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Single-cell proteo-transcriptomic profiling reveals altered characteristics of stem and progenitor cells in patients receiving cytoreductive hydroxyurea in early-phase chronic myeloid leukemia

This repository contains CITE-seq data generated from CML stem and progenitor cells before and after hydroxyurea treatment using the BD Rhapsody Single-Cell Analysis System.  File descriptions: 1. RSEC-adjusted UMI count files generated using the BD Rhapsody Targeted Analysis Pipeline (v. 1.10.1): <ul> <li>CartridgeS1_RSEC_MolsPerCell.csv</li> </ul> 2. RSEC-adjusted UMI counts for cells remaining after cell quality filtering using SeqGeq software (genes expressed vs library size): <ul> <li>CartridgeS1_RSEC_MolsPerCell_postQC.csv</li> </ul> 3. Sample tag (sample of origin) calls for each putative cell, outputted by the BD Rhapsody Targeted Analysis Pipeline (v. 1.10.1).  <ul> <li>CartridgeS1_Sample_Tag_Calls.csv</li> </ul>

Figure 24 in A description of Echinorhynchus baeri Kostylew, 1928 (Acanthocephala: Echinorhynchidae) from Salmo trutta in Turkey, with notes on synonymy, geographical origins, geological history, molecular profile, and X-ray microanalysis

Figure 24. The printout for the elemental scan (EDXA) for the miniature apical hook at the apex of the E. baeri proboscis. Note the drop in calcium and phosphorus peaks compared to that of normal hooks (Fig. 23).

Figure 1 in A description of Echinorhynchus baeri Kostylew, 1928 (Acanthocephala: Echinorhynchidae) from Salmo trutta in Turkey, with notes on synonymy, geographical origins, geological history, molecular profile, and X-ray microanalysis

Figure 1. Collection site of Echinorhynchus baeri from Salmo trutta in the Kilise Stream, Murat River, Turkey.

Figure 23 in A description of Echinorhynchus baeri Kostylew, 1928 (Acanthocephala: Echinorhynchidae) from Salmo trutta in Turkey, with notes on synonymy, geographical origins, geological history, molecular profile, and X-ray microanalysis

Figure 23. The printout of the elemental scan (EDXA) for the common large hooks for E. baeri. Note height of calcium and phosphorus peaks.

Figures 11–16 in A description of Echinorhynchus baeri Kostylew, 1928 (Acanthocephala: Echinorhynchidae) from Salmo trutta in Turkey, with notes on synonymy, geographical origins, geological history, molecular profile, and X-ray microanalysis

Figures 11–16. SEM of mature specimens of Echinorhynchus baeri from S. trutta in Turkey. 11. Proboscis of a female specimen. Note variation in hook size; smaller hooks at base 12. Anterior hooks. Note indentation at the base of the hooks (arrow). 13. Double miniature hooks at apical end of proboscis (arrow); occasionally one miniature apical hook present. 14. Higher magnification of an apical hook; note perforations. This hook has a low Ca reading (see EDAX data). 15. A gallium cut normal hook from the mid-proboscis. Note prominent calcified root. 16. A gallium cut miniature apical hook. Note the hollow base and absence of roots.

Figures 3–10 in A description of Echinorhynchus baeri Kostylew, 1928 (Acanthocephala: Echinorhynchidae) from Salmo trutta in Turkey, with notes on synonymy, geographical origins, geological history, molecular profile, and X-ray microanalysis

Figures 3–10. Specimens of Echinorhynchus baeri collected from Salmo trutta in Turkey and proboscis hook rows of specimens of E. sevani and E. baeri, respectively, collected from Salmo ischchan in Lake Sevan, Armenia. 3. A male specimen. Note the unique amoeboid, lobulated giant nuclei in the long lemnisci (arrow), the prominent retractor muscles, and the near contiguous ovoid-elongate testes. Proboscis is usually bent ventrad. 4. A gravid female with typically long lemnisci. The reproductive system is obscured by eggs. 5. The female reproductive system. Note the very long and slender uterus and the longitudinal bulge near its distal end (upper arrow). Also note the laterally extending uterine glands at the base of the uterine bell (lower arrow). 6. The proboscis of the male specimens in Fig. 3. Note the uninucleated round cells (arrow). 7. A ripe egg with prominent polar prolongation of the fertilization membrane. 8. A ventral row of proboscis hooks from a male specimen. Note the lack of root manubria anteriorly and the gradual development of manubria with decreasing size of roots posteriorly. 9. Lateral view of hooks of E. sevani after Dinnik (1932) showing variable manubriation in all hook roots ''A = first two hooks. B & C = middle hooks, D & E = last two hooks of the vertical row.'' Measurement bars were not provided. 10. Lateral view of hooks of E. baeri after Kostylew (1928) showing the absence of manubria in all hook roots and the virtual absence of roots of the basal hook; measurement bars were not provided.

