Structural features such as autophagy and nuclear envelope distortions are present in both conditions for CCF-STTG1, consistent with prior observations in LN-18 cells . the CCF-STTG1 Cell Line This file reports the Affymetrix Present/Marginal/Absent calls retrieved from CEL files for GEO DataSet “type”:”entrez-geo”,”attrs”:”text”:”GSM886923″,”term_id”:”886923″GSM886923 for the CCF-STTG1 cell line submitted to the Array Analysis website are along with their PSIDs. NIHMS882819-supplement-11064_2017_2308_MOESM3_ESM.xlsx (23M) GUID:?B33DAAAD-ECA9-4E44-9CD3-7CA9FA754F07 11064_2017_2308_MOESM4_ESM: Online Resource 4. The Present/Marginal/Absent Calls for PSIDs from GEO DataSets “type”:”entrez-geo”,”attrs”:”text”:”GSM397656″,”term_id”:”397656″GSM397656, “type”:”entrez-geo”,”attrs”:”text”:”GSM397657″,”term_id”:”397657″GSM397657 and “type”:”entrez-geo”,”attrs”:”text”:”GSM397658″,”term_id”:”397658″GSM397658 for the Normal Human Astrocyte Cell Line. This file reports the Ensembl Gene IDs and their ‘Present/Marginal/Absent’ calls Mouse monoclonal antibody to Keratin 7. The protein encoded by this gene is a member of the keratin gene family. The type IIcytokeratins consist of basic or neutral proteins which are arranged in pairs of heterotypic keratinchains coexpressed during differentiation of simple and stratified epithelial tissues. This type IIcytokeratin is specifically expressed in the simple epithelia lining the cavities of the internalorgans and in the gland ducts and blood vessels. The genes encoding the type II cytokeratinsare clustered in a region of chromosome 12q12-q13. Alternative splicing may result in severaltranscript variants; however, not all variants have been fully described retrieved from CEL files using the Array Analysis website for GEO DataSets “type”:”entrez-geo”,”attrs”:”text”:”GSM397656″,”term_id”:”397656″GSM397656, “type”:”entrez-geo”,”attrs”:”text”:”GSM397657″,”term_id”:”397657″GSM397657 and “type”:”entrez-geo”,”attrs”:”text”:”GSM397658″,”term_id”:”397658″GSM397658 for normal human astrocytes. NIHMS882819-supplement-11064_2017_2308_MOESM4_ESM.xlsx (888K) GUID:?AB1C383B-429B-45D1-9861-5F769DD74CBB 11064_2017_2308_MOESM5_ESM: Online Resource 5. The Present/Marginal/Absent Calls for PSIDs corresponding to HADb Genes Identified in Microarray Data shown in Online Resources 3 and 4 Data shown here compare the expression of autophagy genes in CCF-STTG1 cells and normal human astrocytes. NIHMS882819-supplement-11064_2017_2308_MOESM5_ESM.xlsx (25K) GUID:?BDCCEAB4-3277-4C78-8234-BDFD5C59289E 11064_2017_2308_MOESM6_ESM: Online Resource 6. Ontological Analysis of HADb Genes with a Present Call This file summarizes the outcomes of DAVID ontological analysis of 181 HADb genes identified in CCF-STTG1 microarray data NIHMS882819-supplement-11064_2017_2308_MOESM6_ESM.xlsx (57K) GUID:?07C81343-28E2-4DCE-9DCA-0485786B38AF 11064_2017_2308_MOESM7_ESM: Online Resource 7. Functional Annotation Clustering and KEGG Pathway Analysis of HADb Genes with a Present Call This file summarizes the outcomes of functional annotation clustering and KEGG pathway analysis conducted using DAVID for 181 HADb genes identified in CCF-STTG1 microarray data. NIHMS882819-supplement-11064_2017_2308_MOESM7_ESM.xlsx (70K) GUID:?112DCF2B-0998-4784-9926-E1C6A4C24F20 11064_2017_2308_MOESM8_ESM: Online Resource 8. qPCR Analyses for Key Autophagy Biomarkers, BECN1 and LC3B This file shows the data for quality assessment of RNA and cDNA and the data for qPCR analysis. NIHMS882819-supplement-11064_2017_2308_MOESM8_ESM.xlsx (2.7M) GUID:?36A58BC5-7962-4853-81AC-7C371416ED88 11064_2017_2308_MOESM9_ESM: Online Resource 9. Analysis of Articles Published Using Glioblastoma Cell Lines in Past 