cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Additional file 2: of MicroRNA-30d promotes angiogenesis and tumor growth via MYPT1/c-JUN/VEGFA pathway and predicts aggressive outcome in prostate cancer
Creators: name: Zhuo-Yuan Lin
name: Chen, Guo
name: Zhang, Yan-Qiong
name: Hui-Chan He
name: Liang, Yu-Xiang
name: Ye, Jian-Heng
name: Ying-Ke Liang
name: Mo, Ru-Jun
name: Lu, Jian-Ming
name: Yang-Jia Zhuo
name: Zheng, Yu
name: Fu-Neng Jiang
name: Han, Zhao-Dong
name: Wu, Shu-Lin
name: Wei-De Zhong
name: Chin-Lee Wu
Publisher: name: Figshare
Year: 2017
Subjects: subject: Biochemistry
subject: Space Science
subject: Medicine
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Pharmacology
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Cancer
subject: Plant Biology
subject: Computational Biology

description: File S1. for the manuscript titled as â  MicroRNA-30d promotes angiogenesis and tumor growth via MYPT1/c-JUN/VEGFA pathway and predicts aggressive outcome in prostate cancerâ  . (DOC 38 kb)
Microtrombicula (Microtrombicula) biops
Creators: name: Nielsen, David H.
name: Robbins, Richard G.
name: Rueda, Leopoldo M.
Publisher: name: Zenodo
Year: 2021
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Arachnida
Actinedida
Trombiculidae
Microtrombicula
Microtrombicula biops

description: Microtrombicula (Microtrombicula) biops (Wharton, 1948):
NEO
Trombicula biops Wharton 1948
Trombicula (Trombicula) biops, Wharton & Fuller 1952
Eltonella (Eltonella) biops, Vercammen-Grandjean 1965d
description: Published as part of Nielsen, David H., Robbins, Richard G. & Rueda, Leopoldo M., 2021, Annotated world checklist of the Trombiculidae and Leeuwenhoekiidae (1758 - 2021) (Acari: Trombiculoidea), with notes on nomenclature, taxonomy, and distribution, pp. 1-243 in Zootaxa 4967 (1) on pages 147-148, DOI: 10.11646/zootaxa.4967.1.1, http://zenodo.org/record/4745510
CD147 Facilitates the Pathogenesis of Psoriasis Through Glycolysis and H3K9me3 Modification in Keratinocytes
Creators: name: 陈超(Chao Chen)
Publisher: name: CNGB
Year: 2024
Subjects: Genome sequencing and assembly
Raw sequence reads
Multiisolate
Medical

description: Psoriasis is a chronic inflammatory skin disease featuring rapid proliferation of epidermal cells. Although elevated glycolysis flux has been reported in psoriasis, the molecular mechanisms underlying its pathogenesis remain unclear. We investigated the role of the integral plasma protein CD147 in psoriasis pathogenesis, finding it was highly expressed in psoriatic skin lesions of humans and imiquimod-induced mouse models. In mouse models, genomic deletion of epidermal CD147 significantly attenuated imiquimod-induced psoriatic inflammation. To further study the effect of CD147 on psoriasis, we performed RNA-seq analysis of transcriptional alteration in KCs isolated from K14.Bsgfl/fl mice after IMQ treatment for 3 consecutive days.
Additional file 4: Table S1. of 3D: diversity, dynamics, differential testing â   a proposed pipeline for analysis of next-generation sequencing T cell repertoire data
Creators: name: Zhang, Li
name: Cham, Jason
name: Paciorek, Alan
name: Trager, James
name: Sheikh, Nadeem
name: Fong, Lawrence
Publisher: name: Figshare
Year: 2017
Subjects: subject: Space Science
subject: Medicine
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Physiology
subject: Ecology
subject: Immunology
subject: FOS: Clinical medicine
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Cancer
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: 60506 Virology
subject: Computational Biology

description: The results of serial 1 vs. 1 comparison by modified DESeq analysis for 5 treated prostate cancer subjects (24, 21, 16, 13, and 6). We considered 2 different ways of estimating dispersion: 1 vs. 1 uses Sample 1 and Sample 2 to calculate the dispersion; All Samples uses all available PBMC samples from 3 time points (PBMC.0, PBMC.2 and PBMC.4) to calculate the dispersion. Subject 6 doesnâ  t have data at week 4. The number of the significantly differentiated clones between Sample 1 and Sample 2 (FDR<0.05) was listed for each patient and each comparison. The summary statistics summarized across all 5 patients. Table S2 The results of comparing PBMC samples of week 0 vs. week 2 and week 4, separately, by modified DESeq analysis for 5 treated prostate cancer subjects, where the dispersion was calculated based on all three PBMC samples. Overall mean stands for the average of log10(tissue count) of all the tissue-present clones. N is the number of the significantly differentiated (decreased or increased) clones (FDR<0.05). N* is the number of the significantly differentiated (decreased or increased) tissue-present clones. Mean stands for the average of log10(tissue count) of the corresponding N* significantly differentiated (decreased or increased) clones. P was obtained by comparing log10(tissue count) of the N* significantly differentiated (decreased or increased) tissue-present clones with the overall mean of log10(tissue count) using t-test. (DOCX 165 kb)
Multiscale topology classifies and quantifies cell types in subcellular spatial transcriptomics
Creators: name: 邢雅楠(Yanan Xing)
Publisher: name: CNGB
Year: 2024
Subjects: Raw sequence reads
Multiisolate

