cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.10436722
title: Data from: Immune Transcriptional Response in Head Kidney Primary Cell Cultures Isolated from the Three Most Important Species in Chilean Salmonids Aquaculture.

description: Data from  Immune Transcriptional Response in Head Kidney Primary Cell Cultures Isolated from the Three Most Important Species in Chilean Salmonids Aquaculture. Files in .JBN and .xlsx format
description: Fish cell culture is a common in vitro tool for studies in different fields such as virology, toxicology, pathology and immunology of fish. Fish cell cultures are a promising help to study how to diagnose and control relevant viral and intracellular bacterial infections in aquaculture. They can also be used for developing vaccines and immunostimulants, especially with the ethical demand aiming to reduce and replace the number of fish used in research. This study aimed to isolate head kidney primary cell cultures from three Chilean salmonids: Salmo salar, Oncorhynchus kisutch, and Oncorhynchus mykiss, and characterize the response to bacterial and viral stimuli by evaluating various markers of the innate and adaptive immune response. Specifically, the primary cell cultures of the head kidney from the three salmonids studied were cultured and exposed to two substances that mimic molecular patterns of different pathogens, i.e., Lipopolysaccharide (LPS) (bacterial) and Polyinosinic: polycytidylic acid (POLY I:C). Subsequently, we determined the mRNA expression profiles of the TLR-1, TLR-8, IgM, TLR-5, and MHC II genes. Head kidney primary cell cultures from the three species grown in vitro responded differently to POLY I:C and LPS. This is the first study to demonstrate and characterize the expression of immune genes in head kidney primary cell culture isolated from three salmonid species. It also indicates their potential role in developing immune responses as defense response agents and targets of immunoregulatory factors.
description: This work was supported by Fondecyt Regular (1160877) and (1180957), Fondap-Ideal 15150003, ANID-Millennium Science Initiative Program-Center code “ICN2021_002”. D. Nualart awarded the scholarship ANID-Millennium Science Initiative Program-Center code “ICN2021_002”.
DOI: 10.5281/zenodo.10521624
title: A dataset of brain tumor simulations

description: We release a dataset of 30k numerical simulations of brain tumors modelled in brain atlas. 

The tumor model is based on reaction-diffusion partial differential equation. The details about the model can be found in [1], and the brain atlas is taken from [2]. 

Each folder contains a tumor simulation in Data_0001_thr2.npz file and corresponding tumor model parameters in parameter_tag2.pkl file.

 

References:

[1] Learn-Morph-Infer: A new way of solving the inverse problem for brain tumor modeling, Ezhov I. et al., Medical Image Analysis 

[2] The SRI24 multichannel atlas of normal adult human brain structure, Rohlfing T. et al., Human Brain Mapping
DOI: 10.5281/zenodo.10521625
title: A dataset of brain tumor simulations

description: We release a dataset of 30k numerical simulations of brain tumors modelled in brain atlas. 

The tumor model is based on reaction-diffusion partial differential equation. The details about the model can be found in [1], and the brain atlas is taken from [2]. 

Each folder contains a tumor simulation in Data_0001_thr2.npz file and corresponding tumor model parameters in parameter_tag2.pkl file.

 

References:

[1] Learn-Morph-Infer: A new way of solving the inverse problem for brain tumor modeling, Ezhov I. et al., Medical Image Analysis 

[2] The SRI24 multichannel atlas of normal adult human brain structure, Rohlfing T. et al., Human Brain Mapping
DOI: 10.5281/zenodo.10844659
title: Code, data, weights and results for the mitosis classifier

description: Code, data, weights and results for the mitosis classifier of the article


"Automatic Classification of Normal and Abnormal Cell Division Using Deep Learning Analysis of Mitosis Videos"


Pablo Delgado-Rodriguez1, Rodrigo Morales Sánchez, Elouan Rouméas-Noël, François Paris2, Arrate Munoz-Barrutia1


1Universidad Carlos III de Madrid, 2 Centre Régional de Recherche en Cancérologie Immunologie Nantes-Angers
DOI: 10.5281/zenodo.7788747
title: Code, data, weights and results for the mitosis classifier

description: Code, data, weights and results for the mitosis classifier of the article


"Automatic Classification of Normal and Abnormal Cell Division Using Deep Learning Analysis of Mitosis Videos"


