (HSC) and the human leukemic stem cell...
April 17, 2017: Cold Spring Harbor Symposia on Quantitative Biology
https://www.readbyqxmd.com/read/28416576/pathways-involved-in-formation-of-mammary-organoid-architecture-have-keys-to-understanding-drug-resistance-and-to-discovery-of-druggable-targets
#7
Saori Furuta, Mina J Bissell
Signals from the extracellular matrix (ECM) are received at the cell surface receptor, transmitted to the cytoskeletons, and transferred to the nucleus and chromatin for tissue- and context-specific gene expression. Cells, in return, modulate the cell shape and ECM, allowing for the maintenance of tissue homeostasis as well as for coevolution and adaptation to the environmental signals. We postulated the existence of dynamic and reciprocal interactions between the ECM and the nucleus more than three decades ago, but now these pathways have been proven experimentally thanks to the advances in imaging and cell/molecular biology techniques...
April 17, 2017: Cold Spring Harbor Symposia on Quantitative Biology
https://www.readbyqxmd.com/read/28416575/moving-closer-to-victory
#8
Taru Muranen, Joan S Brugge
No abstract text is available yet for this article.
April 17, 2017: Cold Spring Harbor Symposia on Quantitative Biology
https://www.readbyqxmd.com/read/28408647/composition-and-function-of-mammalian-swi-snf-chromatin-remodeling-complexes-in-human-disease
#9
John L Pulice, Cigall Kadoch
Mammalian SWI/SNF (BAF) chromatin remodeling complexes play critical roles in maintaining chromatin architecture and gene expression. Genomic sequencing efforts over the past several years have unveiled a major role for these complexes in the development of human cancer as well as neurologic disease, prompting the need to interrogate underlying mechanisms and to develop new methods to comprehensively understand mSWI/SNF complex function. Here we discuss the emerging insights from genetic, biochemical, and functional genomic studies in the field and suggest approaches toward further basic investigations, as well as therapeutic targeting of chromatin remodeling machinery...
April 13, 2017: Cold Spring Harbor Symposia on Quantitative Biology
https://www.readbyqxmd.com/read/28404767/a-conversation-with-joan-brugge
#10
(no author information available yet)
No abstract text is available yet for this article.
April 12, 2017: Cold Spring Harbor Symposia on Quantitative Biology
https://www.readbyqxmd.com/read/28396526/a-conversation-with-luis-parada
#11
(no author information available yet)
No abstract text is available yet for this article.
April 10, 2017: Cold Spring Harbor Symposia on Quantitative Biology
https://www.readbyqxmd.com/read/28396524/reexamining-how-cancer-cells-exploit-the-body-s-metabolic-resources
#12
Craig B Thompson, Wilhelm Palm
A key feature of multicellular life is the sharing of nutritional resources by all cells of the organism. In animals, the allocation of nutrients to individual cells is not determined in a cell-autonomous fashion. Instead, growth factor and hormonal signaling pathways have evolved to regulate cellular nutrient uptake, which prevents individual cells from parasitizing the organism's metabolic reserves. Cancer is a condition where the highly ordered regulation of nutrient distribution is disrupted. During carcinogenesis, transformed cells acquire mutations in signaling pathways that render nutrient uptake cell-autonomous...
April 10, 2017: Cold Spring Harbor Symposia on Quantitative Biology
https://www.readbyqxmd.com/read/28389597/explaining-the-paucity-of-intratumoral-t-cells-a-construction-out-of-known-entities
#13
Douglas T Fearon
This essay addresses the question of how tumors escape control by the immune system. The literature strongly points to inadequate accumulation of T cells among cancer cells as being the proximate cause, but this observation has no acceptable explanation as yet. An approach to this problem is adopted wherein the chemokines and chemokine receptors that normally mediate the trafficking of T cells to inflamed tissues are reviewed and considered in the context of their relative levels of expression in a transplanted colorectal tumor model...
