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Figure 6 in Evaluation of Meloidogyne incognita and Rotylenchulus reniformis nematode-resistant cotton cultivars with supplemental Corteva Agriscience nematicides

Figure 6: Field trial R. reniformis eggs per gram of root collected from four root systems. LS means for PHY 332 W3FE (R) and PHY 340 W3FE (S) cotton and nematicide combination at 40 DAP in 2021. P-value for Type III fixed effects for the Variety x Nematicide interaction was 0.0441. Nematicide treatments included no-nematicide control, Reklemel (0.28 L/ha) + Vydate C-LV (1.24 L/ha), C-LV (0.28 +1.24 L/ha), Reklemel (0.56 L/ha) + Vydate C-LV (2.5 L/ha), Reklemel (1.13 L/ha) + Vydate C-LV (5.0 L/ha), BIOST Nematicide 100 (0.026 mg ai/seed), BIOST Nematicide 100, Reklemel (0.28 L/ha) + Vydate C-LV (1.24 L/ha), BIOST Nematicide 100 (0.026 mg ai/seed), Reklemel (0.56 L/ha) + Vydate C-LV (2.5 L/ha), BIOST Nematicide 100 (0.026 mg ai/seed), Reklemel (1.13 L/ha) + Vydate C-LV (5.0 L/ha).

opencc-by-4.0Feb 2023View details →

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Figure 1 in Evaluation of Meloidogyne incognita and Rotylenchulus reniformis nematode-resistant cotton cultivars with supplemental Corteva Agriscience nematicides

Figure 1: M. incognita PHY 340 W3FE susceptible variety on the left and the resistant PHY 360 W3FE on the right at 106 DAP.

opencc-by-4.0Feb 2023View details →

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Figure 5 in Evaluation of Meloidogyne incognita and Rotylenchulus reniformis nematode-resistant cotton cultivars with supplemental Corteva Agriscience nematicides

Figure 5: Field trial R. reniformis eggs per gram of root collected from four root systems LS means for PHY 332 W3FE (R) and PHY 340 W3FE (S) cotton and nematicide combination at 40 DAP in 2020. P-value for Type III fixed effects for the Variety x Nematicide interaction was 0.0178. Nematicide treatments included no-nematicide control, Reklemel (0.28 L/ha) + Vydate C-LV (1.24 L/ha), C-LV (0.28 +1.24 L/ha), Reklemel (0.56 L/ha) + Vydate C-LV (2.5 L/ha), Reklemel (1.13 L/ha) + Vydate C-LV (5.0 L/ha), BIOST Nematicide 100 (0.026 mg ai/seed), BIOST Nematicide 100, Reklemel (0.28 L/ha) + Vydate C-LV (1.24 L/ha), BIOST Nematicide 100 (0.026 mg ai/seed), Reklemel (0.56 L/ha) + Vydate C-LV (2.5 L/ha), BIOST Nematicide 100 (0.026 mg ai/seed), Reklemel (1.13 L/ha) + Vydate C-LV (5.0 L/ha).

opencc-by-4.0Feb 2023View details →

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Figure 2 in Evaluation of Meloidogyne incognita and Rotylenchulus reniformis nematode-resistant cotton cultivars with supplemental Corteva Agriscience nematicides

Figure 2: Field trial M. incognita eggs per gram of root collected from four root systems LS means for PHY 360 W3FE (R) and PHY 340 W3FE (S) cotton and nematicide combination at 40 DAP in 2020. P-value for Type III fixed effects for the Variety x Nematicide interaction was 0.0368. Nematicide treatments included no-nematicide control, Reklemel (0.28 L/ha) + Vydate C-LV (1.24 L/ha), C-LV (0.28 +1.24 L/ha), Reklemel (0.56 L/ha) + Vydate C-LV (2.5 L/ha), Reklemel (1.13 L/ha) + Vydate C-LV (5.0 L/ha), BIOST Nematicide 100 (0.026 mg ai/seed), BIOST Nematicide 100, Reklemel (0.28 L/ha) + Vydate C-LV (1.24 L/ha), BIOST Nematicide 100 (0.026 mg ai/seed), Reklemel (0.56 L/ha) + Vydate C-LV (2.5 L/ha), BIOST Nematicide 100 (0.026 mg ai/seed), Reklemel (1.13 L/ha) + Vydate C-LV (5.0 L/ha).