Pablo Delgado-Rodriguez1, Rodrigo Morales Sánchez, Elouan Rouméas-Noël, François Paris2, Arrate Munoz-Barrutia1


1Universidad Carlos III de Madrid, 2 Centre Régional de Recherche en Cancérologie Immunologie Nantes-Angers
DOI: 10.5281/zenodo.7788748
title: Code, data, weights and results for the mitosis classifier

description: Code, data, weights and results for the mitosis classifier of the article "Automatic Classification of Normal and Abnormal Cell Division Using Deep Learning Analysis of Mitosis Videos" <em>Pablo Delgado-Rodriguez</em><em><sup>1</sup>, Rodrigo Morales Sánchez, Elouan Rouméas-Noël, François Paris<sup>2</sup>, Arrate Munoz-Barrutia</em><em><sup>1</sup></em> <em><sup>1</sup></em><em>Universidad Carlos III de Madrid, <sup>2 </sup>Centre Régional de Recherche en Cancérologie Immunologie Nantes-Angers</em>
DOI: 10.6084/m9.figshare.25450996
title: <b>USP22 as a Key Regulator of Glycolysis Pathway in Osteosarcoma: Insights from Bioinformatics and Experimental Approaches</b>

description: Flow cytometry data of this research.
DOI: 10.6084/m9.figshare.25450996.v1
title: <b>USP22 as a Key Regulator of Glycolysis Pathway in Osteosarcoma: Insights from Bioinformatics and Experimental Approaches</b>

description: Flow cytometry data of this research.
DOI: 10.48597/a2yj-ectw
title: Measurement of Heavy metals at Råö

description: Measurement of Heavy metals at Råö
DOI: 10.4121/d5fdbc3e-396c-465c-9807-76f468bed6df
title: Data underlying the publication: Enhanced parasitisation of caterpillars and aphids on field-grown Brassica oleracea plants upon soil amendment with insect exuviae

description: Multitrophic plant-insect interactions are mediated by plant volatiles. The emission of herbivore-induced plant volatiles is influenced by environmental conditions, such as soil microbes and nutrient composition, with consequences for aboveground trophic interactions. Here we investigated whether insect exuviae in the soil alter the plant’s volatile blend and attraction of parasitoids in the laboratory and whether this attraction also occurs in the field.We studied the effects of soil amendment with exuviae originating from three insect species, <em>Tenebrio molitor</em>, <em>Acheta domesticus</em>, and <em>Hermetia illucens</em>, on the proportion of parasitised <em>Plutella xylostella</em> caterpillars and <em>Brevicoryne brassicae</em> aphids in the field in three consecutive years. In the laboratory, we collected and analysed the volatile blend of amended plants infested with caterpillars or aphids. The attraction of the parasitoids <em>Diadegma semiclausum</em> and <em>Diaeretiella rapae</em>, respectively, towards these volatile blends was assessed in an olfactometer.Our study shows that insect exuviae amended soil enhanced the proportion of parasitised herbivores of two species in the field. Relative amounts of several components of the plant volatile blend were affected by soil amendment. Soil amendment with <em>Acheta domesticus</em> or <em>Tenebrio molitor</em> exuviae resulted in increased attraction of the two parasitoid species in the olfactometer.Soil amendment with insect exuviae altered the plant volatile blend leading to enhanced attraction of parasitoids in laboratory assays. These effects were sustained under the complex and variable biotic and abiotic conditions in the field. Our results underline the importance of belowground processes, such as the decomposition of insect exuviae, on aboveground volatile-mediated multitrophic interactions.<br>
DOI: 10.4121/d5fdbc3e-396c-465c-9807-76f468bed6df.v1
title: Data underlying the publication: Enhanced parasitisation of caterpillars and aphids on field-grown Brassica oleracea plants upon soil amendment with insect exuviae

