cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6570929.v1
title: Intact NIST monoclonal antibody characterization—Proteoforms, glycoforms—Using CE-MS and CE-LIF

description: Determining and linking the structural heterogeneity of recombinant antibodies to function is critical in the biopharmaceutical industry. We introduce a new microfluidic capillary electrophoresis—mass spectrometry (μCE-MS) approach to characterize intact monoclonal antibody (mAb) and simultaneously quantifying distinct variants. Our MS analysis of intact NIST mAb (RM8671) shows 18 variants identified amongst proteolytic and glycolytic modifications with a range of relative abundances between 0.1% and 100%. In order to verify our quantitative MS results, we used an established system based on capillary electrophoresis—with laser induced fluorescence (CE-LIF) for profiling the N-glycans. All major glycans were identified and further substantiated by exoglycosidase digestion. Interestingly, the µCE-MS analysis of intact NIST mAb consistently yielded higher amounts of G2FG2F-Hex glycoform (~3.4%), whereas the CE-LIF analysis indicates that only 1.4% of G2F-Gal is present. Therefore, the additional hexose adduct observed in µCE-MS may have been the glycation product of the mAb. Further analysis of deglycosylated mAb with µCE-MS made it possible to reveal the glycation with 10.5% of one hexose product and 4.9% of two hexose product in the intact deglycosylated antibody. An integrated solution using two orthogonal and complementary techniques for characterizing antibody glycosylation is provided here.
DOI: 10.6084/m9.figshare.14435267
title: Additional file 3 of Genomic tools development for Aquilegia: construction of a BAC-based physical map

description: Additional file 3:Spread sheet of the detail sequence information of the overgo probes used in this study. The probes with the nomenclature of Aq_SR_ctg and AHOTEg were derived from drought stress ESTs, while the TC probes were from a list of genes potentially involved in anthocyanin biosynthesis or floral development. To generate the probes, marker sequences were processed through a pipeline composed of RepeatMasker, Cross-Match and Tandem Repeat Finder to remove low complex sequence regions before screening for overgo oligomers by OligoSpawn. (XLS 64 KB)
DOI: 10.6084/m9.figshare.14435267.v1
title: Additional file 3 of Genomic tools development for Aquilegia: construction of a BAC-based physical map

description: Additional file 3:Spread sheet of the detail sequence information of the overgo probes used in this study. The probes with the nomenclature of Aq_SR_ctg and AHOTEg were derived from drought stress ESTs, while the TC probes were from a list of genes potentially involved in anthocyanin biosynthesis or floral development. To generate the probes, marker sequences were processed through a pipeline composed of RepeatMasker, Cross-Match and Tandem Repeat Finder to remove low complex sequence regions before screening for overgo oligomers by OligoSpawn. (XLS 64 KB)
DOI: 10.6084/m9.figshare.17056682
title: Additional file 1 of Identification of cold tolerance QTLs at the bud burst stage in 211 rice landraces by GWAS

description: Additional file 1: Table S1. Geographical distribution and indica or japonica type of 211 rice varieties
DOI: 10.6084/m9.figshare.17056685
title: Additional file 2 of Identification of cold tolerance QTLs at the bud burst stage in 211 rice landraces by GWAS

description: Additional file 2: Table S2. SR of the 211 rice varieties
DOI: 10.6084/m9.figshare.17056682.v1
title: Additional file 1 of Identification of cold tolerance QTLs at the bud burst stage in 211 rice landraces by GWAS

description: Additional file 1: Table S1. Geographical distribution and indica or japonica type of 211 rice varieties
DOI: 10.6084/m9.figshare.17056685.v1
title: Additional file 2 of Identification of cold tolerance QTLs at the bud burst stage in 211 rice landraces by GWAS

description: Additional file 2: Table S2. SR of the 211 rice varieties
DOI: 10.6084/m9.figshare.17056688
title: Additional file 3 of Identification of cold tolerance QTLs at the bud burst stage in 211 rice landraces by GWAS

description: Additional file 3: Table S3. 39 candidate genes for qSR9
DOI: 10.6084/m9.figshare.17056688.v1
title: Additional file 3 of Identification of cold tolerance QTLs at the bud burst stage in 211 rice landraces by GWAS

description: Additional file 3: Table S3. 39 candidate genes for qSR9
DOI: 10.6084/m9.figshare.17056691
title: Additional file 4 of Identification of cold tolerance QTLs at the bud burst stage in 211 rice landraces by GWAS

description: Additional file 4: Table S4. The SNPs data used for performed GWAS
DOI: 10.6084/m9.figshare.17056691.v1
title: Additional file 4 of Identification of cold tolerance QTLs at the bud burst stage in 211 rice landraces by GWAS

