arXiv subjects

Eric W. Deutsch

Publications and source records attributed to Eric W. Deutsch.

18 recordsLinked to original sources

arXiv2025

Strategic priorities for transformative progress in advancing biology with proteomics and artificial intelligence

Artificial intelligence (AI) is transforming scientific research, including proteomics. Advances in mass spectrometry (MS)-based proteomics data quality, diversity, and scale, combined with groundbreaking AI techniques, are unlocking new challenges and opportunities in biological discovery. Here, we highlight key areas where AI is driving innovation, from data analysis to new biological insights. These include developing an AI-friendly ecosystem for proteomics data generation, sharing, and analysis; improving peptide and protein identification and quantification; characterizing protein-protein interactions and protein complexes; advancing spatial and perturbation proteomics; integrating multi-omics data; and ultimately enabling AI-empowered virtual cells.

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arXiv2022

Proteomics Standards Initiatives ProForma 2.0 Unifying the encoding of Proteoforms and Peptidoforms

There is the need to represent in a standard manner all the possible variations of a protein or peptide primary sequence, including both artefactual and post-translational modifications of peptides and proteins. With that overall aim, here, the Human Proteome Organization (HUPO) Proteomics Standards Initiative (PSI) has developed a notation, called ProForma 2.0, which is a substantial extension of the original ProForma notation, developed by the Consortium for Top-Down Proteomics (CTDP). ProForma 2.0 aims to unify the representation of proteoforms and peptidoforms. Therefore, this notation supports use cases needed for bottom-up and middle/topdown proteomics approaches and allows the encoding of highly modified proteins and peptides using a human and machine-readable string. ProForma 2.0 covers encoding protein modification names and accessions, cross-linking reagents including disulfides, glycans, modifications encoded using mass shifts and/or via chemical formulas, labile and C or N-terminal modifications, ambiguity in the modification position and representation of atomic isotopes, among other use cases. Notational conventions are based on public controlled vocabularies and ontologies. Detailed information about the notation and existing implementations are available at http://www.psidev.info/proforma and at the corresponding GitHub repository (https://github.com/HUPO-PSI/proforma).

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arXiv2002

The Optical Identification of the X-ray Burster X1746-370 in the Globular Cluster NGC6441

We find convincing observational evidence to confirm the optical identification of the X-ray burster X1746-370 located in the globular cluster NGC6441. Chandra/HRC-I imaging yields a much improved X-ray position for the source, which we show to be fully consistent with our rederived position of a UV-excess star, U1, in the same astrometric reference frame. In addition, the smaller Chandra X-ray error circle excludes the only other blue stars previously identified in the old Einstein circle. We have also obtained Hubble Space Telescope/STIS time-resolved optical spectra of star U1. Although there are no strong line features, the flux distribution demonstrates U1 to be unusually bright in the blue and faint in the red, consistent with earlier WFPC2 photometry. More notably, the flux level of the continuum is seen to vary significantly compared to stars of similar brightness. Indeed, the lightcurve can plausibly be fit by a 5.73 hr period sinusoid, which is the period of the recurring X-ray dips seen in this source. The presence of modulations in both wavelengths strengthens the case for an orbital origin, and therefore deepens the puzzle of the unusual energy independent X-ray dips. Lastly, we note that X1746-370 remains the longest period confirmed X-ray burster in a globular cluster, and the only one with a period typical of the galactic population as a whole.

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arXiv2001

The Rapid Burster in Liller 1: the Chandra X-ray Position and a Search for an IR Counterpart