opencc-by-4.0Feb 2023View details →

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Figure 3 in Evaluation of Meloidogyne incognita and Rotylenchulus reniformis nematode-resistant cotton cultivars with supplemental Corteva Agriscience nematicides

Figure 3: Field trial M. incognita eggs per gram of root collected from four root systems LS means for PHY 360 W3FE (R) and PHY 340 W3FE (S) cotton and nematicide combination at 40 DAP in 2021. P-value for Type III fixed effects for the Variety x Nematicide interaction was 0.0272. Nematicide treatments included no-nematicide control, Reklemel (0.21 L/ha) + Vydate C-LV (0.88 L/ha) Reklemel (0.28 L/ha) + Vydate C-LV (1.24 L/ha, Reklemel (0.56 L/ha) + Vydate C-LV (2.5 L/ha), BIOST Nematicide 100 (0.026 mg ai/seed), BIOST Nematicide 100, Reklemel (0.21 L/ ha) + Vydate C-LV (0.88 L/ha), BIOST Nematicide 100 (0.026 mg ai/seed), Reklemel (0.28 L/ha) + Vydate C-LV (1.24 L/ha), BIOST Nematicide 100 (0.026 mg ai/seed), Reklemel (0.56 L/ha) + Vydate C-LV (2.50 L/ha).

opencc-by-4.0Feb 2023View details →

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Figure 4 in Evaluation of Meloidogyne incognita and Rotylenchulus reniformis nematode-resistant cotton cultivars with supplemental Corteva Agriscience nematicides

Figure 4: Auburn University's Tennessee Valley Research Extension Center showing the nematode susceptible PHY 340 W3FE on the left and the R. reniformis-resistant PHY 332 W3FE on the right 102 DAP.

opencc-by-4.0Feb 2023View details →

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Supplement - Structure from Motion Metadata and Outcomes

Ground control points used to ensure Structure from Motion (SfM) terrain models were georectified (Westoby et al. 2012; Wolf 2021) using Emlid R2 RTK (real-time kinematic) GNSS (global navigation satellite system) system consisting of a base station set up over an established known point (established with Canadian Geodetic Survey of Natural Resources Canada (NRCAN) service Canadian Spatial Reference System Precise Point Positioning (CSRS- PPP)) and a rover.  Once the ground control points were surveyed, aerial drone images were acquired. We created flight polygons in Drone Deploy. Pictures were captured with a DJI Mavic II drone with minimum 80 % overlap of photos. Drone Deploy was chosen because it has an option to account for the doming error commonly found in models created from drone imagery and structure from motion (SfM). The doming effect is a systematic error that impacts the DEMs vertical component and can provide errors larger than the usual centimeter level (Sanz-Ablanedo et al. 2020). Generally, each site was flown once in fall of 2020 and once in spring of 2021.  We created orthorectified images and digital terrain models using Agisoft Metashape, a photogrammetric processing software application that uses SfM. We followed the workflow outlined in Bywater-Reyes and Pratt-Sitaula (2022). Once processed, orthorectified imagery and Digital Elevation Models (DEMs) were exported to ArcGIS Pro for additional analysis. Data collection metadata and postprocessing outcomes can be found in this Zenodo repository.