description: Multitrophic plant-insect interactions are mediated by plant volatiles. The emission of herbivore-induced plant volatiles is influenced by environmental conditions, such as soil microbes and nutrient composition, with consequences for aboveground trophic interactions. Here we investigated whether insect exuviae in the soil alter the plant’s volatile blend and attraction of parasitoids in the laboratory and whether this attraction also occurs in the field.We studied the effects of soil amendment with exuviae originating from three insect species, <em>Tenebrio molitor</em>, <em>Acheta domesticus</em>, and <em>Hermetia illucens</em>, on the proportion of parasitised <em>Plutella xylostella</em> caterpillars and <em>Brevicoryne brassicae</em> aphids in the field in three consecutive years. In the laboratory, we collected and analysed the volatile blend of amended plants infested with caterpillars or aphids. The attraction of the parasitoids <em>Diadegma semiclausum</em> and <em>Diaeretiella rapae</em>, respectively, towards these volatile blends was assessed in an olfactometer.Our study shows that insect exuviae amended soil enhanced the proportion of parasitised herbivores of two species in the field. Relative amounts of several components of the plant volatile blend were affected by soil amendment. Soil amendment with <em>Acheta domesticus</em> or <em>Tenebrio molitor</em> exuviae resulted in increased attraction of the two parasitoid species in the olfactometer.Soil amendment with insect exuviae altered the plant volatile blend leading to enhanced attraction of parasitoids in laboratory assays. These effects were sustained under the complex and variable biotic and abiotic conditions in the field. Our results underline the importance of belowground processes, such as the decomposition of insect exuviae, on aboveground volatile-mediated multitrophic interactions.<br>
DOI: 10.6084/m9.figshare.25234933
title: <i>Laminaria hyperborea</i>

description: Transcriptome assembly and annotation files of <i>Laminaria hyperborea</i>
DOI: 10.6084/m9.figshare.25234933.v1
title: <i>Laminaria hyperborea</i>

description: Transcriptome assembly and annotation files of <i>Laminaria hyperborea</i>
DOI: 10.6084/m9.figshare.25234936
title: <i>Chondrus crispus</i>

description: Transcriptome assembly and annotation files of <i>Chondrus crispus</i>
DOI: 10.6084/m9.figshare.25234936.v1
title: <i>Chondrus crispus</i>

description: Transcriptome assembly and annotation files of <i>Chondrus crispus</i>
DOI: 10.17617/4.en
title: Rheo-microscopy and flow properties of crystallizing agitated sucrose dispersions

description: Hartge, H., Flöter, E., & Vilgis, T. A. (2024). Rheo-microscopy and flow properties of crystallizing agitated sucrose dispersions. Physics of Fluids, 36(1): 013330. doi:10.1063/5.0185587.
DOI: 10.6084/m9.figshare.24174552
title: Data for (A neglected anthropogenic source of carbon triggered by the combustion of coal: evidence from riverine sulfate, [Paper # 2023GL106392]).

description: These are datasets for the manuscript submitted to GRL (Source of these data are listed in the files)
DOI: 10.6084/m9.figshare.24174552.v3
title: Data for (A neglected anthropogenic source of carbon triggered by the combustion of coal: evidence from riverine sulfate, [Paper # 2023GL106392]).

description: These are datasets for the manuscript submitted to GRL (Source of these data are listed in the files)
DOI: 10.6084/m9.figshare.24174552.v2
title: Data for (A neglected anthropogenic source of carbon triggered by the combustion of coal: evidence from riverine sulfate, [Paper # 2023GL106392]).

description: These are datasets for the manuscript submitted to GRL (Source of these data are listed in the files)
DOI: 10.5281/zenodo.10848521
title: Lake Ulansu Ice Phenology Data (1941–2023)

description: This dataset contains the ice phenology data of Lake Ulansu from 1941 to 2023, derived using passive microwave data for the period 1979–2023 and extended back to 1941 through a random forest model. The data provides insights into the freeze-up start, break-up end, and ice cover duration, contributing to the understanding of ice phenology in the context of climate change.
DOI: 10.5281/zenodo.10848522
title: Lake Ulansu Ice Phenology Data (1941–2023)

description: This dataset contains the ice phenology data of Lake Ulansu from 1941 to 2023, derived using passive microwave data for the period 1979–2023 and extended back to 1941 through a random forest model. The data provides insights into the freeze-up start, break-up end, and ice cover duration, contributing to the understanding of ice phenology in the context of climate change.
DOI: 10.5281/zenodo.10849092
title: [IO Islamic 2515] شمع و پروانه

description: Sham’-u-Parwâna

This manuscript is now IO Islamic 1635 in the India Office collections.

[metadata: Hermann Ethé, Catalogue of Persian Manuscripts in the Library of the India Office, 2 vols. (Oxford: India Office, 1903): volume 1, number 2515 here with notations and hyperlinks].


