GIS Tools for 3-D Surficial Mapping in Ohio

This poster was presented at the 2007 meeting of the Digital Mapping Techniques Conference in Columbia, South Carolina, May 20-23, 2007.The Ohio Department of Natural Resources, Division of Geological Survey is currently mapping the surficial geology of Ohio in three dimensions (3-D) using a modified version of the stack-mapping technique of Kempton (1981). The stack-mapping technique depicts the geology for an area in 3-D by listing the unconsolidated (mostly glacial) geologic units from the surface to bedrock, the thickness of each unit, and the underlying bedrock unit. The new mapping of the surficial geology is intended to replace the older and smaller-scale mapping that was based upon generalized, two-dimensional mapping techniques. Three ArcMap-based software applications were developed to assist with the stack-unit mapping program. The first software application used the lithologies from water wells to create on-screen graphics representing the stratigraphic columns for each well record. These stratigraphic columns are interpreted by the geologist to assign a generalized stack unit for each polygon. The second software application consists of two tools used to attribute and label the stack-map polygons, which will capture the information in the GIS and for cartographic display. The first tool attributes a one-to-many relationship between a surficial-geology polygon and the lithology table. The second tool labels the surficial-geology polygons with the stack text for use in map publishing. The third application performs custom queries against the lithology table that can be used to create derivative mapping products, such as location and thickness of sand and gravel resources. These three applications allow the efficient creation of 3-D surficial-geology polygons and labels within a GIS database, and provide analysis tool to facilitate the use of the 3-D surficial geology maps for specific applications.Great Lakes Geologic Mapping Coalition, U.S. Geological Surve

Potential Sand and Gravel Resources of the Mansfield 30 x 60 minute quadrangle

The Ohio Department of Natural Resources (ODNR), Division of Geological Survey has completed a reconnaissance map showing areas of mineable sand and gravel resources in the Mansfield, Ohio, 30 x 60 minute (scale 1:100,000) quadrangle. The main purpose of this map was to create a reconnaissance-level map that would show the potential for mining sand and gravel in this quadrangle. The map shows areas of surficial materials in increments of 10 feet and then differentiates sand, sand and gravel, and ice-contact deposits from finer grained materials, such as glacial till, lacustrine clay and silt, and alluvial materials. The sand and sand-and-gravel units include both surficial and buried outwash and valley train deposits and ice-contact deposits, such as kames, kame terraces, and eskers. To determine if a sand-and-gravel deposit was economically viable, this map shows the total thickness or accumulation of sand and gravel in the Mansfield 30 x 60-minute quadrangle.United States Geological Survey: National Cooperative Geologic Mapping Program, Great Lakes Geologic Mapping Coalitio

Suitablility for Solid-Waste Disposal in the Lorain 30 x 60-Minute Quadrangle

The Ohio Department of Natural Resources (ODNR), Division of Geological Survey has completed a reconnaissance map showing areas suitable for solid waste disposal in the Lorain, Ohio, 30 x 50-minute (1:1,100,000-scale) quadrangle. The main purpose of this map is to provide a reconnaissance level map that shows the relative suitability of various surficial materials for the disposal or containment of solid waste in this quadrangle. Our goal was to create this map from existing ODNR Division of Geological Survey maps and GIS datasets as much as possible. Consequently, the Lorain map is a derivative map based directly from the ODNR Division of Geological Survey SG-2 Series map, Surficial Geology of the Lorain and Put-in-Bay 30 x 60 Minute Quadrangles (Pavey and others, 2005). The SG-2 series features maps based upon polygons that represent a “stack” of mapped unit lithologies and thicknesses. These maps show surficial materials in increments of 10 feet within each polygon across the study area. A set of queries were run in ESRI ArcGIS to determine the range of thickness and nature of the sediments. The main premise of this map is to specify areas of thick, fine-grained glacial till and glaciolacustrine silt and clay deposits for solid-waste disposal and containment. A minimum of 30 feet of fine-grained material was deemed necessary for waste disposal for areas where the drift overlies shale; siltstone; or interbedded, shaley limestone. If the fine-grained material was directly overlying an aquifer, the minimum required thickness was increased to 50 feet. Aquifers included sand and gravel, sandstone, limestone, and dolomite. Areas with over 20 feet of sand and gravel or sand at the surface (e.g., kames, beach ridges) were excluded as were areas with alluvium (active streams) and organic deposits at the land surface. The main factor in the decision-making process was to have adequate fine-grained materials overlying the aquifers.United States Geological Survey, National Cooperative Geologic Mapping Program, Great Lakes Geologic Mapping Coalitio