10 Years in PUBMED This file shows the name and donor gender for ATCC glioblastoma cell lines and the number of publications found in PUBMED for each cell line during the past 10 years. NIHMS882819-supplement-11064_2017_2308_MOESM9_ESM.xlsx (39K) MC-VC-PABC-DNA31 GUID:?954E3995-9A4C-4CCC-8D35-D76B358BD350 Abstract Malignant astrocytomas are aggressive cancers of glial origin that can develop into invasive brain tumors. The disease has poor prognosis and high recurrence rate. Astrocytoma cell lines of human origin are an important tool in the experimental pathway from bench to bedside because they afford a convenient intermediate system for analysis of brain cancer pathogenesis and treatment options. We undertook the current study to determine whether hydrogel culture methods could be adapted to support the growth of astrocytoma cell lines, thereby facilitating a system that may be biologically more similar to tumor tissue. Our experimental protocols enabled maintenance of Grade IV astrocytoma cell lines in conventional monolayer culture and in the extracellular matrix hydrogel, Geltrex?. Light and fluorescence microscopy showed that hydrogel environments promoted cellular reorganization from dispersed cells into multilayered aggregates. Transmission electron microscopy revealed the prevalence of autophagy and nuclear membrane distortions in both culture systems. Analysis of microarray Gene Expression Omnibus (GEO) DataSets highlighted expression of genes implicated in pathways for cancer progression and autophagy. A pilot quantitative polymerase chain reaction (qPCR) analysis of the MC-VC-PABC-DNA31 autophagic biomarkers, Beclin 1 (BECN1) and microtubule-associated proteins 1A/1B light chain 3B (MAP1LC3B), with two reference genes (beta actin, ACTB; glyceraldehyde 3-phosphate dehydrogenase, GAPDH), uncovered a relative increase of BECN1 and LC3B in hydrogel cultures of astrocytoma as compared to the monolayer. Taken together, results establish that ultrastructural and molecular characteristics of autophagy are features of this astrocytoma cell line, and that hydrogel culture systems can afford novel opportunities for studies of glioma. models . Cell culture systems offer a cost-effective approach to study complex cellular processes such as migration, differentiation, angiogenesis and tissue folding . Cell culture systems are an essential and easily manipulated tool in the cancer research experimental repertoire. Traditionally, cell culture has been conducted on flat and rigid substrates, which are engineered to allow cell adhesion and propagation in what is known as a two-dimensional (2D) monolayer system. However, cells in tissues and organs grow next to, and on top of one other, in a multilayered three-dimensional (3D) fashion and are surrounded by a complex extracellular matrix as well as diffusible factors . The cells microenvironment plays a critical role in determining cellular morphology and gene expression levels, which in turn can drive cancer progression [8, 9]. There is increasing awareness that 2D monolayer culture systems may not adequately provide predictive MC-VC-PABC-DNA31 data with respect to the response of cells to anti-cancer drugs because they lack the complex tissue organization MC-VC-PABC-DNA31 of the systems [9, 10]. Tissue engineering is a powerful methodology that enables the design of experimental systems to identify treatments for disorders such as cancer, neurodegenerative diseases and cardiovascular diseases . Novel cell culture platforms have been developed using tissue engineering approaches through directed integration of living cells, scaffold materials and essential growth factors . Hydrogel scaffolds are becoming.