| 1. |
- 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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| 2. |
- Lindblad-Toh, Kerstin, et al.
(författare)
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Genome sequence, comparative analysis and haplotype structure of the domestic dog.
- 2005
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Ingår i: Nature. - : Springer Science and Business Media LLC. - 1476-4687 .- 0028-0836. ; 438:7069, s. 803-19
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Tidskriftsartikel (refereegranskat)abstract
- Here we report a high-quality draft genome sequence of the domestic dog (Canis familiaris), together with a dense map of single nucleotide polymorphisms (SNPs) across breeds. The dog is of particular interest because it provides important evolutionary information and because existing breeds show great phenotypic diversity for morphological, physiological and behavioural traits. We use sequence comparison with the primate and rodent lineages to shed light on the structure and evolution of genomes and genes. Notably, the majority of the most highly conserved non-coding sequences in mammalian genomes are clustered near a small subset of genes with important roles in development. Analysis of SNPs reveals long-range haplotypes across the entire dog genome, and defines the nature of genetic diversity within and across breeds. The current SNP map now makes it possible for genome-wide association studies to identify genes responsible for diseases and traits, with important consequences for human and companion animal health.
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| 3. |
- Zody, Michael, 1968-, et al.
(författare)
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DNA sequence of human chromosome 17 and analysis of rearrangement in the human lineage
- 2006
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Ingår i: Nature. - : Springer Science and Business Media LLC. - 0028-0836 .- 1476-4687. ; 440:7087, s. 1045-1049
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Tidskriftsartikel (refereegranskat)abstract
- Chromosome 17 is unusual among the human chromosomes in many respects. It is the largest human autosome with orthology to only a single mouse chromosome, mapping entirely to the distal half of mouse chromosome 11. Chromosome 17 is rich in protein-coding genes, having the second highest gene density in the genome. It is also enriched in segmental duplications, ranking third in density among the autosomes. Here we report a finished sequence for human chromosome 17, as well as a structural comparison with the finished sequence for mouse chromosome 11, the first finished mouse chromosome. Comparison of the orthologous regions reveals striking differences. In contrast to the typical pattern seen in mammalian evolution, the human sequence has undergone extensive intrachromosomal rearrangement, whereas the mouse sequence has been remarkably stable. Moreover, although the human sequence has a high density of segmental duplication, the mouse sequence has a very low density. Notably, these segmental duplications correspond closely to the sites of structural rearrangement, demonstrating a link between duplication and rearrangement. Examination of the main classes of duplicated segments provides insight into the dynamics underlying expansion of chromosome-specific, low-copy repeats in the human genome.
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| 4. |
- Groenewold, Nynke A., et al.
(författare)
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Volume of subcortical brain regions in social anxiety disorder : mega-analytic results from 37 samples in the ENIGMA-Anxiety Working Group
- 2023
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Ingår i: Molecular Psychiatry. - : Springer Nature. - 1359-4184 .- 1476-5578. ; 28:3, s. 1079-1089
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Tidskriftsartikel (refereegranskat)abstract
- There is limited convergence in neuroimaging investigations into volumes of subcortical brain regions in social anxiety disorder (SAD). The inconsistent findings may arise from variations in methodological approaches across studies, including sample selection based on age and clinical characteristics. The ENIGMA-Anxiety Working Group initiated a global mega-analysis to determine whether differences in subcortical volumes can be detected in adults and adolescents with SAD relative to healthy controls. Volumetric data from 37 international samples with 1115 SAD patients and 2775 controls were obtained from ENIGMA-standardized protocols for image segmentation and quality assurance. Linear mixed-effects analyses were adjusted for comparisons across seven subcortical regions in each hemisphere using family-wise error (FWE)-correction. Mixed-effects d effect sizes were calculated. In the full sample, SAD patients showed smaller bilateral putamen volume than controls (left: d = −0.077, pFWE = 0.037; right: d = −0.104, pFWE = 0.001), and a significant interaction between SAD and age was found for the left putamen (r = −0.034, pFWE = 0.045). Smaller bilateral putamen volumes (left: d = −0.141, pFWE < 0.001; right: d = −0.158, pFWE < 0.001) and larger bilateral pallidum volumes (left: d = 0.129, pFWE = 0.006; right: d = 0.099, pFWE = 0.046) were detected in adult SAD patients relative to controls, but no volumetric differences were apparent in adolescent SAD patients relative to controls. Comorbid anxiety disorders and age of SAD onset were additional determinants of SAD-related volumetric differences in subcortical regions. To conclude, subtle volumetric alterations in subcortical regions in SAD were detected. Heterogeneity in age and clinical characteristics may partly explain inconsistencies in previous findings. The association between alterations in subcortical volumes and SAD illness progression deserves further investigation, especially from adolescence into adulthood.
