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| 2. |
- Clark, Andrew G., et al.
(författare)
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Evolution of genes and genomes on the Drosophila phylogeny
- 2007
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Ingår i: Nature. - : Springer Science and Business Media LLC. - 0028-0836 .- 1476-4687. ; 450:7167, s. 203-218
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Tidskriftsartikel (refereegranskat)abstract
- Comparative analysis of multiple genomes in a phylogenetic framework dramatically improves the precision and sensitivity of evolutionary inference, producing more robust results than single-genome analyses can provide. The genomes of 12 Drosophila species, ten of which are presented here for the first time (sechellia, simulans, yakuba, erecta, ananassae, persimilis, willistoni, mojavensis, virilis and grimshawi), illustrate how rates and patterns of sequence divergence across taxa can illuminate evolutionary processes on a genomic scale. These genome sequences augment the formidable genetic tools that have made Drosophila melanogaster a pre-eminent model for animal genetics, and will further catalyse fundamental research on mechanisms of development, cell biology, genetics, disease, neurobiology, behaviour, physiology and evolution. Despite remarkable similarities among these Drosophila species, we identified many putatively non-neutral changes in protein-coding genes, non-coding RNA genes, and cis-regulatory regions. These may prove to underlie differences in the ecology and behaviour of these diverse species.
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| 3. |
- de Vera, Jean Paul, et al.
(författare)
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EUROX (Europa Explorer): An astrobiology mission concept to the Jovian icy moon Europa.
- 2008
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Ingår i: Geophysical Research Abstracts. ; 10, EGU2008-A-01483, 2008
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Konferensbidrag (övrigt vetenskapligt/konstnärligt)abstract
- The discovery of so-called extremophiles indicates how robust life is. That microbial life can resist extreme and harsh environmental conditions as e.g. very high and cold temperatures, desiccation, acidity, salinity and wide ranges of radiation spectra including UV and X-rays, suggests that micro organisms are capable of surviving and maintaining essential living functions, or often thriving, in conditions previously thought impossible. Recently it seems that only liquid water and an energy source are the core prerequisites for the development of life, greatly expanding the range of potential habitats for life both on Earth and in the solar system. In light of these discoveries, the definition of the “Habitable Zone” as the region where liquid water can exist at a planetary surface may need revision. Energy in the form of heat may be found on several volcanic worlds in our solar system, and subsurface liquid water may exist there, too. One likely candidate for such a reserve of water is the jovian icy moon Europa. Imaged by the Voyager and Galileo probes, this icy body appears to have a geologically young outer surface. Spectroscopic studies from Earth have confirmed that the European crust is composed of water ice. Long cracks across its surface may be suggestive of huge ice blocks rafting upon an underlying liquid layer. Darker non ice material also covers much of the surface and is spatially associated with the cracks. Recent modeling suggests that tidal forces imparted upon the moon by Jupiter may cause heating in the depth – raising the possibility of a liquid water ocean beneath Europa’s icy crust. Further on it is supposed that a weak induced magnetic field is present on the moon. This classifies Europa as an object of great scientific interest, warranting investigation for habitability and even the presence of life within the supposed ocean of the moon. The Europa Explorer (EUROX) mission complements other proposed missions to study Europa. EUROX will characterize the habitability potential of Europa, with the aim of understanding whether life could exist there or not. The mission will address the following key questions: (i) existence or non- existence of a liquid ocean beneath the surface, (ii) the nature of the non icy material visible upon the surface cracks, (iii) the physical characteristics of the ice crust, (iv) effects by local radiation on the surface chemistry, (v) the depth of radiation penetration in the ice and probably shielding effects by a magnetic field and (vi) the presence of organic compounds on or in the Europan ice crust. Our proposed mission will operate as a fully European and further on international mission, with the aim of providing the initial information required for later, larger missions to visit Europa. EUROX will involve both remote-sensing and in-situ research. Its mission architecture sees a single space craft deployed to Europa, launched by an Ariane 5. This vehicle will use conventional propulsion and a Venus-Earth-Earth flight path to travel to the jovian system in six years. Upon arrival at Europa, the space craft will commence remote observations of the icy moon, to determine the physical nature of the ice crust, and to investigate the presence of a subsurface liquid ocean. The orbiter will carry two independent vehicles (two penetrators) that will then separate, de-orbit, and penetrate the crust nearby or in the cracks to a depth of several meters. A suite of compact instruments will address the physical and chemical properties of the crust, as well as seeking organic compounds and pre-biotic material in the ice. The use of a laser communication system removes the need for a relay spacecraft in orbit around Jupiter, decreasing overall mission cost. Expected orbiter mission duration is on the order of two months, with each penetrator functioning for approximately 24 hours.
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| 6. |
- Andersen, J. R., et al.