openmit-licenseJun 2024View details →

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Supplement - 10Be Raw Data

Bedrock samples were pulverized to 62-250 μm at Northern Colorado University. At the University of Wyoming, magnetic and density separations were used to isolate quartz, and samples were leached with nitric and hydrofluoric acids to remove meteoric 10Be (Kohl and Nishiizumi, 1992; Whitmore et al., 2021; Corbett et al, 2021). Samples were dissolved, spiked with a 9Be carrier, Be was chemically isolated (Corbett et al., 2021), and the 10Be/9Be ratio was measured by Accelerator Mass Spectrometry at PRIMELab (Muzikar, 2003). Topographic shielding was calculated using the approach of Dunne 1999, and erosion rates were calculated using the CRONUS calculator (version 3, wrapper script version 3.1 and 10Be production by muons version 3.1). Erosion rates reported here use the 10Be production scaling framework of <a href="https://www.zotero.org/google-docs/?E3caIC">Lal (1991)</a> and <a href="https://www.zotero.org/google-docs/?L5s6dN">Stone (2000)</a>. CRONUS inputs needed to reproduce these calculations for other scaling schemes are reported in this Zenodo repository, along with 10Be resutls from PRIMELab.

openmit-licenseJun 2024View details →

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Supplemental file for the manuscript "Utility of salivary cortisol and cortisone in the diagnostics of adrenal insufficiency"

Supplemental file for the manuscript "Utility of salivary cortisol and cortisone in the diagnostics of adrenal insufficiency"

opencc-by-4.0Jun 2024View details →

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Supplement to "Discriminating non-stationary flood hazard effects via probabilistic estimation of sparse residuals from rescued and rated stage–discharge data"