description: Additional file 4: Table S4. The SNPs data used for performed GWAS
DOI: 10.6084/m9.figshare.14435291.v4
title: Additional file of Genomic tools development for Aquilegia: construction of a BAC-based physical map

description: Additional file of Genomic tools development for Aquilegia: construction of a BAC-based physical map
DOI: 10.6084/m9.figshare.8668136
title: Towards a novel small animal proton irradiation platform: the SIRMIO project

description: <b>Background:</b> Precision small animal radiotherapy research is a young emerging field aiming to provide new experimental insights into tumor and normal tissue models in different microenvironments, to unravel complex mechanisms of radiation damage in target and non-target tissues and assess efficacy of novel therapeutic strategies. For photon therapy, modern small animal radiotherapy research platforms have been developed over the last years and are meanwhile commercially available. Conversely, for proton therapy, which holds potential for an even superior outcome than photon therapy, no commercial system exists yet. <b>Material and methods:</b> The project SIRMIO (Small Animal Proton Irradiator for Research in Molecular Image-guided Radiation-Oncology) aims at realizing and demonstrating an innovative portable prototype system for precision image-guided small animal proton irradiation, suitable for installation at existing clinical treatment facilities. The proposed design combines precise dose application with <i>in situ</i> multi-modal anatomical image guidance and <i>in vivo</i> verification of the actual treatment delivery. <b>Results and conclusions:</b> This manuscript describes the status of the different components under development, featuring a dedicated beamline for degradation and focusing of clinical proton beams, along with novel detector systems for <i>in situ</i>imaging and range verification. The foreseen workflow includes pre-treatment proton transmission imaging, complemented by ultrasonic tumor localization, for treatment planning and position verification, followed by image-guided delivery with <i>on site</i> range verification by means of ionoacoustics (for pulsed beams) and positron-emission-tomography (PET, for continuous beams). The proposed compact and cost-effective system promises to open a new era in small animal proton therapy research, contributing to the basic understanding of <i>in vivo</i> radiation action to identify areas of potential breakthroughs for future translation into innovative clinical strategies.
DOI: 10.6084/m9.figshare.8668136.v1
title: Towards a novel small animal proton irradiation platform: the SIRMIO project

description: <b>Background:</b> Precision small animal radiotherapy research is a young emerging field aiming to provide new experimental insights into tumor and normal tissue models in different microenvironments, to unravel complex mechanisms of radiation damage in target and non-target tissues and assess efficacy of novel therapeutic strategies. For photon therapy, modern small animal radiotherapy research platforms have been developed over the last years and are meanwhile commercially available. Conversely, for proton therapy, which holds potential for an even superior outcome than photon therapy, no commercial system exists yet. <b>Material and methods:</b> The project SIRMIO (Small Animal Proton Irradiator for Research in Molecular Image-guided Radiation-Oncology) aims at realizing and demonstrating an innovative portable prototype system for precision image-guided small animal proton irradiation, suitable for installation at existing clinical treatment facilities. The proposed design combines precise dose application with <i>in situ</i> multi-modal anatomical image guidance and <i>in vivo</i> verification of the actual treatment delivery. <b>Results and conclusions:</b> This manuscript describes the status of the different components under development, featuring a dedicated beamline for degradation and focusing of clinical proton beams, along with novel detector systems for <i>in situ</i>imaging and range verification. The foreseen workflow includes pre-treatment proton transmission imaging, complemented by ultrasonic tumor localization, for treatment planning and position verification, followed by image-guided delivery with <i>on site</i> range verification by means of ionoacoustics (for pulsed beams) and positron-emission-tomography (PET, for continuous beams). The proposed compact and cost-effective system promises to open a new era in small animal proton therapy research, contributing to the basic understanding of <i>in vivo</i> radiation action to identify areas of potential breakthroughs for future translation into innovative clinical strategies.
DOI: 10.6084/m9.figshare.11813886
title: Additional file 1 of Physiological and comparative proteomic analysis provides new insights into the effects of shade stress in maize (Zea mays L.)

description: Additional file 1. Total proteins identified in maize leaves.
DOI: 10.6084/m9.figshare.11813886.v1
title: Additional file 1 of Physiological and comparative proteomic analysis provides new insights into the effects of shade stress in maize (Zea mays L.)

description: Additional file 1. Total proteins identified in maize leaves.
DOI: 10.6084/m9.figshare.11813889
title: Additional file 2 of Physiological and comparative proteomic analysis provides new insights into the effects of shade stress in maize (Zea mays L.)