April 7, 2017: Cold Spring Harbor Symposia on Quantitative Biology
https://www.readbyqxmd.com/read/28389595/cancer-immunogenomics-computational-neoantigen-identification-and-vaccine-design
#14
Jasreet Hundal, Christopher A Miller, Malachi Griffith, Obi L Griffith, Jason Walker, Susanna Kiwala, Aaron Graubert, Joshua McMichael, Adam Coffman, Elaine R Mardis
The application of modern high-throughput genomics to the study of cancer genomes has exploded in the past few years, yielding unanticipated insights into the myriad and complex combinations of genomic alterations that lead to the development of cancers. Coincident with these genomic approaches have been computational analyses that are capable of multiplex evaluations of genomic data toward specific therapeutic end points. One such approach is called "immunogenomics" and is now being developed to interpret protein-altering changes in cancer cells in the context of predicted preferential binding of these altered peptides by the patient's immune molecules, specifically human leukocyte antigen (HLA) class I and II proteins...
April 7, 2017: Cold Spring Harbor Symposia on Quantitative Biology
https://www.readbyqxmd.com/read/28381439/tumor-stroma-interactions-in-bone-metastasis-molecular-mechanisms-and-therapeutic-implications
#15
Hanqiu Zheng, Wenyang Li, Yibin Kang
Metastasis and associated complications are the major cause of death for cancer patients. The incidence of bone metastasis is among the highest in cancers arising from breast, prostate, and lung. Common skeletal-related events caused by bone metastasis include aberrant bone remodeling (osteolytic, osteoblastic, and mixed), bone pain, fracture, spinal cord compression, and life-threatening hypercalcemia. It is now known that interactions between tumor cells and bone stroma lie at the core of major steps of bone-metastasis progression...
April 5, 2017: Cold Spring Harbor Symposia on Quantitative Biology
https://www.readbyqxmd.com/read/28381438/modeling-breast-cancer-intertumor-and-intratumor-heterogeneity-using-xenografts
#16
Alejandra Bruna, Oscar M Rueda, Carlos Caldas
Breast cancer is a heterogeneous disease that can be stratified in at least 10 different subtypes. We present here a platform for derivation of preclinical models based on patient-derived tumor xenografts (PDTXs) that represent these subgroups. These models preserve the transcriptome, methylome, copy-number, and mutational landscape features of the tumor of origin through different passaging. Furthermore, the intratumoral composition of these models is formed by communities of clones very similar to the ones present in the originating tumor...
April 5, 2017: Cold Spring Harbor Symposia on Quantitative Biology
https://www.readbyqxmd.com/read/28289164/challenges-and-opportunities-in-modeling-pancreatic-cancer
#17
Michael E Feigin, David A Tuveson
The ability to faithfully model complex processes lies at the heart of experimental biology. Although a reductionist approach necessarily reduces this complexity, it is nevertheless required for untangling the contributions and interactions of the various system components. It has long been appreciated that cancer is a complex process that involves positive and negative interactions between tumor cells, normal host tissue, and the associated cells of the tumor microenvironment. However, accurate models for studying these complex interactions in vitro have remained elusive...
March 13, 2017: Cold Spring Harbor Symposia on Quantitative Biology
https://www.readbyqxmd.com/read/28289163/a-conversation-with-susan-clark
#18
(no author information available yet)
No abstract text is available yet for this article.
March 13, 2017: Cold Spring Harbor Symposia on Quantitative Biology
https://www.readbyqxmd.com/read/28289162/a-conversation-with-scott-lowe
#19
(no author information available yet)
No abstract text is available yet for this article.
March 13, 2017: Cold Spring Harbor Symposia on Quantitative Biology
https://www.readbyqxmd.com/read/28280229/dorcas-cummings-lecture
#20
(no author information available yet)
No abstract text is available yet for this article.
March 9, 2017: Cold Spring Harbor Symposia on Quantitative Biology
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