Potential Sand and Gravel Resources of the Canton 30 x 60-Minute Quadrangle, Ohio

The Ohio Department of Natural Resources (ODNR), Division of Geological Survey has completed a reconnaissance map showing areas of mineable sand and gravel resources in the Canton, Ohio, 30 x 60-minute 1:100,000-scale quadrangle. The main purpose of this map was to create a reconnaissance-level map that would show the potential for mining sand-and-gravel in this quadrangle. The map shows areas of surficial materials in increments of 10 feet and then differentiates sand, sand and gravel, and ice-contact deposits from finer grained materials, such as glacial till, lacustrine clay and silt, and alluvial materials. The sand and sand-and-gravel units include both surficial and buried outwash and valley train deposits and ice-contact deposits, such as kames, kame terraces, and eskers. This map was created to show the total thickness or accumulation of sand and gravel in the Canton 30 x 60-minute quadrangle. The thickness of sand-and-gravel deposits helps determine if it is economically viable.United States Geological Survey: National Cooperative Geologic Mapping Program, Great Lakes Geologic Mapping Coalitio

Potential for Mineable Bedrock in the Findlay 30 x 60 minute quadrangle

The Ohio Department of Natural Resources (ODNR), Division of Geological Survey has completed a reconnaissance map showing areas of mineable bedrock, including shale, limestone, and dolomite, likely covered by thin surficial materials (glacial drift) in the Findlay, Ohio, 30 x 50-minute (1:1,100,000-scale) quadrangle. The main purpose of this map was to create a reconnaissance-level map that shows the potential for mining carbonate and shale bedrock in this quadrangle. We sought to create this map from as many existing ODNR Division of Geological Survey maps and GIS datasets as possible. The map shows areas of surficial materials in increments of 10 ft and totaling less than 40 ft overlying Silurian- and Devonian-age dolomite and limestone, and it also shows a limited area in the southeastern most portion of the quadrangle where surficial materials (totaling less than 20 ft) overlay potential Devonian-age shale resources.United States Geological Survey: National Cooperative Geologic Mapping Program, Great Lakes Geologic Mapping Coalitio

Potential for Mineable Bedrock in the Marion 30 X 60 minute quadrangle

The Ohio Department of Natural Resources (ODNR), Division of Geological Survey has completed a reconnaissance map showing areas of mineable bedrock, including shale, limestone, and dolomite, likely covered by thin surficial materials (glacial drift) in the Marion, Ohio, 30 x 50-minute (1:1,100,000-scale) quadrangle. The main purpose of this map was to create a reconnaissance-level map that shows the potential for mining carbonate and shale bedrock in this quadrangle. We sought to create this map from as many existing ODNR Division of Geological Survey maps and GIS datasets as possible. The map shows areas of surficial materials in increments of 10 ft and totaling less than 40 ft overlying Silurian- and Devonian-age dolomite and limestone, and it also shows a limited area in the easternmost portion of the quadrangle where surficial materials (totaling less than 20 ft) overlay potential Devonian-age shale resources.United States Geological Survey: National Cooperative Geologic Mapping Program, Great Lakes Geologic Mapping Coalitio