Despite the unique X-ray behavior of the compact bursting X-ray source MXB1730-335, the "Rapid Burster" (RB) in the highly reddened globular cluster Liller 1, to date there has been no known optical/IR counterpart for the object, no precise astrometric solution that correlates X-ray, radio, and optical positions and thus restricts the number of possible candidates, nor even published IR images of the field. We solve a previous radio/X-ray positional discrepancy, presenting the results of precise Chandra X-ray imaging, which definitively show that the radio source is positionally aligned with MXB1730-335. At the same time, we have detected three additional low luminosity (Lx~10e34 erg/s) X-ray sources within two core radii, which are possibly quiescent low-mass X-ray binaries. We present both ground-based and Hubble Space Telescope infrared imaging of the field (in quiescent and bursting X-ray states of the RB), together with the necessary astrometric solution to overlay the radio/X-ray source positions. Even at HST resolution, the RB field is very complex and there are multiple candidates. No object of unusual color, or of substantial variability in quiescent versus active or burst versus non-burst states, is identified. Further, more sensitive HST/NICMOS and/or ground-based adaptive-optics observations are needed to confidently identify the proper counterpart. In the case of the RB, uncertain but plausible calculations on the effects of the burst on the binary companion indicate that detection of a variable candidate should be feasible.

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arXiv2001

Optical Identification of the X-ray Burster in the Globular Cluster NGC1851

We have obtained exposures of the field of X0512-401 in the globular cluster NGC1851, in X-rays with the Chandra X-ray Observatory, and in the far-UV with the Hubble Space Telescope. We derive an accurate new X-ray position within ~1" for X0512-401, which enables us to confirm that the only plausible candidate for the optical/UV counterpart is the Star A, which we previously identified from WFPC2 imaging. We find no evidence for X-ray or UV flux modulation on the ultra-short (<1 hr) expected binary period, which implies a low system inclination. In addition, we have detected and spatially resolved an X-ray burst event, confirming the association of the burster, quiescent X-ray source, and optical object. The very large Lx/Lopt of this object implies an extraordinarily compact system, similar to the sources in NGC6624 and NGC6712.

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arXiv1999

Ultracompact X-ray Binaries in Globular Clusters: Variability of the Optical Counterpart of X1832-330 in NGC 6652

Evidence is emerging that the luminous X-ray sources in the cores of globular clusters may often consist of, or perhaps even as a class be dominated by, ultracompact (P < 1 hr) binary stars. To the two such systems already known, in NGC 6624 and NGC 6712, we now add evidence for two more. We detect large amplitude variability in the candidate optical counterpart for the X-ray source in the core of NGC 6652. Although the available observations are relatively brief, the existing Hubble Space Telescope data indicate a strong 43.6 min periodic modulation of the visible flux of semi-amplitude 30%. Further, although the orbital period of the source in NGC 1851 is not yet explicitly measured, we demonstrate that previous correlations of optical luminosity with X-ray luminosity and accretion disk size, strengthened by recent data, strongly imply that the period of that system is also less than 1 hr. Thus currently there is evidence that 4 of the 7 globular cluster X-ray sources with constrained periods are ultracompact, a fraction far greater than that found in X-ray binaries the field.

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arXiv1999

Serendipitous Discovery of a Cataclysmic Variable in the Globular Cluster NGC 6624

Despite indications that classical cataclysmic variable (CV) stars are rare in globular clusters in general, and in the cluster NGC 6624 in particular, we have serendipitously discovered such a star ~6'' from the cluster center. A Hubble Space Telescope spectrum of the m~22 object shows strong, broad emission lines typical of numerous field CVs, and the inferred optical and UV luminosity are also similar. Our accidental observation also provides the first high-quality ultraviolet spectrum of a globular cluster CV. That we have detected such an object in an observation that includes just a few percent of the central area of the cluster may indicate that cluster CVs are more common than previously thought, at least near the core.

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arXiv1999

Empirical Uncertainty Estimators for Astrometry from Digital Databases

In order to understand the positional uncertainties of arbitrary objects in several of the current major databases containing astrometric information, a sample of extragalactic radio sources with precise positions in the International Celestial Reference Frame (ICRF) is compared with the available positions of their optical counterparts. The discrepancies between the radio and various optical positions are used to derive empirical uncertainty estimators for the USNO-A2.0, USNO-A1.0, Guide Star Selection System (GSSS) images, and the first and second Digitized Sky Surveys (DSS-I and DSS-II). In addition, an estimate of the uncertainty when the USNO-A2.0 catalog is transferred to different image data is provided. These optical astrometric frame uncertainties can in some cases be the dominant error term when cross-identifying sources at different wavelengths.

