A5013433142- Astrophysical Phenomena and Observations
- Pulsars and Gravitational Waves Research
- High-pressure geophysics and materials
- Mechanics and Biomechanics Studies
- Astrophysics and Cosmic Phenomena
- Galaxies: Formation, Evolution, Phenomena
- Ubiquitin and proteasome pathways
- Gene expression and cancer classification
- Molecular Biology Techniques and Applications
- Genomics and Chromatin Dynamics
- Microtubule and mitosis dynamics
- DNA Repair Mechanisms
- Gamma-ray bursts and supernovae
- High-Energy Particle Collisions Research
- Photosynthetic Processes and Mechanisms
- Immune cells in cancer
- Genomics and Phylogenetic Studies
- Particle Detector Development and Performance
- Phagocytosis and Immune Regulation
- Autophagy in Disease and Therapy
- Mitochondrial Function and Pathology
- Dermatology and Skin Diseases
- Mass Spectrometry Techniques and Applications
- Particle Accelerators and Free-Electron Lasers
- Cancer-related Molecular Pathways
University of Dundee
2016-2025
Indiana University Bloomington
2023
Wellcome Centre for Cell Biology
2018
University of Edinburgh
2018
Tokyo Institute of Technology
2018
Durham University
2003-2014
Cell and Gene Therapy Catapult
2013
Wellcome Trust
2011-2012
Jagiellonian University
1997-2007
University of Oulu
2005
RNA-seq is now the technology of choice for genome-wide differential gene expression experiments, but it not clear how many biological replicates are needed to ensure valid interpretation results or which statistical tools best analyzing data. An experiment with 48 in each two conditions was performed answer these questions and provide guidelines experimental design. With three replicates, nine 11 evaluated found only 20%-40% significantly differentially expressed (SDE) genes identified full...
We present X-ray/γ-ray spectra of Cyg X-1 observed during the transition from hard to soft state and in by ASCA, RXTE CGRO/OSSE 1996 May June. The consist a dominant component below ∼2 keV power-law-like continuum extending at least ∼800 keV. interpret them as emission an optically thick, cold accretion disc thin, non-thermal corona above disc. A fraction f ≳ 0.5 total available power is dissipated corona. model multicolour blackbody taking into account torque-free inner-boundary condition....
We systematically analyse all publicly available XMM-Newton spectra of radio-quiet PG quasars. The soft X-ray excess in these objects is well modelled by an additional, cool, Compton scattering region. However, the remarkably constant temperature derived for this component over whole sample requires a puzzling fine tuning parameters. Instead, we propose that artifact strong, relativistically smeared, partially ionized absorption. strong jump opacity at ~0.7 keV from OVII, OVIII and iron can...
Measuring the properties of endogenous cell proteins, such as expression level, subcellular localization, and turnover rates, on a whole proteome level remains major challenge in postgenome era. Quantitative methods for measuring mRNA do not reliably predict corresponding protein levels provide little or no information other properties. Here we describe combined pulse-labeling, spatial proteomics data analysis strategy to characterize expression, synthesis, degradation, rates endogenously...
The nuclear space is mostly occupied by chromosome territories and bodies. Although this organization of chromosomes affects gene function, relatively little known about the role bodies in chromosomal regions. nucleolus best-studied subnuclear structure forms around rRNA repeat clusters on acrocentric chromosomes. In addition to rDNA, other chromatin sequences also surround nucleolar surface may even loop into nucleolus. These additional nucleolar-associated domains (NADs) have not been well...
We review radiative processes responsible for X-ray emission in hard (low) and soft (high) spectral states of black-hole binaries. The main process the state appears to be scattering blackbody photons from a cold disk by thermal electrons hot inner flow, any contribution nonthermal synchrotron is at most small. In states, dominates energetically, its high-energy tail due hybrid, thermal/nonthermal electrons, probably active regions above surface. State transitions appear correspond variable...
We study X-ray and variability distance of GX 339-4. derive d>7 kpc, based on recent determination the binary parameters. data from Ginga/ASM, CGRO/BATSE, RXTE/ASM, PCA HEXTE. From 1987 to 2004, 339-4 underwent 15 outbursts went through all known states black-hole binaries. also present initial stage 2004 outburst. then colour-colour colour-flux correlations. In hard state, there is a strong anticorrelation between 1.5-5 3-12 keV spectral slopes, which we explain by thermal Comptonization...
The pulse profiles of the accreting X-ray millisecond pulsar SAX J1808.4-3658 at different energies are studied. two main emission component, black body and Comptonized tail that clearly identified in time-averaged spectrum, show strong variability with first component lagging second one. observed can be explained if is produced by Comptonization a hot slab (radiative shock) Thomson optical depth ~0.3-1 neutron star surface. patterns radiation different: "knife"- "fan"-like, respectively. We...
BackgroundAtopic dermatitis (AD) is a major inflammatory condition of the skin caused by inherited barrier deficiency, with mutations in filaggrin gene predisposing to development AD. Support for deficiency initiating AD came from flaky tail mice, which have frameshift mutation Flg and also carry an unknown gene, matted, causing matted hair phenotype.ObjectiveWe sought identify mutant mice further define whether human were associated AD.MethodsA mouse genetics approach was used separate...
Centromeres play several important roles in ensuring proper chromosome segregation. Not only do they promote kinetochore assembly for microtubule attachment, but also support robust sister chromatid cohesion at pericentromeres and facilitate replication of centromeric DNA early S phase. However, it is still elusive how centromeres orchestrate all these functions the same site. Here, we show that budding yeast Dbf4-dependent kinase (DDK) accumulates kinetochores telophase, facilitated by...