Targeting DNA Damage Response and Replication Stress in Pancreatic Cancer

Background and aims: Continuing recalcitrance to therapy cements pancreatic cancer (PC) as the most lethal malignancy, which is set to become the second leading cause of cancer death in our society. The study aim was to investigate the association between DNA damage response (DDR), replication stress and novel therapeutic response in PC to develop a biomarker driven therapeutic strategy targeting DDR and replication stress in PC. Methods: We interrogated the transcriptome, genome, proteome and functional characteristics of 61 novel PC patient-derived cell lines to define novel therapeutic strategies targeting DDR and replication stress. Validation was done in patient derived xenografts and human PC organoids. Results: Patient-derived cell lines faithfully recapitulate the epithelial component of pancreatic tumors including previously described molecular subtypes. Biomarkers of DDR deficiency, including a novel signature of homologous recombination deficiency, co-segregates with response to platinum (P < 0.001) and PARP inhibitor therapy (P < 0.001) in vitro and in vivo. We generated a novel signature of replication stress with which predicts response to ATR (P < 0.018) and WEE1 inhibitor (P < 0.029) treatment in both cell lines and human PC organoids. Replication stress was enriched in the squamous subtype of PC (P < 0.001) but not associated with DDR deficiency. Conclusions: Replication stress and DDR deficiency are independent of each other, creating opportunities for therapy in DDR proficient PC, and post-platinum therapy

BHPR research: qualitative1. Complex reasoning determines patients' perception of outcome following foot surgery in rheumatoid arhtritis

Background: Foot surgery is common in patients with RA but research into surgical outcomes is limited and conceptually flawed as current outcome measures lack face validity: to date no one has asked patients what is important to them. This study aimed to determine which factors are important to patients when evaluating the success of foot surgery in RA Methods: Semi structured interviews of RA patients who had undergone foot surgery were conducted and transcribed verbatim. Thematic analysis of interviews was conducted to explore issues that were important to patients. Results: 11 RA patients (9 ♂, mean age 59, dis dur = 22yrs, mean of 3 yrs post op) with mixed experiences of foot surgery were interviewed. Patients interpreted outcome in respect to a multitude of factors, frequently positive change in one aspect contrasted with negative opinions about another. Overall, four major themes emerged. Function: Functional ability & participation in valued activities were very important to patients. Walking ability was a key concern but patients interpreted levels of activity in light of other aspects of their disease, reflecting on change in functional ability more than overall level. Positive feelings of improved mobility were often moderated by negative self perception ("I mean, I still walk like a waddling duck”). Appearance: Appearance was important to almost all patients but perhaps the most complex theme of all. Physical appearance, foot shape, and footwear were closely interlinked, yet patients saw these as distinct separate concepts. Patients need to legitimize these feelings was clear and they frequently entered into a defensive repertoire ("it's not cosmetic surgery; it's something that's more important than that, you know?”). Clinician opinion: Surgeons' post operative evaluation of the procedure was very influential. The impact of this appraisal continued to affect patients' lasting impression irrespective of how the outcome compared to their initial goals ("when he'd done it ... he said that hasn't worked as good as he'd wanted to ... but the pain has gone”). Pain: Whilst pain was important to almost all patients, it appeared to be less important than the other themes. Pain was predominately raised when it influenced other themes, such as function; many still felt the need to legitimize their foot pain in order for health professionals to take it seriously ("in the end I went to my GP because it had happened a few times and I went to an orthopaedic surgeon who was quite dismissive of it, it was like what are you complaining about”). Conclusions: Patients interpret the outcome of foot surgery using a multitude of interrelated factors, particularly functional ability, appearance and surgeons' appraisal of the procedure. While pain was often noted, this appeared less important than other factors in the overall outcome of the surgery. Future research into foot surgery should incorporate the complexity of how patients determine their outcome Disclosure statement: All authors have declared no conflicts of interes

DNA methylation patterns identify subgroups of pancreatic neuroendocrine tumors with clinical association

Here we report the DNA methylation profile of 84 sporadic pancreatic neuroendocrine tumors (PanNETs) with associated clinical and genomic information. We identified three subgroups of PanNETs, termed T1, T2 and T3, with distinct patterns of methylation. The T1 subgroup was enriched for functional tumors and ATRX, DAXX and MEN1 wild-type genotypes. The T2 subgroup contained tumors with mutations in ATRX, DAXX and MEN1 and recurrent patterns of chromosomal losses in half of the genome with no association between regions with recurrent loss and methylation levels. T2 tumors were larger and had lower methylation in the MGMT gene body, which showed positive correlation with gene expression. The T3 subgroup harboured mutations in MEN1 with recurrent loss of chromosome 11, was enriched for grade G1 tumors and showed histological parameters associated with better prognosis. Our results suggest a role for methylation in both driving tumorigenesis and potentially stratifying prognosis in PanNETs