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arXiv1999

Infrared Candidates for the Intense Galactic X-ray Source GX 17+2

We present new astrometric solutions and infrared Hubble Space Telescope observations of GX 17+2 (X1813-140), one of the brightest X-ray sources on the celestial sphere. Despite 30 years of intensive study, and the existence of a strong radio counterpart with a sub-arcsecond position, the object remains optically unidentified. The observed X-ray characteristics strongly suggest that it is a so-called "Z-source," the rare but important category that includes Sco X-1 and Cyg X-2. Use of the USNO-A2.0 catalog enables us to measure the position of optical and infrared objects near the radio source to sub-arcsecond precision within the International Celestial Reference Frame, for direct comparison with the radio position, which we also recompute using modern calibrators. With high confidence we eliminate the V~17.5 star NP Ser, often listed as the probable optical counterpart of the X-ray source, as a candidate. Our HST NICMOS observations show two faint objects within our 0.5" radius 90% confidence error circle. Even the brighter of the two, Star A, is far fainter than expected (H~19.8), given multiple estimates of the extinction in this field and our previous understanding of Z sources, but it becomes the best candidate for the counterpart of GX 17+2. The probability of a chance coincidence of an unrelated faint object on the radio position is high. However, if the true counterpart is not Star A, it is fainter still, and our conclusion that the optical counterpart is surprisingly underluminous is but strengthened.

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arXiv1998

The Meinunger "Nicht Rote" Objects

Four high-latitude slow variable stars have been noted by Meinunger (1972) as "nicht rote" ("not red") objects and thus curious. We have previously reported (Margon & Deutsch 1997) that one of these objects, CC Boo, is in fact a QSO. Here we present observations demonstrating that the remaining three are also highly variable active galactic nuclei. The most interesting object of the four is perhaps S 10765 (= NGP9 F324-0276706), which proves to be a resolved galaxy at z=0.063. Despite the rapid and large reported variability amplitude (~1.6 mag), the spectrum is that of a perfectly normal galaxy, with no emission lines or evident nonthermal continuum. We also present new spectroscopic and photometric observations for AR CVn, suggested by Meinunger to be an RR Lyrae star despite its very faint magnitude ( =19.4). The object is indeed one of the most distant RR Lyrae stars known, at a galactocentric distance of ~40 kpc.

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arXiv1998

A Technique for Narrowband Time Series Photometry: the X-ray Star V2116 Oph

We have used innovative features of the Taurus Tunable Filter instrument on the 3.9-m Anglo-Australian Telescope to obtain nearly-continuous, high-throughput, linear photometry of V2116 Oph in a 7 Angstrom bandpass at the center of the O I 8446 emission line. This instrumental technique shows promise for applications requiring precise, rapid, narrowband photometry of faint objects. The spectrum of V2116 Oph, the counterpart of GX 1+4 (=X1728-247), is exotic, even among the unusual spectra of other optical counterparts of compact Galactic X-ray sources. The second strongest emission line is an unusual one, namely extremely prominent O I 8446, which is likely to result from pumping by an intense Ly beta radiation field. As the X-radiation from GX 1+4 is steadily pulsed, with typical pulsed fractions of 0.4, the O I 8446 emission in V2116 Oph may also be strongly modulated with the current 127 s period of the X-ray source. If so, this may well allow us to obtain high signal-to-noise radial velocity measurements and thus to determine the system parameters. However, no such pulsations are detected, and we set an upper limit of ~1% (full-amplitude) on periodic 8446 oscillations at the X-ray frequency. This value is comparable to the amplitude of continuum oscillations observed on some nights by other workers. Thus we rule out an enhancement of the pulsation amplitude in O I emission, at least at the time of our observations.