1635

Sham’ u Parwâna (شمع و پروانه).

Another copy of the first mathnawî in the preceding collection, beginning: اى فرازندۀ رواق سپهر الخ.

On fol. 1a and on the fly-leaf this title is given to it:

قصّۀ پدم ورتن. The date of composition appears here on fol. 94a, l. 4; the correct title, شمع و پروانه , on fol. 93a, l. 7.

No date. Bibliotheca Leydeniana.

No. 2515, ff. 1-95, mostly in diagonal lines, except ff. 1, 5, and 91-95 which have been added later, ll. 10-15; Shikasta; size, 73/4 in. by 45/8 in.
DOI: 10.5281/zenodo.10849093
title: [IO Islamic 2515] شمع و پروانه

description: Sham’-u-Parwâna

This manuscript is now IO Islamic 1635 in the India Office collections.

[metadata: Hermann Ethé, Catalogue of Persian Manuscripts in the Library of the India Office, 2 vols. (Oxford: India Office, 1903): volume 1, number 2515 here with notations and hyperlinks].


1635

Sham’ u Parwâna (شمع و پروانه).

Another copy of the first mathnawî in the preceding collection, beginning: اى فرازندۀ رواق سپهر الخ.

On fol. 1a and on the fly-leaf this title is given to it:

قصّۀ پدم ورتن. The date of composition appears here on fol. 94a, l. 4; the correct title, شمع و پروانه , on fol. 93a, l. 7.

No date. Bibliotheca Leydeniana.

No. 2515, ff. 1-95, mostly in diagonal lines, except ff. 1, 5, and 91-95 which have been added later, ll. 10-15; Shikasta; size, 73/4 in. by 45/8 in.
DOI: 10.48623/aperta.263788
title: Acgh Doxorubicin Veri Seti

description: İlaca duyarlı MCF-7 meme kanseri hücre hattı ile 400 nM ve 1000 nM doksorubisine dirençli hücre hatlarında (sırasıyla MCF-7/400DOX ve MCF-7/1000DOX), nümerik ve büyük yapısal kromozom anomalileri konvansiyonel karyotipleme ile çalışılmıştır. Submikroskobik yapısal anomaliler, özel bir DNA mikrodizin yöntemi olan karşılaştırmalı genomik hibridizasyon (KGH) kullanılarak belirlenmiştir. KGH analizinde, Log2&gt;0.6 kopya sayısı artışı ve Log2&lt;-1 kopya sayısı azalışı olarak belirlenmiştir. Son olarak, etkilenen bölgeler ve bu bölgelerdeki genler, direnç statüsü açısından üç hücre hattı arasında kıyaslanmıştır. KGH analizleri, hücre hatları arasında dramatik farklılıklar gösteren kopya sayısı değişimlerine işaret etmiştir.
DOI: 10.6084/m9.figshare.24259635
title: Trivalent inactivated influenza vaccine response and immunogenicity assessment after one week and three months in repeatedly vaccinated adults

description: The influenza vaccine administrated every year is a recommended infection control procedure for individuals above the age of six months. However, the effectiveness of repeated annual vaccination is still an active research topic. Therefore, we investigated the vaccine immunogenicity in two independent groups: previously vaccinated versus non-vaccinated individuals at three time points; prior vaccination, one week and three months post vaccination. The assessment enabled us to evaluate the elicited immune responses and the durability of the induced protection in both groups. A research study was conducted to assess the immunogenicity of a single dose of Trivalent Inactivated Influenza Vaccine (A/H1N1, A/H3N2, and B) in 278 healthy adults aged between 32 and 66 years. Almost half of the participants, 140 (50·36%), received influenza vaccination at least once precursor to past influenza seasons. One blood sample was taken prior to vaccination for complete blood analysis and baseline immunogenicity assessment. The selected study participants received a single vaccine dose on the first day, and then followed up for three months. Two blood samples were taken after one week and three months post vaccination, respectively, for vaccine immunogenicity assessment. Before vaccination, the seroprotection, defined as a hemagglutination-inhibiting titer of =&gt;1:40, was detected for the three vaccine virus strains in 20 previously vaccinated participants (14·29%) [8·95%, 21·2%]. We compared the overall vaccine response for the three virus strains using a normalized response score calculated from linearly transformed titer measurements; the score before vaccination was 84% higher in the previously vaccinated group and the mean difference between the two groups was statistically significant. Three months post-vaccination, we didn’t find a significant difference in vaccine responses; the number of fully seroprotected individuals became 48 (34·29%) [26·48%, 42·77%] in the previously vaccinated group and 59 (42·75%) [34·37%, 51·45%] in the non-vaccinated group. The calculated response score was almost equal in both groups and the mean difference was no longer statistically significant. Our findings suggest that a single dose of influenza vaccine is equally protective after three months for annually vaccinated adults and first-time vaccine receivers.
DOI: 10.6084/m9.figshare.24259635.v2
title: Trivalent inactivated influenza vaccine response and immunogenicity assessment after one week and three months in repeatedly vaccinated adults