Figures 17–22 in A description of Echinorhynchus baeri Kostylew, 1928 (Acanthocephala: Echinorhynchidae) from Salmo trutta in Turkey, with notes on synonymy, geographical origins, geological history, molecular profile, and X-ray microanalysis

Figures 17–22. SEM of mature specimens of Echinorhynchus baeri from S. trutta in Turkey. 17. Sensory pore (arrow) at the base of the proboscis. No micropores here. 18. Epidermal micropores at midtrunk. 19. The posterior end of a female specimen showing terminal gonopore. 20. Egg mass from a dissected female specimen. 21. Bursa of a male specimen. 22. The opening of the bursa showing one ring of sensory knobs (arrow).

Figure 2 in A description of Echinorhynchus baeri Kostylew, 1928 (Acanthocephala: Echinorhynchidae) from Salmo trutta in Turkey, with notes on synonymy, geographical origins, geological history, molecular profile, and X-ray microanalysis

Figure 2. The drainage system of the historic Inner Anatolian freshwater Lake of the Middle Miocene-Pliocene period based on Demirsoy (2008). The drainage is shown to include the Aras, Murat, and Euphrates rivers. Striped lines mark the present borders and coasts of Turkey.

FIGURE 4. P and S in BoneProfileR: The next step to quantify, model, and statistically compare bone section compactness profiles

FIGURE 4. P and S values ffor radial compactness analysis of (A, B) Erinaceus europaeus and (C, D) Eryops megacephalus femur using the flexit model.

FIGURE 3 in BoneProfileR: The next step to quantify, model, and statistically compare bone section compactness profiles

FIGURE 3. Posterior distribution of K1 and K2 parameters of the flexit model applied on Erinaceus europaeus femur (A, B) and on Eryops megacephalus femur (C, D). A -1000 to +1000 uniform prior distribution was used. K1 = K2 = 1 shown in interrupted line is the logistic equation.

FIGURE 2 in BoneProfileR: The next step to quantify, model, and statistically compare bone section compactness profiles

FIGURE 2. Comparison of logistic and flexit fits (A, B) of the Erinaceus europaeus femur shown in Figure 1A and (C, D) of the Eryops megacephalus femur shown in Figure 1B. Table 1 shows the AIC and Akaike weight values for these models.

FIGURE 1 in BoneProfileR: The next step to quantify, model, and statistically compare bone section compactness profiles

FIGURE 1. Example of background and foreground automatic detection in (A) Erinaceus europaeus femur, and (B) Eryops megacephalus femur. Centers were automatically detected in (A) and manually positioned in (B). Here, sections are segmented in 100 concentric circles and 60 slices for measures of global and radial compactness. Details on bone section preparation can be found in Laurin et al. (2004) and Quémeneur et al. (2013).

Fig. 1 in Isotopic profile and mercury concentration in fish of the lower portion of the rio Paraíba do Sul watershed, southeastern Brazil

Fig. 1. Lower portion of the rio Paraíba do Sul watershed with the distribution of the five sampling points: rio Paraíba do Sul in Itaocara (ITA), São Sebastião do Paraíba (SSP) and São Fidélis (SFI); rio Pomba in Baltazar (RPO); rio Dois Rios in Guarani (RDR).

Fig. 4 in Isotopic profile and mercury concentration in fish of the lower portion of the rio Paraíba do Sul watershed, southeastern Brazil

Fig. 4. Relationship between Hg concentrations and δ15N values of the trophic guilds of fish of the lower portion of the rio Paraíba do Sul watershed.

Fig. 3 in Isotopic profile and mercury concentration in fish of the lower portion of the rio Paraíba do Sul watershed, southeastern Brazil

Fig. 3. Isotopic niche areas of the trophic guilds of fish of the lower portion of the rio Paraíba do Sul watershed. Values in ‰2 indicate the corrected standard ellipse areas (SEAcs).

Fig. 2 in Isotopic profile and mercury concentration in fish of the lower portion of the rio Paraíba do Sul watershed, southeastern Brazil

Fig. 2. δ13C and δ15N isotopic signatures of the trophic guilds of fish of the lower portion of the rio Paraíba do Sul watershed. Bars represent standard deviations.

Figure 1 in Molecular profiling of bacterial blight resistance in Malaysian rice cultivars

Figure 1. UPGMA dendrogram showed the patterns of resistance to bacterial blight in Malaysia rice varieties, based on scoring of 13 SSR and 1 STS.

Figure 1 in Antimicrobial resistance profile of Aeromonas spp. isolated from asymptomatic Colossoma macropomum cultured in the Amazonas State, Brazil

Figure 1. Records of Aeromonas spp. isolated from tambaqui (Colossoma macropomum) by fish farms in the rainy season (bars with stripes) and the dry season (bars with dots).

Figure 8 in Socioeconomic aspects and profile of fishing according to fishers of commercial edible fish in the municipality of Barcelos, middle Negro River, Amazonas, Brazil

Figure 8. Most preferred places for fishing by commercial fishermen in the municipality of Barcelos, in the middle Negro River basin, Amazonas.

Figure 7 in Socioeconomic aspects and profile of fishing according to fishers of commercial edible fish in the municipality of Barcelos, middle Negro River, Amazonas, Brazil

Figure 7. Aquatic environment where commercial fishing takes place in the municipality of Barcelos, in the middle Negro River basin, Amazonas.