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arXiv1998

A Search for the Optical Counterpart of the Luminous X-ray Source in NGC 6652

We examine images of the field of X1832-330, the luminous (Lx ~ 10^36 erg/s) X-ray burst source near the center of the globular cluster NGC 6652, in order to identify the optical counterpart for further study. U and B ground-based images allow us to set a limit M_B > 3.5 for the counterpart at the time of those observations, provided that the color is (U-B)_0 ~ -1, similar to the sources known in other clusters. Archival Hubble Space Telescope observations survey most but not all of the 1 sigma X-ray error circle, and allow us to set limits M_B > 5.9 and M_B > 5.2 in the WF/PC and WFPC2 regions, respectively. In the WF/PC images we do weakly detect a faint object with UV-excess, but it is located 11.7'' from the ROSAT X-ray position. This considerable (2.3 sigma) discrepancy in position suggests that this candidate be treated with caution, but it remains the only reasonable one advanced thus far. We measure for this star m_439 = 20.2 +- 0.2, (m_336 - m_439) = -0.5 +- 0.2, and estimate M_B = 5.5, (U-B)_0 = -0.9, similar to other known optical counterparts. If this candidate is not the identification, our limits imply that the true counterpart, not yet identified, is probably the optically-faintest cluster source yet known, or alternatively that it did not show significant UV excess at the time of these observations. Finally, we assess the outlook for the identification of the remaining luminous globular cluster X-ray sources.

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arXiv1998

Complex Velocity Fields in the Shell of T Pyxidis

We present spatially-resolved, moderate-resolution spectrophotometry of the recurrent nova T Pyx and a portion of the surrounding shell. The spectrum extracted from a strip of width 10'' centered on the star shows well-known, strong emission lines typical of old novae, plus a prominent, unfamiliar emission line at 6590 Angstroms. This line, and a weaker companion at 6540 Angstroms which we also detect, have been previously reported by Shahbaz et al., and attributed to Doppler-shifted H alpha emission from a collimated jet emerging from T Pyx. We demonstrate that these lines are instead due to [NII] 6548, 6584 from a complex velocity field in the surrounding nebula. The comments of past workers concerning the great strength of HeII 4686 in T Pyx itself are also reiterated.

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arXiv1997

The Probable Optical Counterpart of the Luminous X-ray Source in NGC 6441

We report results from Hubble Space Telescope WFPC2 imaging of the field of the luminous, bursting X-ray source in the globular cluster NGC 6441. Although the X-ray position is known to a precision of a few arcseconds, this source is only ~6'' from the cluster center, and the field contains hundreds of stars within the 3'' X-ray error circle, making it difficult to isolate the optical counterpart. Nevertheless, our multicolor images reveal a single, markedly UV-excess object with m_{336}=19.0, m_{439}=19.3, within the X-ray error circle. Correcting for substantial reddening and bandpass differences, we infer B_0=18.1, (U-B)_0=-1.0, clearly an unusual star for a globular cluster. Furthermore, we observe an ultraviolet intensity variation of 30% for this object over 0.5 hr, as well as an even greater variation in m_{439} between two HST observations taken approximately one year apart. The combination of considerable UV-excess and significant variability strongly favors this object as the optical counterpart to the low-mass X-ray binary X1746-370. With a group of five optical counterparts to high-luminosity globular cluster X-ray sources now known, we present a homogeneous set of HST photometry on these objects, and compare their optical properties with those of field low-mass X-ray binaries. The mean (U-B)_0 color of the cluster sources is identical to that of the field sources, and the mean M_{B_0} is similar to bursters in the field. However, the ratio of optical to X-ray flux of cluster sources seems to show a significantly larger dispersion than field sources.

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arXiv1997

CC Bootis: QSO, Not Variable Halo Giant

The poorly-studied, faint (18<m_pg<19.5) variable star CC Bootis has been noted in the literature as a candidate for a halo red giant. It proves instead to be a quasi-stellar object of redshift z=0.172, and is detected as an X-ray source by ROSAT. In addition to its odd heritage, CC Boo exhibits unusually high amplitude optical variability for an optically-selected QSO.