description: Additional file 2. Total differentially expressed proteins identified in maize leaves.
DOI: 10.6084/m9.figshare.11813889.v1
title: Additional file 2 of Physiological and comparative proteomic analysis provides new insights into the effects of shade stress in maize (Zea mays L.)

description: Additional file 2. Total differentially expressed proteins identified in maize leaves.
DOI: 10.6084/m9.figshare.11813901
title: Additional file 5 of Physiological and comparative proteomic analysis provides new insights into the effects of shade stress in maize (Zea mays L.)

description: Additional file 5. Primer sequences of DEPs encoding genes used for qRT-PCR.
DOI: 10.6084/m9.figshare.11813901.v1
title: Additional file 5 of Physiological and comparative proteomic analysis provides new insights into the effects of shade stress in maize (Zea mays L.)

description: Additional file 5. Primer sequences of DEPs encoding genes used for qRT-PCR.
DOI: 10.14473/csda/3bqof6/7relu1
title: Z010_F1.tab

description: Data
DOI: 10.14473/csda/3bqof6/kyimga
title: D_CZU00010.pdf

description: Dotazník
DOI: 10.14473/csda/3bqof6
title: Životní strategie lidí na venkově - obce

description: Výzkum Životní strategie lidí na venkově má dvě části - V první tazatelé zjišťovali údaje o obyvatelích menších obcí České republiky a jejich názory na vybraná témata. Tento výzkum je pracovně nazván "Životní strategie lidí na venkově - obyvatelé obcí". V druhé části výzkumu byly zjišťovány údaje o jednotlivých obcích - jejich občanská a uživatelská vybavenost, infrastruktura nebo politické vedení. Informace k tomuto výzkumu byly zjišťovány od tazatelů, kteří v těchto obcích bydleli. Tato část šetření je pracovně nazvána "Životní strategie lidí na venkově - obce" . Datový soubor, který se veže k těmto metadatům je právě "Životní strategie lidí na venkově - obce".
DOI: 10.14473/csda/3bqof6/vyr1ge
title: K_CZU00010.pdf

description: Karty
DOI: 10.6084/m9.figshare.14435303
title: Additional file 4 of Digital gene expression tag profiling of bat digits provides robust candidates contributing to wing formation

description: Additional file 4:Table S4.xls. Sequences of primers used in PCR and RT-qPCR Nucleotide sequences of the primers used in PCR and RT-qPCR of candidate genes underlying digit distinct morphologies (Figure 5). a indicates previous published primers [57]. The lengths of introns are inferred from the homologs of human genes. (XLS 24 KB)
DOI: 10.6084/m9.figshare.14435297.v1
title: Additional file 2 of Digital gene expression tag profiling of bat digits provides robust candidates contributing to wing formation

description: Additional file 2:Table S2.xls. Expression and analysis of human gene homologs in bat digits The expression of human gene homologs mapped by tags in each library and the results of DEGseq analysis for the study of gene differential expression [56]. Symbol indicates NCBI official gene symbol; GeneID indicates NCBI Entrez Gene ID. The raw count of each mapped gene is presented under its library name (Libraries Hand DI, Hand DII-V or Foot). All other parameters (log2(fold_change), log2(fold_change) nomalized, z-score, p-value, q-value and signature) were calculated using the DEGseq [56]. (XLS 5 MB)
DOI: 10.6084/m9.figshare.14435303.v1
title: Additional file 4 of Digital gene expression tag profiling of bat digits provides robust candidates contributing to wing formation

description: Additional file 4:Table S4.xls. Sequences of primers used in PCR and RT-qPCR Nucleotide sequences of the primers used in PCR and RT-qPCR of candidate genes underlying digit distinct morphologies (Figure 5). a indicates previous published primers [57]. The lengths of introns are inferred from the homologs of human genes. (XLS 24 KB)
DOI: 10.6084/m9.figshare.14435321.v2
title: Additional file of Digital gene expression tag profiling of bat digits provides robust candidates contributing to wing formation

description: Additional file of Digital gene expression tag profiling of bat digits provides robust candidates contributing to wing formation
DOI: 10.14473/csda/svu6qa
title: Životní strategie lidí na venkově - obyvatelé obci

