Assessment of clone identity and sequence fidelity for 1189 IMAGE cDNA clones

This report documents the error rate in a commercially distributed subset of the IMAGE Consortium mouse cDNA clone collection. After isolation of plasmid DNA from 1189 bacterial stock cultures, only 62.2% were uncontaminated and contained cDNA inserts that had significant sequence identity to published data for the ordered clones. An agarose gel electrophoresis pre-screening strategy identified 361 stock cultures that appeared to contain two or more plasmid species. Isolation of individual colonies from these stocks demonstrated that 7.1% of the original 1189 stocks contained both a correct and an incorrect plasmid. 5.9% of the original 1189 stocks contained multiple, distinct, incorrect plasmids, indicating the likelihood of multiple contaminating events. While only 739 of the stocks purchased contained the desired cDNA clone, agarose gel pre-screening, colony isolation and similarity searching of dbEST allowed for the identification of an additional 420 clones that would have otherwise been discarded. Considering the high error rate in this subset of the IMAGE cDNA clone set, the use of sequence verified clones for cDNA microarray construction is warranted. When this is not possible, pre-screening non-sequence verified clones with agarose gel electrophoresis provides an inexpensive and efficient method to eliminate contaminated clones from the probe set.

Three-dimensional image reconstruction of dephosphorylated smooth muscle heavy meromyosin reveals asymmetry in the interaction between myosin heads and placement of subfragment 2

Regulation of the actin-activated ATPase of smooth muscle myosin II is known to involve an interaction between the two heads that is controlled by phosphorylation of the regulatory light chain. However, the three-dimensional structure of this inactivated form has been unknown. We have used a lipid monolayer to obtain two-dimensional crystalline arrays of the unphosphorylated inactive form of smooth muscle heavy meromyosin suitable for structural studies by electron cryomicroscopy of unstained, frozen-hydrated specimens. The three-dimensional structure reveals an asymmetric interaction between the two myosin heads. The ATPase activity of one head is sterically “blocked” because part of its actin-binding interface is positioned onto the converter domain of the second head. ATPase activity of the second head, which can bind actin, appears to be inhibited through stabilization of converter domain movements needed to release phosphate and achieve strong actin binding. When the subfragment 2 domain of heavy meromyosin is oriented as it would be in an actomyosin filament lattice, the position of the heads is very different from that needed to bind actin, suggesting an additional contribution to ATPase inhibition in situ.

Maintenance of pre-mRNA secondary structure by epistatic selection.

Linkage disequilibrium between polymorphisms in a natural population may result from various evolutionary forces, including random genetic drift due to sampling of gametes during reproduction, restricted migration between subpopulations in a subdivided population, or epistatic selection. In this report, we present evidence that the majority of significant linkage disequilibria observed in introns of the alcohol dehydrogenase locus (Adh) of Drosophila pseudoobscura are due to epistatic selection maintaining secondary structure of precursor mRNA (pre-mRNA). Based on phylogenetic-comparative analysis and a likelihood approach, we propose secondary structure models of Adh pre-mRNA for the regions of the adult intron and intron 2 where clustering of linkage disequilibria has been observed. Furthermore, we applied the likelihood ratio test to the phylogenetically predicted secondary structure in intron 1. In contrast to the other two structures, polymorphisms associated with the more conserved stem-loop structure of intron 1 are in low frequency, and linkage disequilibria have not been observed. These findings are qualitatively consistent with a model of compensatory fitness interactions. This model assumes that mutations disrupting pairing in a secondary structural element are individually deleterious if they destabilize a functionally important structure; a second "compensatory" mutation, however, may restabilize the structure and restore fitness.

High speed image techniques for construction safety net monitoring in outdoor conditions

Póster presentado en SPIE Photonics Europe, Brussels, 16-19 April 2012.

Image Noise Removal on Heterogeneous CPU-GPU Configurations

A parallel algorithm to remove impulsive noise in digital images using heterogeneous CPU/GPU computing is proposed. The parallel denoising algorithm is based on the peer group concept and uses an Euclidean metric. In order to identify the amount of pixels to be allocated in multi-core and GPUs, a performance analysis using large images is presented. A comparison of the parallel implementation in multi-core, GPUs and a combination of both is performed. Performance has been evaluated in terms of execution time and Megapixels/second. We present several optimization strategies especially effective for the multi-core environment, and demonstrate significant performance improvements. The main advantage of the proposed noise removal methodology is its computational speed, which enables efficient filtering of color images in real-time applications.