Transcription of genes can be discontinuous, occurring in pulses or bursts. It is not clear how properties transcriptional vary between different genes. We compared the pulsing five housekeeping and developmentally induced by direct imaging single gene events individual living Dictyostelium cells. Each displayed its own signature, differing probability firing pulse duration, frequency, intensity. In contrast to prevailing view from both prokaryotes eukaryotes that transcription displays...
We investigate the observed correlation between 2--10 keV X-ray luminosity (in unit of Eddington luminosity; $l_X \equiv L_X/L_{Edd}$) and photon index ($\Gamma$) spectrum for both black hole binaries (BHBs) active galactic nuclei (AGNs). construct a large sample, with $10^{-9} < l_X 10^{-1}$. find that $\Gamma$ is positively negatively correlated $l_X$ when > 10^{-3}$ $10^{-6.5} respectively, while nearly constant 10^{-6.5}$. explain above in framework coupled hot accretion flow -- jet...
Article18 April 2018Open Access Source DataTransparent process Thermal proteome profiling of breast cancer cells reveals proteasomal activation by CDK4/6 inhibitor palbociclib Teemu P Miettinen Division Cell and Developmental Biology, University Dundee, UK MRC Protein Phosphorylation Ubiquitylation Unit, Laboratory for Molecular College London, Koch Institute Integrative Cancer Research, Massachusetts Technology, Cambridge, MA, USA Search more papers this author Julien Peltier Biosciences,...
We have obtained new solutions and methods for the process of thermal Comptonization. modify solution to kinetic equation Sunyaev \& Titarchuk allow its application up mildly relativistic electron temperatures optical depths $\gtrsim{1}$. The can be used spectral fitting X-ray spectra from astrophysical sources. also developed an accurate Monte Carlo method calculating timing properties thermal-Comptonization accuracy our kinetic-equation is verified by comparison with results. compare...
Article26 April 2019Open Access Transparent process Triggering MSR1 promotes JNK-mediated inflammation in IL-4-activated macrophages Manman Guo orcid.org/0000-0002-7928-8902 MRC Protein Phosphorylation and Ubiquitylation Unit, University of Dundee, UK Search for more papers by this author Anetta Härtlova Corresponding Author [email protected] orcid.org/0000-0002-8152-4361 Institute Cell Molecular Biosciences, Newcastle University, upon Tyne, Wallenberg Centre Translational Medicine,...
Abstract Filamentous (oomycete and fungal) plant pathogens deliver cytoplasmic effector proteins into host cells to facilitate disease. How RXLR effectors from the potato late blight pathogen Phytophthora infestans enter is unknown. One possible route involves clathrin-mediated endocytosis (CME). Transient silencing of NbCHC, encoding clathrin heavy chain, or endosome marker gene NbAra6 a Rab GTPase in model Nicotiana benthamiana, attenuated P. infection reduced translocation fusions...
We present X-ray/γ-ray spectra of the binary GX 339–4 observed in hard state simultaneously by Ginga and CGRO OSSE during an outburst 1991 September. The X-ray are well represented a power law with photon spectral index G ≃ 1.75 Compton reflection component fluorescent Fe Kα line corresponding to solid angle optically thick, ionized medium ∼ 0.4 × 2 π. data (= 50 keV) require sharp high-energy cut-off power-law spectrum. broad-band very modelled repeated scattering thermal plasma optical...
We build a simple model of the optical/UV emission from irradiation outer disc by inner and coronal in black hole binaries. apply this to broadband Swift data outburst binary XTE J1817--330 confirm previous results that soft state is consistent with reprocessing constant fraction bolometric X-ray luminosity. However, very surprising as temperature drops more than factor 3 state, which should produce marked change efficiency. The easiest way match observed reprocessed for skin be highly...
Disc spectra from highly luminous black hole binaries are observed to be rather simple, despite theoretical predictions the contrary. We collate disc-dominated multiple observations of 10 separate sources and show that they consistent with a simple multicolour blackbody disc luminosity Ldisc∝T4 over two orders magnitude. This is probably compatible standard Shakura–Sunyaev α-disc theory. However, these models also predict radiation-pressure-dominated unstable, in strong conflict lack...
The key aspect of the very successful truncated disc model for low/hard X-ray spectral state in black hole binaries is that geometrically thin recedes back from last stable orbit at transition to this state. This has recently been challenged by direct observations CCD data. We reanalyze Swift and RXTE campaign covering 2006 outburst XTE J1817-330 show these data actually strongly support as spectra unambiguously begins recede source leaves dominated soft radius inferred proper less...
Macrophages are important immune cells operating at the forefront of innate immunity by taking up foreign particles and microbes through phagocytosis. The RAW 264.7 cell line is commonly used for experiments in macrophage phagocytosis field. However, little known how its functions compare to primary macrophages. Here, we have performed an in-depth proteomics characterization phagosomes from bone marrow derived macrophages quantifying more than 2500 phagosomal proteins. Our data indicate that...
Abstract Motivation: High-throughput RNA sequencing (RNA-seq) is now the standard method to determine differential gene expression. Identifying differentially expressed genes crucially depends on estimates of read-count variability. These are typically based statistical models such as negative binomial distribution, which employed by tools edgeR, DESeq and cuffdiff. Until now, validity these has usually been tested either low-replicate RNA-seq data or simulations. Results: A 48-replicate...