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| 5. |
- Mattsson, Niklas, 1979, et al.
(författare)
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The Alzheimer's Association external quality control program for cerebrospinal fluid biomarkers.
- 2011
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Ingår i: Alzheimer's & dementia : the journal of the Alzheimer's Association. - : Wiley. - 1552-5279. ; 7:4
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Tidskriftsartikel (refereegranskat)abstract
- The cerebrospinal fluid (CSF) biomarkers amyloid β (Aβ)-42, total-tau (T-tau), and phosphorylated-tau (P-tau) demonstrate good diagnostic accuracy for Alzheimer's disease (AD). However, there are large variations in biomarker measurements between studies, and between and within laboratories. The Alzheimer's Association has initiated a global quality control program to estimate and monitor variability of measurements, quantify batch-to-batch assay variations, and identify sources of variability. In this article, we present the results from the first two rounds of the program.
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| 6. |
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| 7. |
- Zhang, L. Q., et al.
(författare)
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Anisotropic Vorticity Within Bursty Bulk Flow Turbulence
- 2020
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Ingår i: Journal of Geophysical Research - Space Physics. - : American Geophysical Union (AGU). - 2169-9380 .- 2169-9402. ; 125:10
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Tidskriftsartikel (refereegranskat)abstract
- Utilizing Magnetospheric Multiscale (MMS) observation in the tail plasma sheet, we study the vorticity field (omega = del x V) of the plasma bulk (convective) velocity within the bursty bulk flow (BBF) in detailed. Two typical events are presented. In the event on 25 June 2017, E-y is the main component. In the other event on 6 July 2017, E-z is the main component. For both cases, the BBF electric field is dominated by the convective electric field (Ec = - V x B). Our case studies show clearly the existence of the convective vorticity field within the BBF. The vorticity field has prominent anisotropy (quantified by the anisotropic angle (theta aa = arctan(omega(perpendicular to)/omega(parallel to))). More often, the BBF omega field has stronger perpendicular vorticity (omega(perpendicular to)) than the parallel vorticity (omega(parallel to)). The dominance of vorticity by omega(perpendicular to)-dominating BBF is confirmed in the statistical sense. In particular, event on 25 June shows the significant evolution of the ion flux energy with the strength of the omega field. The strong omega field corresponds to the ion flux enhancement at high energy (above 10 keV), while the weak omega field corresponds to the ion flux enhancement at medium energy (2-5 keV). Investigation of the subset of channel from fast plasma investigation partial moment measurement reveals that the ion behaviors in the strong and decayed BBFs are distinctly different. The channeled ions form the narrow band distribution in the strong BBF but the multiple-layer distribution in the weak BBF. Finally, spectrum analysis indicates that the BBF omega(perpendicular to) and omega(parallel to) have a similar scaling about -2.0 (below 0.2 Hz).
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| 8. |
- Zhang, L. Q., et al.