Aceptabilidad de la vacuna contra el VPH en estudiantes universitarios españoles durante la etapa pre-vacunal: un estudio transversal

Introducción. El cáncer de cuello de útero (CCU), segunda causa de mortalidad por cáncer en mujeres, está asociado a la infección por virus de papiloma humano (VPH), cuya máxima prevalencia se sitúa entre los 20 y 24 años de edad. Desde 2006 se dispone de una vacuna contra el VPH. El objetivo de este estudio es evaluar los conocimientos sobre CCU, la infección por VPH y su vacuna, valorando su aceptabilidad en población universitaria. Métodos. Estudio transversal sobre 1.750 estudiantes de la Universidad de Alicante (2008) seleccionados al azar, proporcional por sexo y estudios, mediante un cuestionario ad-hoc validado. Se calcularon porcentajes, intervalos de confianza, tablas de contingencia según sexo, edad y tipo de estudios, calculando odds ratios ajustadas (OR). Resultados. Muestra con 58,6% mujeres y 6,6% de estudiantes biosanitarios. Un 87,3% dispuestos a vacunarse frente al VPH, el 94,3% vacunaría a sus hijas, un 48,0% había oído hablar de la vacuna. El 90,6% tiene bajos conocimiento sobre la infección por VPH y un 82,2% sobre la vacuna. Un 22,4% manifiesta conocer la asociación entre VPH y CCU. Las mujeres registran OR mayores en conocimientos y predisposición a vacunarse. La aceptabilidad de la vacuna contra VPH se asocia con el sexo y la confianza en las vacunas como método preventivo, la influencia de los conocimientos previos es escasa sobre la predisposición vacunal. Conclusiones. Alta aceptabilidad de la vacuna en el periodo estudiado. Aumentar la confianza hacia las vacunas puede influir en una mejor predisposición a vacunarse.

Targetless image-based method for measuring displacements and strains on concrete surfaces with a consumer camera

Measurement of concrete strain through non-invasive methods is of great importance in civil engineering and structural analysis. Traditional methods use laser speckle and high quality cameras that may result too expensive for many applications. Here we present a method for measuring concrete deformations with a standard reflex camera and image processing for tracking objects in the concretes surface. Two different approaches are presented here. In the first one, on-purpose objects are drawn on the surface, while on the second one we track small defects on the surface due to air bubbles in the hardening process. The method has been tested on a concrete sample under several loading/unloading cycles. A stop-motion sequence of the process has been captured and analyzed. Results have been successfully compared with the values given by a strain gauge. Accuracy of our methods in tracking objects is below 8 μm, in the order of more expensive commercial devices.

Geneva, Switzerland, 1880 (Raster Image)

This layer is a georeferenced raster image of the historic paper map entitled: Plan de Genève, N. Galais père, ingéniuer géomètre de [1ere] classe; litographie artistique Lelièvre-Drache. It was published by Lelièvre-Drache in 1880. Scale 1:3,000. Covers Geneva, Switzerland. Map in French. The image inside the map neatline is georeferenced to the surface of the earth and fit to the European Datum 1950, Universal Transverse Mercator (UTM) Zone 32N projected coordinate system. All map collar and inset information is also available as part of the raster image, including any inset maps, profiles, statistical tables, directories, text, illustrations, index maps, legends, or other information associated with the principal map. This map shows features such as roads, railroads and stations, street railway lines, drainage, built-up areas and selected buildings, cemeteries, parks, docks, and more.This layer is part of a selection of digitally scanned and georeferenced historic maps from the Harvard Map Collection. These maps typically portray both natural and manmade features. The selection represents a range of originators, ground condition dates, scales, and map purposes.

New Hampshire, 1816 (Image 1 of 6) (Raster Image)

This layer is a georeferenced raster image of the historic paper map entitled: New Hampshire by recent survey : made under the supreme authority and published according to law by Philip Carrigain ; J.J. Barralet, del. ; W. Harrison, sct., Philada. It was published by Philip Carrigain in 1816. Scale [ca. 1:200,000]. This layer is image 1 of 6 total images, representing the northeast portion of the six sheet source map. The image inside the map neatline is georeferenced to the surface of the earth and fit to the New Hampshire State Plane coordinate system (NAD 1983 in Feet) (Fipszone 2800). All map collar and inset information is also available as part of the raster image, including any inset maps, profiles, statistical tables, directories, text, illustrations, index maps, legends, or other information associated with the principal map. This map shows features such as roads, drainage, public buildings, schools, churches, industry locations (e.g. mills, factories, mines, etc.), selected private buildings with names of property owners, town boundaries, land grants, and more. Relief shown pictorially and by hachures. Includes area notes, text, and table of population. Also includes illustrations: View of the Great Boars Head and Hampton Beach -- The Cap of the White Mountains -- View of the White Mountains from Shelburne; inset maps: States of the Union east of the Hudson with the adjacent British colonies. Scale [ca. 1:1,920,000] -- The middle, southern and western sections of the United States with the territories. Scale [ca. 1:4,900,000]. Includes: ms. additions with updated county boundary & township names.This layer is part of a selection of digitally scanned and georeferenced historic maps of New England from the Harvard Map Collection. These maps typically portray both natural and manmade features. The selection represents a range of regions, originators, ground condition dates, scales, and map purposes.