description: Velkou část zaujímají otázky vztahu respondenta k životu a práci na venkově, včetně toho, zda se na vesnici narodil, přistěhoval se tam s rodiči, následoval partnera, odkud se přistěhoval, zda hodlá v obci setrvat či uvažuje o změně bydliště a proč by se byl ochoten odstěhovat. Zajímalo nás jak bydlí, co vlastní, co to pro něho znamená a jak by chtěl s majetkem nakládat. Pomocí bloku otázek jsme sledovali mobilitní strategie dotazovaného i jeho nejbližší rodiny. Pokoušeli jsme se nastínit obraz venkovského člověka, jeho rodinné minulosti, přítomnosti i úvah o budoucnosti. Sledovali jsme, jaký má vztah k práci v zemědělství, zda je schopen a ochoten živit se jinak než zemědělskou prací a zda je pro něho závažnější ekonomická či sociální výhodnost života na vesnici, případně zda se domnívá, že život na vesnici postrádá obojí. Výhledové strategie respondentů byly spojovány s jejich názory na úlohu zemědělství ve venkovském prostoru, na budoucnost venkova, jeho charakter a reálné možnosti rozvoje. Výzkum má dvě části - v první tazatelé zjišťovali údaje o obyvatelích menších obcí České republiky a jejich názory na vybraná témata. Tento výzkum je pracovně nazván "Životní strategie lidí na venkově - obyvatelé obcí" a tato metadata se vztahují právě k tomuto DATOVÉMU SOUBORU V druhé části výzkumu byly zjišťovány údaje o jednotlivých obcích - jejich občanská a uživatelská vybavenost, infrastruktura nebo politické vedení. Informace k tomuto výzkumu byly zjišťovány od tazatelů, kteří v těchto obcích bydleli. Tato část šetření je pracovně nazvána "Životní strategie lidí na venkově - obce"¨.
DOI: 10.14473/csda/svu6qa/b3clb1
title: K_CZU00009.pdf

description: Karty
DOI: 10.14473/csda/svu6qa/iylrt0
title: D_CZU00009.pdf

description: Dotazník
DOI: 10.14473/csda/svu6qa/poh4ej
title: Z009_F1.tab

description: Data
DOI: 10.6084/m9.figshare.14435294.v1
title: Additional file 1 of Digital gene expression tag profiling of bat digits provides robust candidates contributing to wing formation

description: Additional file 1:Table S1.xls. Tag frequency. The number of distinct and total tags counted at different frequencies in each library. FRQ indicates the frequency of distinct tags in the library. (XLS 16 KB)
DOI: 10.6084/m9.figshare.14435297
title: Additional file 2 of Digital gene expression tag profiling of bat digits provides robust candidates contributing to wing formation

description: Additional file 2:Table S2.xls. Expression and analysis of human gene homologs in bat digits The expression of human gene homologs mapped by tags in each library and the results of DEGseq analysis for the study of gene differential expression [56]. Symbol indicates NCBI official gene symbol; GeneID indicates NCBI Entrez Gene ID. The raw count of each mapped gene is presented under its library name (Libraries Hand DI, Hand DII-V or Foot). All other parameters (log2(fold_change), log2(fold_change) nomalized, z-score, p-value, q-value and signature) were calculated using the DEGseq [56]. (XLS 5 MB)
DOI: 10.6084/m9.figshare.14435321.v4
title: Additional file of Digital gene expression tag profiling of bat digits provides robust candidates contributing to wing formation

description: Additional file of Digital gene expression tag profiling of bat digits provides robust candidates contributing to wing formation
DOI: 10.6084/m9.figshare.14435321.v3
title: Additional file of Digital gene expression tag profiling of bat digits provides robust candidates contributing to wing formation

description: Additional file of Digital gene expression tag profiling of bat digits provides robust candidates contributing to wing formation
DOI: 10.6084/m9.figshare.9192494
title: Pathogenicity of fowl adenovirus (FAdV) serotype 4 strain SDJN in Taizhou geese

