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PMC:7473770 / 7100-9191 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T37 322-328 Body_part denotes tissue http://purl.org/sig/ont/fma/fma9637
T38 1010-1015 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T39 1029-1035 Body_part denotes tissue http://purl.org/sig/ont/fma/fma9637
T40 1828-1834 Body_part denotes tissue http://purl.org/sig/ont/fma/fma9637

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T30 110-115 Body_part denotes scale http://purl.obolibrary.org/obo/UBERON_0002542
T31 322-328 Body_part denotes tissue http://purl.obolibrary.org/obo/UBERON_0000479
T32 442-447 Body_part denotes Scale http://purl.obolibrary.org/obo/UBERON_0002542
T33 1029-1035 Body_part denotes tissue http://purl.obolibrary.org/obo/UBERON_0000479
T34 1828-1834 Body_part denotes tissue http://purl.obolibrary.org/obo/UBERON_0000479

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T58 96-97 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T59 189-204 http://purl.obolibrary.org/obo/OBI_0000968 denotes instrumentation
T60 312-313 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T61 394-395 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T62 554-569 http://purl.obolibrary.org/obo/OBI_0000968 denotes instrumentation
T63 717-720 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T64 822-823 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T65 830-835 http://purl.obolibrary.org/obo/UBERON_0007688 denotes field
T66 856-857 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T67 897-898 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T68 1010-1015 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T69 1552-1561 http://www.ebi.ac.uk/efo/EFO_0000876 denotes extremely
T70 1684-1695 http://purl.obolibrary.org/obo/OBI_0000968 denotes instruments
T71 1882-1886 http://purl.obolibrary.org/obo/CLO_0001185 denotes 2018

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T35 0-205 Sentence denotes The 3D virtual pathohistology approach for Covid-19 presented here was realized by implementing a novel multi-scale phase contrast x-ray tomography concept, with dedicated x-ray optics and instrumentation.
T36 206-441 Sentence denotes Overview and regions-of-interest (ROI) scans were recorded on the same paraffin-embedded sample, covering a maximum tissue cross section of 8 mm by stitching different tomograms, and with a minimum voxel size of 167 nm in certain ROIs.
T37 442-660 Sentence denotes Scale-bridging and dynamic ROI selection in close spatial and temporal proximity was implemented with dedicated instrumentation the GINIX endstation of the beamline P10/PETRA III (DESY, Hamburg) (Salditt et al., 2015).
T38 661-879 Sentence denotes Specifically, we combined two optical geometries, which has only been realized at different synchrotron beamlines before: (i) Parallel beam tomography, covering a large field of view (FOV), with a pixel size of 650 nm.
T39 880-1232 Sentence denotes In this setting, a volumetric throughput on the order of 107μm/3s was achieved, while maintaining the ability to segment isolated cells in unstained tissue. (ii) Cone beam geometry for recording of highly magnified holograms, based on advanced x-ray waveguide optics, providing mode filtering, that is, enhanced spatial coherence and smooth wavefronts.
T40 1233-1340 Sentence denotes Based on the geometrical magnification, the effective pixel size can be adjusted in the range 10 nm–300 nm.
T41 1341-1422 Sentence denotes The two imaging schemes are shown schematically in Figure 1c and d, respectively.
T42 1423-1696 Sentence denotes Further, using this particular optics, together with appropriate choices of photon energy and geometric parameters, we can reach extremely small Fresnel numbers F of the deeply holographic regime, well below the typical range exploited at other nano-tomography instruments.
T43 1697-1888 Sentence denotes This offers the advantage of highest phase sensitivity sufficient to even probe the small electron density variations of unstained tissue, at relatively low dose (Hagemann and Salditt, 2018).
T44 1889-2091 Sentence denotes To exploit this sensitivity, we use advanced phase retrieval methods including non-linear generalizations of the CTF-method (Cloetens et al., 1999) based on Tikhonov regularization (Lohse et al., 2020).

2_test

Id Subject Object Predicate Lexical cue
32815517-26134789-26997857 654-658 26134789 denotes 2015
32815517-29328301-26997858 1882-1886 29328301 denotes 2018
32815517-32381790-26997859 2085-2089 32381790 denotes 2020

MyTest

Id Subject Object Predicate Lexical cue
32815517-26134789-26997857 654-658 26134789 denotes 2015
32815517-29328301-26997858 1882-1886 29328301 denotes 2018
32815517-32381790-26997859 2085-2089 32381790 denotes 2020

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
116 277-285 Chemical denotes paraffin MESH:D010232
117 43-51 Disease denotes Covid-19 MESH:C000657245