(författare)
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MMS Observation on the Cross-Tail Current Sheet Roll-up at the Dipolarization Front
- 2021
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Ingår i: Journal of Geophysical Research - Space Physics. - : American Geophysical Union (AGU). - 2169-9380 .- 2169-9402. ; 126:4
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Tidskriftsartikel (refereegranskat)abstract
- We perform a case study on the evolution of the current sheet in different regions around the dipolarization front (DF), including magnetic-dip preceding the DF, front at the DF, and magnetic pileup region (MPR) behind the DF based on magnetospheric multiscale (MMS) observation on July 31, 2017. In this event, MMS1 stays inside the current sheet during the whole bursty bulk flow (BBF) interval. Our analysis reveals that the cross-tail current sheet at the DF is rolled up, signified by the depression (-V-z/-B-z) at the dip and elevation (+V-z/+B-z) at the front. The minimum variance analysis on the magnetic field method is applied to obtain the normal direction of the current sheet. The result confirms the roll-up, that is, downward at the depressed current sheet and upward at the elevated current sheet. The current sheet roll-up at the DF is asymmetric, with steeper elevation than depression. The elevation angle of the elevated current sheet is evaluated to be similar to 30 degrees. Strong duskward and predominantly perpendicular J spike (similar to 90 nA/m(2)) concentrate at the interface between the dip and the front. The strength of the current of the J-spike is about nine/three times the current at the dip/front. The front is characterized by positive E center dot J. In the dip/MPR, no such preference is seen. Ion/Electron pitch angle distributions exhibit significant and different evolutions in the roll-up current sheet from dip to front, including their energy-dependence and distributions. Finally, the roll-up current sheet could decelerate BBF and change the flow structure. The potential significance of the roll-up current sheet on BBF evolution is emphasized.
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| 9. |
- Zhang, L. Q., et al.
(författare)
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Vorticity Within Bursty Bulk Flows : Convective Versus Kinetic
- 2022
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Ingår i: Journal of Geophysical Research - Space Physics. - : American Geophysical Union (AGU). - 2169-9380 .- 2169-9402. ; 127:3
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Tidskriftsartikel (refereegranskat)abstract
- Based on four-point Magnetospheric Multiscale observation, we carefully analyze the vorticity field in the course of a reconnection jet on 27 June 2017. In this event, the convective electric field (E-c) is overwhelmed by the kinetic electric field (E-k). Accordingly, the omega-field in the course of the BBF is dominated by kinetic vorticity (omega(k)). The omega-field in the E-k-dominated bursty bulk flow (BBF) is characterized by perpendicular anisotropy. Comparison of velocity-curl vorticity (omega= backward difference xV $\mathbf{\omega }=\nabla \times \mathbf{V}$) with E/B induced vorticity confirms a greater contribution to the BBF vorticity by E (omega E=(B. backward difference )E/B2 ${\mathbf{\omega }}_{\mathbf{E}}=(\mathbf{B}\cdot \nabla )\boldsymbol{E}/{\boldsymbol{B}}<^>{2}$) than by B (omega B=(E. backward difference )B/B2 ${\mathbf{\omega }}_{\mathbf{B}}=(\mathbf{E}\cdot \nabla )\mathbf{B}/{\boldsymbol{B}}<^>{2}$). Power spectrum density reveals that in the E-k-dominated BBF, the E-c and E-k spectra have different power laws. E-c dominates the B-spectrum while E-k dominates the E-spectrum. The E-c(B) spectrum has a -5/3-like slope below 0.25 Hz but a -3-like above 0.25 Hz. The E-k(E) spectrum is -5/3-like at the low-frequency end (below 0.1 Hz) but -2-like at the high-frequency end (above 2 Hz). Within its medium frequency range, the spectrum is flat. Particularly, the E-k(E) spectrum exhibits the bump at 1-2 Hz in the frequency domain. The solitary/bipolar E-spikes, with typical temporal scale of 0.3-1 s, are likely responsible for the E-bump. Finally, we statistically analyze and compare the vorticity field in E-k-dominated and E-c -dominated BBFs. The result demonstrates that the E-k-dominated BBF tends to have stronger vorticity than the E-c -dominated BBF.
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