description: Hydropericardium hepatitis syndrome (HHS) is a fatal disease in chickens, mainly caused by fowl adenovirus serotype 4 (FAdV-4). Since June 2015, HHS has appeared in many provinces in China. The disease has spread from broilers to laying hens, breeders and Cherry Valley ducks, seriously endangering the health of the poultry industry in China. In July 2016, an infectious disease was noticed in a goose farm in Jinan, Shandong Province, China, and hydropericardium was the main finding in <i>post mortem</i> investigations. In the actual study, we isolated a FAdV-4 strain from the livers of naturally-infected goslings and designated it as SDJN. We first evaluated its pathogenicity by inoculating Taizhou geese at 10, 20, and 30 days of age with 10<sup>−7.15</sup>EID<sub>50</sub>/0.2 ml doses of the SDJN strain in 1 ml allantoic fluid via subcutaneous injection or oral infection. Clinical signs and pericardial effusion appeared in geese infected subcutaneously at 10 days of age, whereas 20- and 30-day-old geese were not susceptible to FAdV-4. The results of real-time PCR showed that the replication ability of FAdV-4 in geese correlated with the age. Furthermore, results from clinical chemistry showed that FAdV-4 damaged the liver and kidney in geese and the results paralleled viral load and gross lesions. Consequently, FAdV-4 was pathogenic in geese, and the pathogenicity was related to age and mode of infection. This study is the first experimental infection of FAdV-4 in geese, which will provide a basis for further understanding of the disease. <b>RESEARCH HIGHLIGHTS</b>Pathogenicity tests with a FAdV-4 were conducted in geese, which included data on clinical signs, gross pathology, histopathology, clinical chemistry and viral load.FAdV-4 could replicate in geese and HHS was successfully induced.Pathogenicity of FAdV-4 in geese was related to the age and routes of infection. Pathogenicity tests with a FAdV-4 were conducted in geese, which included data on clinical signs, gross pathology, histopathology, clinical chemistry and viral load. FAdV-4 could replicate in geese and HHS was successfully induced. Pathogenicity of FAdV-4 in geese was related to the age and routes of infection.
DOI: 10.6084/m9.figshare.14435294
title: Additional file 1 of Digital gene expression tag profiling of bat digits provides robust candidates contributing to wing formation

description: Additional file 1:Table S1.xls. Tag frequency. The number of distinct and total tags counted at different frequencies in each library. FRQ indicates the frequency of distinct tags in the library. (XLS 16 KB)
DOI: 10.6084/m9.figshare.9192494.v1
title: Pathogenicity of fowl adenovirus (FAdV) serotype 4 strain SDJN in Taizhou geese

description: Hydropericardium hepatitis syndrome (HHS) is a fatal disease in chickens, mainly caused by fowl adenovirus serotype 4 (FAdV-4). Since June 2015, HHS has appeared in many provinces in China. The disease has spread from broilers to laying hens, breeders and Cherry Valley ducks, seriously endangering the health of the poultry industry in China. In July 2016, an infectious disease was noticed in a goose farm in Jinan, Shandong Province, China, and hydropericardium was the main finding in <i>post mortem</i> investigations. In the actual study, we isolated a FAdV-4 strain from the livers of naturally-infected goslings and designated it as SDJN. We first evaluated its pathogenicity by inoculating Taizhou geese at 10, 20, and 30 days of age with 10<sup>−7.15</sup>EID<sub>50</sub>/0.2 ml doses of the SDJN strain in 1 ml allantoic fluid via subcutaneous injection or oral infection. Clinical signs and pericardial effusion appeared in geese infected subcutaneously at 10 days of age, whereas 20- and 30-day-old geese were not susceptible to FAdV-4. The results of real-time PCR showed that the replication ability of FAdV-4 in geese correlated with the age. Furthermore, results from clinical chemistry showed that FAdV-4 damaged the liver and kidney in geese and the results paralleled viral load and gross lesions. Consequently, FAdV-4 was pathogenic in geese, and the pathogenicity was related to age and mode of infection. This study is the first experimental infection of FAdV-4 in geese, which will provide a basis for further understanding of the disease. <b>RESEARCH HIGHLIGHTS</b>Pathogenicity tests with a FAdV-4 were conducted in geese, which included data on clinical signs, gross pathology, histopathology, clinical chemistry and viral load.FAdV-4 could replicate in geese and HHS was successfully induced.Pathogenicity of FAdV-4 in geese was related to the age and routes of infection. Pathogenicity tests with a FAdV-4 were conducted in geese, which included data on clinical signs, gross pathology, histopathology, clinical chemistry and viral load. FAdV-4 could replicate in geese and HHS was successfully induced. Pathogenicity of FAdV-4 in geese was related to the age and routes of infection.
DOI: 10.6084/m9.figshare.14435300.v1
title: Additional file 3 of Digital gene expression tag profiling of bat digits provides robust candidates contributing to wing formation

description: Additional file 3:Table S3.xls. Expression and analysis of mouse gene homologs in bat digits The expression of mouse gene homologs mapped by tags in each library and the results of DEGseq analysis for the study of gene differential expression [56]. Symbol indicates NCBI official gene symbol; GeneID indicates NCBI Entrez Gene ID. The raw count of each mapped gene is presented under its library name (Libraries Hand DI, Hand DII-V or Foot). All other parameters (log2(fold_change), log2(fold_change) nomalized, z-score, p-value, q-value and signature) were calculated using the DEGseq [56]. (XLS 3 MB)
DOI: 10.6084/m9.figshare.11813961
title: Additional file 1 of Influence of extending expansive open-door laminoplasty to C1 and C2 on cervical sagittal parameters

description: Additional file 1. The parameter data for all the patients.