Quebec, Canada, 1759 (Raster Image)

This layer is a georeferenced raster image of the historic paper manuscript map entitled: Plan of the town and basin of Quebec : and part of the adjacent country shewing the principal encampments and works of the British army commanded by Major Genl. Wolfe and those of the French army by Lieut. Genl. the Marquis of Montcalm during the attack in 1759. Scale [ca. 1:9,600]. This image consists of images of a two sheet source map that have been stitched together using image editing software to create one image. Manuscript copy of a map. Copied by [Whlkington?] in 1857. The image inside the map neatline is georeferenced to the surface of the earth and fit to the Universal Transverse Mercator (UTM) Zone 19N NAD 1983 coordinate system. All map collar and inset information is also available as part of the raster image, including any inset maps, profiles, statistical tables, directories, text, illustrations, index maps, legends, or other information associated with the principal map. This map shows features such as roads, drainage, selected buildings, fortification, ship and troop movements, and places of military interest for the Battle of Quebec, 1759, and more. Relief is shown by hachures. Includes index and text. This layer is part of a selection of digitally scanned and georeferenced historic maps from The Harvard Map Collection as part of the Imaging the Urban Environment project. Maps selected for this project represent major urban areas and cities of the world, at various time periods. These maps typically portray both natural and manmade features at a large scale. The selection represents a range of regions, originators, ground condition dates, scales, and purposes.

Nares Strait region, Canada and Greenland, 1853 (Raster Image)

This layer is a georeferenced raster image of the historic paper map entitled: Chart exhibiting the discoveries of the second American-Grinnell-Expedition in search of Sir John Franklin : unrevised from the original material and projected on the spot by E.K. Kane. It was published by Lith of J. Bien in [1855]. Scale [ca. 1:400,000]. Covers the Nares Strait region, Greenland and Canada. The image inside the map neatline is georeferenced to the surface of the earth and fit to the 'NAD 1983 CSRS UTM Zone 19 North' projection. All map collar and inset information is also available as part of the raster image, including any inset maps, profiles, statistical tables, directories, text, illustrations, index maps, legends, or other information associated with the principal map. This map shows coastal features such as drainage, islands, capes, bays, tides, lines of ice, camps, and more. Relief shown by hachures. This layer is part of a selection of digitally scanned and georeferenced historic maps from the Harvard Map Collection and the Harvard University Library as part of the Open Collections Program at Harvard University project: Organizing Our World: Sponsored Exploration and Scientific Discovery in the Modern Age. Maps selected for the project correspond to various expeditions and represent a range of regions, originators, ground condition dates, scales, and purposes.

Post Route Map of New York, 1871 (Image 1 of 2) (Raster Image)

This layer is a georeferenced raster image of the historic paper map entitled: Post route map of the state of New York : and parts of Vermont, Massachusetts, Connecticut, New Jersey and Pennsylvania, showing also the adjacent portions of the dominion of Canada, designed and constructed under the orders of Postmaster General, Alex. W. Randall, and second asst. Postmaster General, Geo. Wm. McLellan, by W.L. Nicholson, topographer of P.O. Dept. It was published by U.S. Post Office Dept. in 1868. Ink notation: "The service on this diagram brought up to date of Jan. 1st, 1871." Scale [1:380,160]. This layer is image 1 of 2 total images of the two sheet source map. The image inside the map neatline is georeferenced to the surface of the earth and fit to the Universal Transverse Mercator (UTM) Zone 18N NAD83 projection. All map collar and inset information is also available as part of the raster image, including any inset maps, profiles, statistical tables, directories, text, illustrations, index maps, legends, or other information associated with the principal map. This map shows features such as roads, railroads, postal routes (with delivery schedule frequency and distances), drainage, cities and towns, counties, and more. Includes insets: Postal service of Long Island with the principal mail connections of the city of New York. Scale [1:380,160] -- [Parts of the provinces of Québec and Ontario bordering New York and Vermont]. Includes tables of distances and statistics. This layer is part of a selection of digitally scanned and georeferenced historic maps from The Harvard Map Collection as part of the Imaging the Urban Environment project. Maps selected for this project represent major urban areas and cities of the world, at various time periods. These maps typically portray both natural and manmade features at a large scale. The selection represents a range of regions, originators, ground condition dates, scales, and purposes.

