PMC:7473770 / 7100-9191
Annnotations
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 |