This supplement contains the data and script associated with “Sparse hydrometric data rescue for exploratory analyses of conveyance-driven flood hazard trends and controls,” which has been submitted to a journal for consideration. This supplement is deposited on Zenodo.   Code, Data, and Attribute Descriptions   Uploaded are five directories (indicated in bold font, with their contents detailed below) containing input data and various outputs of the analyses performed for our case study on the Pulangi River at Lumayong (Philippines). Please consider this description equivalent to an omnibus README file for the deposited files. Note that we collected and rescued the hydrometric data herein from the archives of the Water Projects Division (WPD) of the Philippine Department of Public Works and Highways (DPWH).   ●      Pln_R_code contains (1) Pln_RC.R, the R script file, and (2) 240601_Pln_RC.RData, which stores objects generated from the script based on the last execution (on 1 June 2024). The script consists of admittedly too many lines of code (e.g., for data wrangling, formal analyses, and producing figures used in the manuscript) that should have been split into multiple .R files. Apologies. Please be guided by the outline and the comments and kindly reach out lest issues with the code arise.   ●      Pln_GH_PDFs contains the scanned gaugekeeper’s reports of gauge heights (“stages”).    ○      The name of each file varies. For example, Pln-GH-1100.pdf contains daily stage readings for all months in the year 2011. But, if the last two digits are not zeroes, as in Pln-GH-1204.pdf, they refer to the month of that year; in this case, for example, the PDF file contains stage data for the month of April in the year 2012. ○      Each scanned sheet contains sub-daily (with readings at “AM,” “NOON,” and “PM”) and mean daily stages for a given month. ○      Also indicated are the gaugekeeper’s remarks on the daily weather (e.g., “fair,” “cloudy”). Under inclement weather, the gaugekeeper would note the duration of rainfall and its intensity and might, at times, record extra stage readings.   ●      Pln_DM_PDFs contains the following PDF files and a sub-directory: ○      Pln-DM-<XXXXXX>.pdf contains the scanned log for each direct stage—discharge measurement, otherwise known as “gaugings.” Each file is named according to the date of gauging (YYMMDD). For example, the log for the gauging performed on 24 February 2011 can be found in the file Pln-DM-110224.pdf. Data from these gaugings are summarized in Pln-DM-filtered.csv in the Pln_In_CSVs directory. ■      The readability of each file varies based on the original quality of the original paper-format data. ■      The first page in each file contains, on the left side, a summary of the gauging data and metadata (e.g., date of measurement, number of gauging verticals or “sections” used, method of crossing or measuring the cross-section), and on the right side, the velocity—area readings at each gauging vertical. ■      The second page in each file contains the plotted cross-section of the channel at the time of measurement. ○      Pln-RC.pdf contains various other paper-format data and some annotations relevant to the historical rating at the station. ■      P. 1: The hydrographic engineer’s comment (dated 19 January 2012) on the evaluation of the discharge data, specifically detailing the periods of validity of the rating curves developed for different sub-periods of monitoring. ■      PP. 2—3: A summary table of all the gaugings performed from 1983 to 2010 whose logs were no longer retrievable (and hence not included as a DM-PDF file in this directory). ■      PP. 4—5: Plots of the official stage—discharge rating curves developed by DPWH hydrographers. ■      PP. 6—8: Rating tables used to convert daily mean stages to deterministic discharge estimates. Two of these rating tables were digitized and can be found in the Pln_RatingTables sub-directory in Pln_In_CSVs. ■      PP. 9—22: Daily stage (m) and its corresponding daily discharge (L/s) for the 2004—2010 sub-period. The stages were digitized and included in Pln-H_arch.csv in the Pln_In_CSVs directory. ○      Pln_DM_unused contains the PDF files of logs (including data and metadata) corresponding to the gaugings that were excluded from our analysis following our filtering step for gauging location consistency.   ●      Pln_In_CSVs contains the following CSV files and two sub-directories; these files were used as inputs to the R script for formal analyses: ○      Pln-H_arch.csv contains the mean daily stage values [“H_bar_arch”] (m) for every day in the 2004—2020 sub-period [“Date”] (YYYY-MM-DD). The stages in this file are already corrected for gross errors. ○      Pln-DM-filtered.csv contains the following information on the gaugings performed on the Pulangi at Lumayong (1983—2020): (i) date [“Date”] (YYYY-MM-DD); (ii) stage [“H”] (m); (iii) discharge in L/s [“Q_lps”] and m3/s [“Q_cms”]; (iv) wetted area [“A_sqm”] (m2); (v) mean flow velocity [“Vel_mps”] (m/s); (vi) channel width [“W_m”] (m); (vii) mean flow depth [“D_ave_m”] (m); (viii) location of the measurement cross-section with respect to the staff gauge, with negative values meaning downstream of the gauge and positive values meaning upstream of the gauge [“XS_loc_wrt_gage”]; (ix) maximum flow depth [“Max_Depth_m”] (m); and (x) minimum streambed elevation [“MINSBE”] (m). Note that this file includes only gaugings that passed our filtering step for measurement location consistency. ○      Pln-DM_oview.csv contains information on the temporal coverage (bounded by “Start_date” and “End_date”) of the available hydrometric data from the station archives. ○      Pln-H_sample_GrossE_corr.csv contains a sample sub-period (2017-06-15 through 2017-11-30) and the corresponding values of stages (m), uncorrected [“H_uncorrected”] and corrected for gross errors [“H_corrected”]. This CSV file was used as an input to the R script to produce one of the figures in the manuscript.  ○      Pln-XS-csv.csv contains data on the gauging transects: gauging ID [“GaugingID”]; date [“Date”] (YYYY-MM-DD); lateral distance from a fixed initial point [“Lat_distance”] (m); width of the gauging vertical [“Width_vert..m.”] (m); depth relative to the water surface [“Depth..m.”] (m); stage at the gauging vertical [“H_m_vert..m.”] (m); and elevation with respect to a fixed arbitrary datum at the station [“Elev..m.”] (m). ○      Pln_Rating_Tables contains two rating tables, Pln-DM - RatingTable_A.csv and Pln-DM - RatingTable_B.csv, prepared and used by DPWH hydrographers for converting stage values to deterministic discharge estimates for the Pulangi River at Lumayong for the 1980s—early 2000s sub-period. Each rating table contains columns for stage [“H”], discharge in L/s [“Q_lps”], and discharge in m3/s [“Q_cms”]. ○      Pln_Q_rated contains two CSV files: Pulangi.csv has the columns “YEAR”, “DAY”, and every month of the year [“JAN” through “DEC”] for the 1983—2003 sub-period, with the values under each month column indicating the deterministic discharge estimates in L/s; Pulangi_trunc.csv contains similarly formatted data, but for the 2009—2010 sub-period.   ●      Pln_Out_CSVs contains two CSV files, the primary outputs of the hydrometric data rescue effort. ○      Pln_Q_recon.csv contains the reconstructed discharge time series (1983—2020) and its associated uncertainties at the 95% credibility interval. It has the following columns: date [“Date”] (YYYY-MM-DD); daily stage [“H”] (m); lower bound of the discharge estimate [“Q_lwr”] (m3/s); median discharge estimate [“Q_med”] (m3/s); and the upper bound of the discharge estimate [“Q_upr”] (m3/s). Pln_H_recon.csv contains the reconstructed and quality-controlled stage time series (1983—2020). It has the following columns: date [“Date”] (YYYY-MM-DD); mean daily stage that has been corrected for gross errors, but not yet filtered through other quality checks [“H_bar_arch”] (m); quality check for low outliers [“Low_Outlier”] (TRUE/FALSE); quality check for flatliners [“Flatliner”] (TRUE/FALSE); difference between the stage values on day i and day i-1 [“Daily_Step”] (m); quality check for large steps [“Large_Step”] (TRUE/FALSE); and the corrected and quality-controlled mean daily stage values [“H”] (m).