description: The influenza vaccine administrated every year is a recommended infection control procedure for individuals above the age of six months. However, the effectiveness of repeated annual vaccination is still an active research topic. Therefore, we investigated the vaccine immunogenicity in two independent groups: previously vaccinated versus non-vaccinated individuals at three time points; prior vaccination, one week and three months post vaccination. The assessment enabled us to evaluate the elicited immune responses and the durability of the induced protection in both groups. A research study was conducted to assess the immunogenicity of a single dose of Trivalent Inactivated Influenza Vaccine (A/H1N1, A/H3N2, and B) in 278 healthy adults aged between 32 and 66 years. Almost half of the participants, 140 (50·36%), received influenza vaccination at least once precursor to past influenza seasons. One blood sample was taken prior to vaccination for complete blood analysis and baseline immunogenicity assessment. The selected study participants received a single vaccine dose on the first day, and then followed up for three months. Two blood samples were taken after one week and three months post vaccination, respectively, for vaccine immunogenicity assessment. Before vaccination, the seroprotection, defined as a hemagglutination-inhibiting titer of =&gt;1:40, was detected for the three vaccine virus strains in 20 previously vaccinated participants (14·29%) [8·95%, 21·2%]. We compared the overall vaccine response for the three virus strains using a normalized response score calculated from linearly transformed titer measurements; the score before vaccination was 84% higher in the previously vaccinated group and the mean difference between the two groups was statistically significant. Three months post-vaccination, we didn’t find a significant difference in vaccine responses; the number of fully seroprotected individuals became 48 (34·29%) [26·48%, 42·77%] in the previously vaccinated group and 59 (42·75%) [34·37%, 51·45%] in the non-vaccinated group. The calculated response score was almost equal in both groups and the mean difference was no longer statistically significant. Our findings suggest that a single dose of influenza vaccine is equally protective after three months for annually vaccinated adults and first-time vaccine receivers.
DOI: 10.6084/m9.figshare.22261944.v1
title: Safety and immunogenicity of an indigenously developed tetanus toxoid, diphtheria toxoid, and acellular pertussis vaccine (Tdap) in adults, adolescents, and children in India

description: This study assessed safety and immunogenicity of Serum Institute of India Pvt Ltd (SIIPL)’s tetanus toxoid (TT), diphtheria toxoid (DT), and acellular pertussis booster vaccine (Tdap). In this Phase II/III, multicenter, randomized, active-controlled, open-label study, 1500 healthy individuals, aged 4–65 years, were randomized to receive a single dose of SIIPL Tdap or comparator Tdap vaccine (Boostrix®; GlaxoSmithKlines, India). Adverse events (AEs) during initial 30 minutes, 7-day, 30-day post-vaccination were assessed. Blood samples were taken before and 30 days post-vaccination for immunogenicity assessment. No significant differences in incidence of local and systemic solicited AEs were observed between the two groups; no vaccine-related serious AEs were reported. SIIPL Tdap was non-inferior to comparator Tdap in achieving booster responses to TT and DT in 75.2% and 70.8% of the participants, respectively, and to pertussis toxoid (PT), pertactin (PRN), and filamentous hemagglutinin (FHA) in 94.3%, 92.6%, and 95.0% of the participants, respectively. Anti-PT, anti-PRN, and anti-FHA antibody geometric mean titers in both the groups, were significantly higher post-vaccination compared to pre-vaccination. Booster vaccination with SIIPL Tdap was non-inferior to comparator Tdap with respect to immunogenicity against tetanus, diphtheria, and pertussis and was well tolerated.