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arXiv1997

Time-Resolved Ultraviolet Observations of the Globular Cluster X-ray Source in NGC 6624: The Shortest Known Period Binary System

Using the Faint Object Spectrograph (FOS) aboard the Hubble Space Telescope, we have obtained the first time-resolved spectra of the King et al. ultraviolet-bright counterpart to the 11-minute binary X-ray source in the core of the globular cluster NGC 6624. This object cannot be readily observed in the visible, even from HST, due to a much brighter star superposed <0.1'' distant. Our FOS data show a highly statistically significant UV flux modulation with a period of 11.46+-0.04 min, very similar to the 685 sec period of the known X-ray modulation, definitively confirming the association between the King et al. UV counterpart and the intense X-ray source. The UV amplitude is very large compared with the observed X-ray oscillations: X-ray variations are generally reported as 2-3% peak-to-peak, whereas our data show an amplitude of about 16% in the 126-251 nm range. A model for the system by Arons & King predicts periodic UV fluctuations in this shortest-known period binary system, due to the cyclically changing aspect of the X-ray heated face of the secondary star (perhaps a very low mass helium degenerate). However, prior to our observations, this predicted modulation has not been detected. Employing the Arons & King formalism, which invokes a number of different physical assumptions, we infer a system orbital inclination 35deg<i<50 deg. Amongst the three best-studied UV/optical counterparts to the intense globular cluster X-ray sources, two are now thought to consist of exotic double-degenerate ultrashort period binary systems.

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arXiv1996

An Ultraviolet-Excess Optical Candidate for the Luminous Globular Cluster X-ray Source in NGC1851

The intense, bursting X-ray source in the globular cluster NGC 1851 was one of the first cluster sources discovered, but has remained optically unidentified for 25 years. We report here on results from Hubble Space Telescope WFPC2 multicolor images in NGC 1851. Our high spatial resolution images resolve ~200 objects in the 3'' radius Einstein X-ray error circle, 40 times as many as in previous ground-based work. A color-magnitude diagram of the cluster clearly reveals a markedly UV-excess object with B~21, (U-B) ~ -0.9 only 2'' from the X-ray position. The UV-excess candidate is 0.12'' distant from a second, unremarkable star that is 0.5 mag brighter in B; thus ground-based studies of this field are probably impractical. Three other UV-excess objects are also present among the ~16,000 objects in the surveyed region of the cluster, leaving a ~5% probability that a UV-excess object has fallen in the X-ray error circle by chance. No variability of the candidate is seen in these data, although a more complete study is required. If this object is in fact the counterpart of the X-ray source, previous inferences that some globular cluster X-ray sources are optically subluminous with respect to low-mass X-ray binaries in the field are now strengthened.

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arXiv1996

HST Imaging of Bright Galactic X-ray Binaries in Crowded Fields

We report high spatial resolution HST imagery and photometry of three well-studied, intense galactic X-ray binaries, X2129+47, CAL 87 and GX17+2. All three sources exhibit important anomalies, not readily interpreted by conventional models. Each source also lies in a severely crowded field, and in all cases the anomalies would be removed if much of the light observed from the ground in fact came from a nearby, thus-far-unresolved superposed companion. For V1727 Cyg (X2129+470), we find no such companion. We also present an HST FOS spectrum and broadband photometry which is consistent with a single, normal star. The supersoft LMC X-ray source CAL 87 was already known from ground-based work to have a companion separated by 0.9'' from the optical counterpart; our HST images clearly resolve these objects, and yield the discovery of an even closer, somewhat fainter additional companion. Our photometry indicates that contamination is not severe outside eclipse, where the companions only contribute 20% of the light in V, but during eclipse more than half of the V light comes from the companions. The previously-determined spectral type of the CAL 87 secondary may need to be reevaluated due to this significant contamination, with consequences on inferences of the mass of the components. We find no companions to NP Ser (=X1813-14, =GX17+2). However, for this object we point out a small but possibly significant astrometric discrepancy between the position of the optical object and that of the radio source which is the basis for the identification. This discrepancy needs to be clarified.

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