Post Route Map of New York, 1871 (Image 2 of 2) (Raster Image)

This layer is a georeferenced raster image of the historic paper map entitled: Post route map of the state of New York : and parts of Vermont, Massachusetts, Connecticut, New Jersey and Pennsylvania, showing also the adjacent portions of the dominion of Canada, designed and constructed under the orders of Postmaster General, Alex. W. Randall, and second asst. Postmaster General, Geo. Wm. McLellan, by W.L. Nicholson, topographer of P.O. Dept. It was published by U.S. Post Office Dept. in 1868. Ink notation: "The service on this diagram brought up to date of Jan. 1st, 1871." Scale [1:380,160]. This layer is image 2 of 2 total images of the two sheet source map. The image inside the map neatline is georeferenced to the surface of the earth and fit to the Universal Transverse Mercator (UTM) Zone 18N NAD83 projection. All map collar and inset information is also available as part of the raster image, including any inset maps, profiles, statistical tables, directories, text, illustrations, index maps, legends, or other information associated with the principal map. This map shows features such as roads, railroads, postal routes (with delivery schedule frequency and distances), drainage, cities and towns, counties, and more. Includes insets: Postal service of Long Island with the principal mail connections of the city of New York. Scale [1:380,160] -- [Parts of the provinces of Québec and Ontario bordering New York and Vermont]. Includes tables of distances and statistics. This layer is part of a selection of digitally scanned and georeferenced historic maps from The Harvard Map Collection as part of the Imaging the Urban Environment project. Maps selected for this project represent major urban areas and cities of the world, at various time periods. These maps typically portray both natural and manmade features at a large scale. The selection represents a range of regions, originators, ground condition dates, scales, and purposes.

Northern Manhattan, New York, N.Y., 1777 (Raster Image)

This layer is a georeferenced raster image of the historic paper map entitled: A topographical map of the northn. part of New York Island : exhibiting the plan of Fort Washington, now Fort Knyphausen, with the rebels lines to the southward, which were forced by the troops under the command of the Rt. Honble. Earl Percy on the 16th. Novr. 1776, and survey'd immediately after by order of His Lordship, by Claude Joseph Sauthier, to which is added the attack made to the northd. by the Hessians ; survey'd by order of Lieutt. Genl. Knyphausen. It was published by Wm. Faden in 1777. Scale [ca. 1:20,000]. Covers Manhattan north of 92nd St. and a portion of the Bronx. The image inside the map neatline is georeferenced to the surface of the earth and fit to the Universal Transverse Mercator (UTM) Zone 18N NAD83 projection. All map collar and inset information is also available as part of the raster image, including any inset maps, profiles, statistical tables, directories, text, illustrations, index maps, legends, or other information associated with the principal map. This map shows features such as topography, ground cover, roads, drainage, forts, battery, redoubts, barracks, troop and battle locations, and other defenses, landings, bridges, and more. Relief is shown by hachures. Includes index to military points of interest. This layer is part of a selection of digitally scanned and georeferenced historic maps from The Harvard Map Collection as part of the Imaging the Urban Environment project. Maps selected for this project represent major urban areas and cities of the world, at various time periods. These maps typically portray both natural and manmade features at a large scale. The selection represents a range of regions, originators, ground condition dates, scales, and purposes.

Oak Lane, Philadelphia, Pennsylvania, 1900 (Raster Image)

This layer is a georeferenced raster image of the historic paper map entitled: For sale : Lawnton and Oak Lane building lots : twenty-second ward : estate of E. M. Davis, deceased. It was published by J.T. Jackson & Co. ca. 1900. Scale [ca. 1:528,000]. Covers the Oak Lane neighborhood of Philadelphia, Pennsylvania. The image inside the map neatline is georeferenced to the surface of the earth and fit to the Pennsylvania South State Plane Coordinate System NAD83 (in Feet) (Fipszone 3702). All map collar and inset information is also available as part of the raster image, including any inset maps, profiles, statistical tables, directories, text, illustrations, index maps, legends, or other information associated with the principal map. Cadastral map showing buildings, property boundaries and dimensions, names of landowners, streets names, railroad line and station stops, and more. Relief is shown by countours and spot heights. Includes sales and advertisement notice. This layer is part of a selection of digitally scanned and georeferenced historic maps from The Harvard Map Collection as part of the Imaging the Urban Environment project. Maps selected for this project represent major urban areas and cities of the world, at various time periods. These maps typically portray both natural and manmade features at a large scale. The selection represents a range of regions, originators, ground condition dates, scales, and purposes.