Simultaneous Observations of the Chromosphere with TRACE and SUMER

Using mainly the 1600 angstrom continuum channel, and also the 1216 angstrom Lyman-alpha channel (which includes some UV continuum and C IV emission), aboard the TRACE satellite, we observed the complete lifetime of a transient, bright chromospheric loop. Simultaneous observations with the SUMER instrument aboard the SOHO spacecraft revealed interesting material velocities through the Doppler effect existing above the chromospheric loop imaged with TRACE, possibly corresponding to extended non-visible loops, or the base of an X-ray jet.Comment: 14 pages, 10 figures, accepted by Solar Physic

Stereoscopic Analysis of the 19 May 2007 Erupting Filament

A filament eruption, accompanied by a B9.5 flare, coronal dimming and an EUV wave, was observed by the Solar TERrestrial Relations Observatory (STEREO) on 19 May 2007, beginning at about 13:00 UT. Here, we use observations from the SECCHI/EUVI telescopes and other solar observations to analyze the behavior and geometry of the filament before and during the eruption. At this time, STEREO A and B were separated by about 8.5 degrees, sufficient to determine the three-dimensional structure of the filament using stereoscopy. The filament could be followed in SECCHI/EUVI 304 A stereoscopic data from about 12 hours before to about 2 hours after the eruption, allowing us to determine the 3D trajectory of the erupting filament. From the 3D reconstructions of the filament and the chromospheric ribbons in the early stage of the eruption, simultaneous heating of both the rising filamentary material and the chromosphere directly below is observed, consistent with an eruption resulting from magnetic reconnection below the filament. Comparisons of the filament during eruption in 304 A and Halpha show that when it becomes emissive in He II, it tends to disappear in Halpha, indicating that the disappearance probably results from heating or motion, not loss, of filamentary material.Comment: Accepted for publication in Solar Physic

Coronal Dimmings and the Early Phase of a CME Observed with STEREO and Hinode/EIS

We investigate the early phase of the 13 February 2009 coronal mass ejection (CME). Observations with the twin STEREO spacecraft in quadrature allow us to compare for the first time in one and the same event the temporal evolution of coronal EUV dimmings, observed simultaneously on-disk and above the limb. We find that these dimmings are synchronized and appear during the impulsive acceleration phase of the CME, with the highest EUV intensity drop occurring a few minutes after the maximum CME acceleration. During the propagation phase two confined, bipolar dimming regions, appearing near the footpoints of a pre-flare sigmoid structure, show an apparent migration away from the site of the CME-associated flare. Additionally, they rotate around the 'center' of the flare site, i.e., the configuration of the dimmings exhibits the same 'sheared-to-potential' evolution as the postflare loops. We conclude that the motion pattern of the twin dimmings reflects not only the eruption of the flux rope, but also the ensuing stretching of the overlying arcade. Finally, we find that: (1) the global-scale dimmings, expanding from the source region of the eruption, propagate with a speed similar to that of the leaving CME front; (2) the mass loss occurs mainly during the period of strongest CME acceleration. Two hours after the eruption Hinode/EIS observations show no substantial plasma outflow, originating from the 'open' field twin dimming regions.Comment: accepted for publication in Solar Physic

An Observational Overview of Solar Flares

We present an overview of solar flares and associated phenomena, drawing upon a wide range of observational data primarily from the RHESSI era. Following an introductory discussion and overview of the status of observational capabilities, the article is split into topical sections which deal with different areas of flare phenomena (footpoints and ribbons, coronal sources, relationship to coronal mass ejections) and their interconnections. We also discuss flare soft X-ray spectroscopy and the energetics of the process. The emphasis is to describe the observations from multiple points of view, while bearing in mind the models that link them to each other and to theory. The present theoretical and observational understanding of solar flares is far from complete, so we conclude with a brief discussion of models, and a list of missing but important observations.Comment: This is an article for a monograph on the physics of solar flares, inspired by RHESSI observations. The individual articles are to appear in Space Science Reviews (2011

The immune landscape of cancer

We performed an extensive immunogenomic analysis of more than 10,000 tumors comprising 33 diverse cancer types by utilizing data compiled by TCGA. Across cancer types, we identified six immune subtypes—wound healing, IFN-γ dominant, inflammatory, lymphocyte depleted, immunologically quiet, and TGF-β dominant—characterized by differences in macrophage or lymphocyte signatures, Th1:Th2 cell ratio, extent of intratumoral heterogeneity, aneuploidy, extent of neoantigen load, overall cell proliferation, expression of immunomodulatory genes, and prognosis. Specific driver mutations correlated with lower (CTNNB1, NRAS, or IDH1) or higher (BRAF, TP53, or CASP8) leukocyte levels across all cancers. Multiple control modalities of the intracellular and extracellular networks (transcription, microRNAs, copy number, and epigenetic processes) were involved in tumor-immune cell interactions, both across and within immune subtypes. Our immunogenomics pipeline to characterize these heterogeneous tumors and the resulting data are intended to serve as a resource for future targeted studies to further advance the field

The Immune Landscape of Cancer

We performed an extensive immunogenomic anal-ysis of more than 10,000 tumors comprising 33diverse cancer types by utilizing data compiled byTCGA. Across cancer types, we identified six im-mune subtypes\u2014wound healing, IFN-gdominant,inflammatory, lymphocyte depleted, immunologi-cally quiet, and TGF-bdominant\u2014characterized bydifferences in macrophage or lymphocyte signa-tures, Th1:Th2 cell ratio, extent of intratumoral het-erogeneity, aneuploidy, extent of neoantigen load,overall cell proliferation, expression of immunomod-ulatory genes, and prognosis. Specific drivermutations correlated with lower (CTNNB1,NRAS,orIDH1) or higher (BRAF,TP53,orCASP8) leukocytelevels across all cancers. Multiple control modalitiesof the intracellular and extracellular networks (tran-scription, microRNAs, copy number, and epigeneticprocesses) were involved in tumor-immune cell inter-actions, both across and within immune subtypes.Our immunogenomics pipeline to characterize theseheterogeneous tumors and the resulting data areintended to serve as a resource for future targetedstudies to further advance the field