(författare)
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Small-x phenomenology - Summary of the 3rd Lund small-x workshop in 2004
- 2006
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Ingår i: European Physical Journal C. Particles and Fields. - : Springer Science and Business Media LLC. - 1434-6044 .- 1434-6052. ; 48:1, s. 53-105
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Forskningsöversikt (refereegranskat)abstract
- A third workshop on small-x physics, within the Small-x Collaboration, was held in Hamburg in May 2004 with the aim of overviewing recent theoretical progress in this area and summarizing the experimental status.
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| 7. |
- Celis, Julio E., et al.
(författare)
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15-Prostaglandin Dehydrogenase Expression Alone or in Combination with ACSM1 Defines a Subgroup of the Apocrine Molecular Subtype of Breast Carcinoma
- 2008
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Ingår i: Molecular & Cellular Proteomics. - 1535-9484. ; 7:10, s. 1795-1809
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Tidskriftsartikel (refereegranskat)abstract
- Established histopathological criteria divide invasive breast carcinomas into defined groups. Ductal of no specific type and lobular are the two major subtypes accounting for around 75 and 15% of all cases, respectively. The remaining 10% include rarer types such as tubular, cribriform, mucinous, papillary, medullary, metaplastic, and apocrine breast carcinomas. Molecular profiling technologies, on the other hand, subdivide breast tumors into five subtypes, basal-like, luminal A, luminal B, normal breast tissue-like, and ERBB2-positive, that have different prognostic characteristics. An additional subclass termed "molecular apocrine" has recently been described, but these lesions did not exhibit all the histopathological features of classical invasive apocrine carcinomas (IACs). IACs make up 0.5-3% of the invasive ductal carcinomas, and despite the fact that they are morphologically distinct from other breast lesions, there are presently no standard molecular criteria available for their diagnosis and as a result no precise information as to their prognosis. Toward this goal our laboratories have embarked in a systematic proteomics endeavor aimed at identifying biomarkers that may characterize and subtype these lesions as well as targets that may lead to the development of novel targeted therapies and chemoprevention strategies. By comparing the protein expression profiles of apocrine macrocysts and non-malignant breast epithelial tissue we have previously reported the identification of a few proteins that are specifically expressed by benign apocrine lesions as well as by the few IACs that were available to us at the time. Here we reiterate our strategy to reveal apocrine cell markers and present novel data, based on the analysis of a considerably larger number of samples, establishing that IACs correspond to a distinct molecular subtype of breast carcinomas characterized by the expression of 15-prostaglandin dehydrogenase alone or in combination with a novel form of acyl-CoA synthetase medium-chain family member 1 (ACSM1). Moreover we show that 15-prostaglandin dehydrogenase is not expressed by other breast cancer types as determined by gel-based proteomics and immunohistochemistry analysis and that antibodies against this protein can identify IACs in an unbiased manner in a large breast cancer tissue microarray making them potentially useful as a diagnostic aid. Molecular & Cellular Proteomics 7: 1795-1809, 2008.
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| 9. |
- Elmlund, Hans, et al.
(författare)
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Cryo-EM Reveals Promoter DNA Binding and Conformational Flexibility of the General Transcription Factor TFIID
- 2009
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Ingår i: Structure. - : Elsevier BV. - 0969-2126 .- 1878-4186. ; 17:11, s. 1442-1452
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Tidskriftsartikel (refereegranskat)abstract
- The general transcription factor IID (TFIID) is required for initiation of RNA polymerase II-dependent transcription at many eukaryotic promoters. TFIID comprises the TATA-binding protein (TBP) and several conserved TBP-associated factors (TAFs). Recognition of the core promoter by TFIID assists assembly of the preinitiation complex. Using cryo-electron microscopy in combination with methods for ab initio single-particle reconstruction and heterogeneity analysis, we have produced density maps of two conformational states of Schizosaccharomyces pombe TFIID, containing and lacking TBP. We report that TBP-binding is coupled to a massive histone-fold domain rearrangement. Moreover, docking of the TBP-TAF1(N-terminus) atomic structure to the THID map and reconstruction of a TAF-promoter DNA complex helps to account for TAF-dependent regulation of promoter-TBP and promoter-TAF interactions.
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| 10. |
- Elmlund, Hans, et al.
(författare)
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The cyclin-dependent kinase 8 module sterically blocks Mediator interactions with RNA polymerase II
- 2006
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Ingår i: Proceedings of the National Academy of Sciences of the United States of America. - : Proceedings of the National Academy of Sciences. - 0027-8424 .- 1091-6490. ; 103:43, s. 15788-15793
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Tidskriftsartikel (refereegranskat)abstract
- CDK8 (cyclin-dependent kinase 8), along with CycC, Med12, and Med13, form a repressive module (the Cdk8 module) that prevents RNA polymerase II (pol II) interactions with Mediator. Here, we report that the ability of the Cdk8 module to prevent pol II interactions is independent of the Cdk8-dependent kinase activity. We use electron microscopy and single-particle reconstruction to demonstrate that the Cdk8 module forms a distinct structural entity that binds to the head and middle region of Mediator, thereby sterically blocking interactions with pol II.
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