opencc-by-4.0Jun 2024View details →

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Fig. 3 in An Effectiveness Of Artemia Nauplii Enrichment With Polyunsaturated Fatty Acids Using A Supplement Easy Dha Selco

Fig. 3. Lipase (А) та α-amylase (B) activities in Artemia nauplii at the different schemes of bioencapsulation with Easy DHA Selco.

opencc-by-4.0Dec 2017View details →

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Fig. 2 in An Effectiveness Of Artemia Nauplii Enrichment With Polyunsaturated Fatty Acids Using A Supplement Easy Dha Selco

Fig. 2. Total proteolytic activity in Artemia nauplii at the different pH during bioencapsulation with Easy DHA Selco (A – pH 4.8; B – pH 7.4; C – pH 9.0).

opencc-by-4.0Dec 2017View details →

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Lightning Observations with the1 Horus Polarimetric Phased Array Radar Supplemental Material

Open the record for dataset details and reuse information.

opencc-by-4.0Jul 2024View details →

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Supplemented SingleM package inclusive of MAGs beyond GTDB

The main SingleM reference package is available at https://zenodo.org/doi/10.5281/zenodo.5739611 Here, the default GTDB R214-based SingleM reference database (metapackage) was supplemented with genomes from the 'UHGG' version 2(Almeida et al. 2021), 'SPIRE' (excluding "specI" isolate genomes)(Schmidt et al. 2023), 'SMAG'(Ma et al. 2023), 'GEM'(Nayfach et al. 2021) MAG collections, as well as those from derived from Oceans by Paoli et. al.(Paoli et al. 2022).

opencc-by-4.0Dec 2023View details →

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Figs. 6–10. 6. Cerithium magnum Jay, 1836 in Catalog Of Recent Type Specimens In The Division Of Invertebrate Zoology, American Museum Of Natural History. V. Mollusca, Part 2 (Class Gastropoda [Exclusive Opisthobranchia And Pulmonata With Supplements To Gastropoda [Opisthobranchia], And Bivalvia

Figs. 6–10. 6. Cerithium magnum Jay, 1836 (lectotype—AMNH 56067), X 0.75. 7. Conus Bernardi and Crosse, 1861 (syntype—AMNH 47629), X 1.75. 8. Conus pseudoaustini Usticke, (holotype—AMNH 195452), X 2. 9. Cyclostoma maculosa Jay, 1839 (syntype—AMNH 56086), 10. Cyclostoma multilineata Jay, 1839 (syntype—AMNH 56087), X 2.6.

