Patterns of somatic mutation in human cancer genomes.

Cancers arise owing to mutations in a subset of genes that confer growth advantage. The availability of the human genome sequence led us to propose that systematic resequencing of cancer genomes for mutations would lead to the discovery of many additional cancer genes. Here we report more than 1,000 somatic mutations found in 274 megabases (Mb) of DNA corresponding to the coding exons of 518 protein kinase genes in 210 diverse human cancers. There was substantial variation in the number and pattern of mutations in individual cancers reflecting different exposures, DNA repair defects and cellular origins. Most somatic mutations are likely to be 'passengers' that do not contribute to oncogenesis. However, there was evidence for 'driver' mutations contributing to the development of the cancers studied in approximately 120 genes. Systematic sequencing of cancer genomes therefore reveals the evolutionary diversity of cancers and implicates a larger repertoire of cancer genes than previously anticipated.

Sorbent Film-Coated Passive Samplers for Explosives Vapour Detection Part A: Materials Optimisation and Integration with Analytical Technologies.

A new thin-film passive sampler is presented as a low resource dependent and discrete continuous monitoring solution for explosives-related vapours. Using 15 mid-high vapour pressure explosives-related compounds as probes, combinations of four thermally stable substrates and six film-based sorbents were evaluated. Meta-aramid and phenylene oxide-based materials showed the best recoveries from small voids (~70%). Analysis was performed using liquid chromatography-high resolution accurate mass spectrometry which also enabled tentative identification of new targets from the acquired data. Preliminary uptake kinetics experiments revealed plateau concentrations on the device were reached between 3-5 days. Compounds used in improvised explosive devices, such as triacetone triperoxide, were detected within 1 hour and were stably retained by the sampler for up to 7 days. Sampler performance was consistent for 22 months after manufacture. Lastly, its direct integration with currently in-service explosives screening equipment including ion mobility spectrometry and thermal desorption mass spectrometry is presented. Following exposure to several open environments and targeted interferences, sampler performance was subsequently assessed and potential interferences identified. High-security building and area monitoring for concealed explosives using such cost-effective and discrete passive samplers can add extra assurance to search routines while minimising any additional burden on personnel or everyday site operation.

Sorbent Film-Coated Passive Samplers for Explosives Vapour Detection Part B: Deployment in Semi-Operational Environments and Alternative Applications.

The application of new sorbent-film coated passive samplers for capture of bulk commercial and military explosives vapours in operationally relevant spaces such as luggage, rooms, vehicles and shipping containers is presented. Samplers were easily integrated with in-service detection technologies with little/no sample preparation required. Ethylene glycol dinitrate (EGDN) was detected within 4 h in a container holding a suitcase packed with 0.2 kg Perunit 28E. Within a 22,000 dm3 room, 1 kg of concealed Seguridad was detected within 24 h and in an adjoining room within 7 days. Exposed samplers also successfully captured components of 1 kg TNT after 72 h and 1 kg concealed Perunit 28E after 6 h in both a furnished room and a large, partially filled shipping container. For the latter, samplers captured detectable residues outside the container after 24 h and were stable during wet weather for 72 h. A one-week trial at three operationally relevant venues including a university, a theatre and a government building revealed a nuisance positive rate of <1.4% (n = 72). Finally, two alternative applications are presented for extraction of liquid samples and use a particulate contact swab showing flexibility for a range of different search activities.

Mutation analysis of 24 known cancer genes in the NCI-60 cell line set.

The panel of 60 human cancer cell lines (the NCI-60) assembled by the National Cancer Institute for anticancer drug discovery is a widely used resource. The NCI-60 has been characterized pharmacologically and at the molecular level more extensively than any other set of cell lines. However, no systematic mutation analysis of genes causally implicated in oncogenesis has been reported. This study reports the sequence analysis of 24 known cancer genes in the NCI-60 and an assessment of 4 of the 24 genes for homozygous deletions. One hundred thirty-seven oncogenic mutations were identified in 14 (APC, BRAF, CDKN2, CTNNB1, HRAS, KRAS, NRAS, SMAD4, PIK3CA, PTEN, RB1, STK11, TP53, and VHL) of the 24 genes. All lines have at least one mutation among the cancer genes examined, with most lines (73%) having more than one. Identification of those cancer genes mutated in the NCI-60, in combination with pharmacologic and molecular profiles of the cells, will allow for more informed interpretation of anticancer agent screening and will enhance the use of the NCI-60 cell lines for molecularly targeted screens.

Residues from low-order energetic materials: the comparative performance of a range of sampling approaches prior to analysis by ion chromatography.

A quantitative study of common forensic evidence collection devices for the recovery of low-explosive residues from non-porous glass and plastic is presented herein. Swabbing materials including cotton, rayon, Nomex(®) (poly(isophthaloylchloride/m-phenylenediamine)), Teflon/Teflon-coated fibreglass (polytetrafluoroethylene) and adhesive-coated tapes were used to collect known quantities of up to 14 forensically relevant inorganic and organic anion and cation species from both surfaces. Analysis was performed using two validated ion chromatography methods. This study revealed that all swabs and surfaces contributed highly variable levels of interfering ionic species and that swabbing materials showed variance in the quantities and total number of analytes recovered from both surfaces. Teflon and Nomex(®) materials demonstrated the most promise due to their ability to collect and release analytes into simple extraction solvents as well as displaying relatively low endogenous interference. In parallel, the ability to extract residue directly from both surfaces via the addition of a suitable extraction solvent was investigated instead of swabbing. This work highlights that direct solvent extraction from a surface should be considered as an alternative approach, especially for small areas or objects. To the best of our knowledge, this work represents the most comprehensive study of the efficiencies of sample collection technologies for low-explosive residues prior to analysis by ion chromatography.

Identification of the alpha2-delta-1 subunit of voltage-dependent calcium channels as a molecular target for pain mediating the analgesic actions of pregabalin.

Neuropathic pain is a debilitating condition affecting millions of people around the world and is defined as pain that follows a lesion or dysfunction of the nervous system. This type of pain is difficult to treat, but the novel compounds pregabalin (Lyrica) and gabapentin (Neurontin) have proven clinical efficacy. Unlike traditional analgesics such as nonsteroidal antiinflammatory drugs or narcotics, these agents have no frank antiinflammatory actions and no effect on physiological pain. Although extensive preclinical studies have led to a number of suggestions, until recently their mechanism of action has not been clearly defined. Here, we describe studies on the analgesic effects of pregabalin in a mutant mouse containing a single-point mutation within the gene encoding a specific auxiliary subunit protein (alpha2-delta-1) of voltage-dependent calcium channels. The mice demonstrate normal pain phenotypes and typical responses to other analgesic drugs. We show that the mutation leads to a significant reduction in the binding affinity of pregabalin in the brain and spinal cord and the loss of its analgesic efficacy. These studies show conclusively that the analgesic actions of pregabalin are mediated through the alpha2-delta-1 subunit of voltage-gated calcium channels and establish this subunit as a therapeutic target for pain control.