opencc-by-4.0Jun 2001View details →

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Supplemental Material to "Efficiency of Virucidal Disinfectants on Wood Surfaces in Animal Husbandry"

Data set for individual titre reduction of viruses on wood surfaces treated with a disinfactant in multiple experiments.

opencc-by-4.0May 2024View details →

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Supplement code and data for "A global multi-indicator assessment of the environmental impact of livestock products"

This data and code supplements the publication "A global multi-indicator assessment of the environmental impact of livestock products" by Giorgio A. Bidoglio, Florian Schwarzmueller, Thomas Kastner available here: https://doi.org/10.1016/j.gloenvcha.2024.102853 Version 1.1 add the code to the visualization tool available online at https://livestockimpactassessment.shinyapps.io/multi-indicator_impact_assessment_of_livestock_products/

opencc-by-4.0Jun 2024View details →

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Рис. 1. Рисуночный кΛюч ΑΛя опреΑеΛения самцов виΑов роΑа Asperotobrilus Shoshin 1991. А, Г, Ж, И, Н — гоΛова самца; Б, О — суппΛемент; В, Е, З, Λ — заΑний конец теΛа самца; Á, К — спикуΛы и руΛек; М — самец цеΛиком Fig. 1. Picture key for identifying male species of the genus Asperotobrilus Shoshin 1991. А, Г, Ж, И, Н — head of male; Б, О — supplement; В, Е, З, Λ — posterior body end of male; Á, К — spicules and gubernaculum; М — male, entire body in Review of the Asperotobrilus Shoshin 1991 (Nematoda, Triplonchida, Tobrilidae) genus

Рис. 1. Рисуночный кΛюч ΑΛя опреΑеΛения самцов виΑов роΑа Asperotobrilus Shoshin 1991. А, Г, Ж, И, Н — гоΛова самца; Б, О — суппΛемент; В, Е, З, Λ — заΑний конец теΛа самца; Á, К — спикуΛы и руΛек; М — самец цеΛиком Fig. 1. Picture key for identifying male species of the genus Asperotobrilus Shoshin 1991. А, Г, Ж, И, Н — head of male; Б, О — supplement; В, Е, З, Λ — posterior body end of male; Á, К — spicules and gubernaculum; М — male, entire body

opencc-by-4.0Dec 2021View details →

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Рис. 4. Фотографии Mongolotheristus tsalolichini sp. nov., гоΛотип самца (a, b, d, f, g, h, k) и паратип самца (с, e, i): a — общий виΑ; b, с — гоΛова; d — переΑний конец теΛа; e — теΛо в обΛасти прекΛоакаΛьных суппΛементов; f — прекΛоакаΛьный отΑеΛ теΛа; g — теΛо в обΛасти кΛоаки; h, i — хвост, k — терминус хвоста. Обозначения: cl — кΛоака; c.p. — хвостовые папиΛΛы; f.a. — фовея амфиΑ; gub — руΛек; ols — внешние губные щетинки; ph — фаринкс; phst — фарингостома; spic — спикуΛа; sup — суппΛементы; t — хвост; t.s. — терминаΛьная щетинка. Масштаб: a — 50 мкм; d — 20 мкм; с, f, h, i — 10 мкм; b, e, g, k — 5 мкм Fig. 4. Light micrographs of Mongolotheristus tsalolichini sp. nov., male holotype (a, b, d, f, g, h, k) and male paratype (c, e, i): a — general view; b, с — head; d — anterior body end; e — body in the region of precloacal supplements; f — precloacal region of the body; g — cloaca region; h, i — tail, k — tail terminus. Abbreviations: cl — cloaca; c.p. — caudal papillae, f.a. — fovea of amphid; gub — gubernaculum; ols — outer labial setae; ph — pharynx; phst — pharyngostoma; spic — spicula; sup — supplements; t — tail; t.s. — terminal setae. Scale bars: a — 50 µm; d — 20 µm; с, f, h, i — 10 µm; b, e, g, k — 5 µm in Geomonhystera longisoma sp. nov. and Mongolotheristus tsalolichini sp. nov. (Nematoda, Monhysterida) from Mekong River mouth, Vietnam

Рис. 4. Фотографии Mongolotheristus tsalolichini sp. nov., гоΛотип самца (a, b, d, f, g, h, k) и паратип самца (с, e, i): a — общий виΑ; b, с — гоΛова; d — переΑний конец теΛа; e — теΛо в обΛасти прекΛоакаΛьных суппΛементов; f — прекΛоакаΛьный отΑеΛ теΛа; g — теΛо в обΛасти кΛоаки; h, i — хвост, k — терминус хвоста. Обозначения: cl — кΛоака; c.p. — хвостовые папиΛΛы; f.a. — фовея амфиΑ; gub — руΛек; ols — внешние губные щетинки; ph — фаринкс; phst — фарингостома; spic — спикуΛа; sup — суппΛементы; t — хвост; t.s. — терминаΛьная щетинка. Масштаб: a — 50 мкм; d — 20 мкм; с, f, h, i — 10 мкм; b, e, g, k — 5 мкм Fig. 4. Light micrographs of Mongolotheristus tsalolichini sp. nov., male holotype (a, b, d, f, g, h, k) and male paratype (c, e, i): a — general view; b, с — head; d — anterior body end; e — body in the region of precloacal supplements; f — precloacal region of the body; g — cloaca region; h, i — tail, k — tail terminus. Abbreviations: cl — cloaca; c.p. — caudal papillae, f.a. — fovea of amphid; gub — gubernaculum; ols — outer labial setae; ph — pharynx; phst — pharyngostoma; spic — spicula; sup — supplements; t — tail; t.s. — terminal setae. Scale bars: a — 50 µm; d — 20 µm; с, f, h, i — 10 µm; b, e, g, k — 5 µm

opencc-by-4.0Dec 2022View details →

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Supplemental Results for Assembly, Annotation, and Analysis from HiFi reads of Gulf Toadfish Genome and Transcriptome fOpsBet2.1

This repository contains gzipped tarballs of the results of the various assembly, annotation, and analysis steps performed during the assembly of the fOpsBet2.1 genome assembly for Opsanus beta at the University of Miami Rosenstiel School of Marine, Atmospheric, and Earth Science for the McDonald Toadfish Lab. These results are too numerous to include as supplemental data for a journal publication and so are available here for review. In this repository you will find results for:Scripts:-all bash and LSF scheduler job scripts used as part of the analysis, both exploratory and final. QC:-GenomeScope2 estimation of genome metrics from HiFi Reads-QUAST genome statistics for each assembly step-BUSCO completeness assessments for each assembly step -inspector logs for polishing of initial assembly-logs from Kraken2 contaminant screenAssembly and Scaffolding:-ntLINKS logs and intermediates for initial scaffolding-ragtag logs and metrics for super-scaffolding to the ThaAma1.1 T. amazonica reference assembly-mitoHIFI results for mitogenome assembly from HiFi reads, primary assembly, and purged alternate assemblyAnnotation:-PASA directory with full input and output for SQLite PASA assembly of transcriptome for gene predictors-Results folder for Funannotate::annotate for gene models, annotations, and CDS/mRNA/protein fastas-InterProSCan5 results for protein annotation used as input into Funannotate-ghostKOALA KEGG assignment results for predicted proteins from funannotate resultsRepetitive Elements:-tidk telomere repeat analysis results-TRAH satellite DNA analysis with subsequent analysis with HiCAT and StainedGlass-RepeatModeler results for de novo TE prediction-repclassifier results for TE curationComparative Analysis:-OrthoFinder ortholog search for O. beta to several other vertebrates-CAFE5 gene family expansion and contraction of Orthogroups from OrthoFinder results

opencc-by-4.0Jul 2024View details →

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Allen Brain Atlas

Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.

allen-brain-atlas

neuroscienceopenDocumentation, web resources, and API references are available online.

Last verified 2026-04-30Open record

Annotated Behaviour and Observability Dataset (ABODe)

ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.

abode-home-cage

behavioral-neuroscienceopenThe DataShare record exposes download links for annotations, documentation, license text, and the zipped per-snippet data directory.

Last verified 2026-04-30Open record

DANDI Archive for NWB datasets

DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.

dandi-nwb

electrophysiologyopenPublished Dandiset metadata and archive endpoints are available through the production DANDI API.

Last verified 2026-04-30Open record

International Brain Laboratory public data

The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.

ibl

behavioral-neuroscienceopenPublic sessions can be searched and loaded from the IBL public data server through ONE.

Last verified 2026-04-29Open record

OpenNeuro

OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.

openneuro

neuroscienceopenPublished datasets are available on demand over the internet.

Last verified 2026-04-29Open record

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Dataset results

Figure 6 in Evaluation of Meloidogyne incognita and Rotylenchulus reniformis nematode-resistant cotton cultivars with supplemental Corteva Agriscience nematicides

Figure 1 in Evaluation of Meloidogyne incognita and Rotylenchulus reniformis nematode-resistant cotton cultivars with supplemental Corteva Agriscience nematicides

Figure 5 in Evaluation of Meloidogyne incognita and Rotylenchulus reniformis nematode-resistant cotton cultivars with supplemental Corteva Agriscience nematicides

Figure 2 in Evaluation of Meloidogyne incognita and Rotylenchulus reniformis nematode-resistant cotton cultivars with supplemental Corteva Agriscience nematicides

Figure 3 in Evaluation of Meloidogyne incognita and Rotylenchulus reniformis nematode-resistant cotton cultivars with supplemental Corteva Agriscience nematicides

Figure 4 in Evaluation of Meloidogyne incognita and Rotylenchulus reniformis nematode-resistant cotton cultivars with supplemental Corteva Agriscience nematicides

Supplement - Structure from Motion Metadata and Outcomes

Supplement - 10Be Raw Data

Supplemental file for the manuscript "Utility of salivary cortisol and cortisone in the diagnostics of adrenal insufficiency"

Supplement to "Discriminating non-stationary flood hazard effects via probabilistic estimation of sparse residuals from rescued and rated stage–discharge data"

Fig. 3 in An Effectiveness Of Artemia Nauplii Enrichment With Polyunsaturated Fatty Acids Using A Supplement Easy Dha Selco

Fig. 2 in An Effectiveness Of Artemia Nauplii Enrichment With Polyunsaturated Fatty Acids Using A Supplement Easy Dha Selco

Lightning Observations with the1 Horus Polarimetric Phased Array Radar Supplemental Material

Supplemented SingleM package inclusive of MAGs beyond GTDB

Figs. 6–10. 6. Cerithium magnum Jay, 1836 in Catalog Of Recent Type Specimens In The Division Of Invertebrate Zoology, American Museum Of Natural History. V. Mollusca, Part 2 (Class Gastropoda [Exclusive Opisthobranchia And Pulmonata With Supplements To Gastropoda [Opisthobranchia], And Bivalvia

Supplemental Material to "Efficiency of Virucidal Disinfectants on Wood Surfaces in Animal Husbandry"

Supplement code and data for "A global multi-indicator assessment of the environmental impact of livestock products"

Supplemental Results for Assembly, Annotation, and Analysis from HiFi reads of Gulf Toadfish Genome and Transcriptome fOpsBet2.1

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Allen Brain Atlas

Annotated Behaviour and Observability Dataset (ABODe)

DANDI Archive for NWB datasets

International Brain Laboratory public data

OpenNeuro

Your academic CV and NIH biosketch