description: Spatial transcriptomics has the potential to transform our understanding of RNA expression in tissues. Classical array-based technologies produce multiple-cell-scale measurements requiring deconvolution to recover single cell information. However, rapid advances in subcellular measurement of RNA expression at whole-transcriptome depth necessitate a fundamentally different approach. To integrate single-cell RNA-seq data with nanoscale spatial transcriptomics, we present a topological method for automatic cell type identification (TopACT). Unlike popular decomposition approaches to multicellular resolution data, TopACT is able to pinpoint the spatial locations of individual sparsely dispersed cells without prior knowledge of cell boundaries. Pairing TopACT with multiparameter persistent homology landscapes predicts immune cells forming a peripheral ring structure within kidney glomeruli in a murine model of lupus nephritis, which we experimentally validate with immunofluorescent imaging. The proposed topological data analysis unifies multiple biological scales, from subcellular gene expression to multicellular tissue organization.
Draft Work Document Khalifa Award 4.pdf
Creators: name: Ussenaliyeva, Dr.Aizhan Aisha
Publisher: name: figshare
Year: 2024
Subjects: classificationCode: 310102
subject: Cell development, proliferation and death
classificationCode: 310103
subject: Cell metabolism
classificationCode: 310104
subject: Cell neurochemistry
classificationCode: 310101
subject: Analytical biochemistry
classificationCode: 390201
subject: Education policy
classificationCode: 390203
subject: Sociology of education

description: Draft of the Work Document as a track record confirmation. December 2024.
Additional file 6: of 3D: diversity, dynamics, differential testing â   a proposed pipeline for analysis of next-generation sequencing T cell repertoire data
Creators: name: Zhang, Li
name: Cham, Jason
name: Paciorek, Alan
name: Trager, James
name: Sheikh, Nadeem
name: Fong, Lawrence
Publisher: name: Figshare
Year: 2017
Subjects: subject: Biochemistry
subject: Molecular Biology
subject: Physiology
subject: FOS: Biological sciences
subject: Evolutionary Biology
subject: Ecology
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Developmental Biology
subject: Computational Biology

description: Robustness of Diversity/Dynamics Measures (Additional file 9). (DOCX 115 kb)
A new and high-quality chromosome-scale genome assembly of Populus alba
Creators: name: 倪婉凝
Publisher: name: CNGB
Year: 2024
Subjects: Genome sequencing and assembly
Raw sequence reads
Monoisolate
Evolution

description: Populus alba (frequently referred to as white poplar) is widely distributed from central and southern Europe to western Asia. It prefers a continental climate and is well resistant to cold, wind, drought, salt, and flooding. However,the assembly level and quality of the P. alba genome are relatively low . Here, we present a new and high-quality chromosome-scale genome assembly of P. alba using PacBio and Illumina sequencing technologies and high-throughput chromosome conformation capture (Hi-C) approaches.
Electronic supplementary material from Early prenatal but not postnatal glucocorticoid exposure is associated with enhanced HPA axis activity into adulthood in a wild primate
Creators: name: Anzà, Simone
name: Heistermann, Michael
name: Ostner, Julia
name: Schülke, Oliver
Publisher: name: The Royal Society
Year: 2025
Subjects: classificationCode: 310901
subject: Animal behaviour

description: STRANGE framework, stats tables, seasonality figure
Exploring the association of food security with mental health, diet quality, and nutrient exposure among low income groups in the U.S.
Creators: name: Uwashimimana, Mwiza Aline
Publisher: name: Purdue University Graduate School
Year: 2024
Subjects: classificationCode: 420603
subject: Health promotion
classificationCode: 420606
subject: Social determinants of health
classificationCode: 420208
subject: Nutritional epidemiology

description: Low-income individuals face challenges of food insecurity which may negatively impact dietary and mental health outcomes. This thesis explores the mediation of social isolation in the relationship of food security to depression, resource use, and the links between situations of limited access to healthy food, dietary quality and nutrient exposure among low income households, covered in three chapters. Following an introduction in Chapter 1 to overview this work, Chapter 2 investigates the mediation of social isolation in the relationship of food insecurity, depression, and resource use among a cross-sectional sample of rural veterans. The findings showed that social isolation completely mediates the relationship between food insecurity and depression. Chapter 3 explores the association between limited resources for food and the quality of dietary intake among adult (18) low income women with children from Indiana. This was done by evaluating the relationship of individual questions of the U.S. Household Food Security Survey Module (U.S. HFSSM) to an indicator of dietary quality using the Healthy Eating Index (HEI). The results of the study identified two food security (U.S. HFSSM) questions that were related to lower diet quality and specific dietary components. Chapter 4 is a similar investigation as in Chapter 2 except a nationally representative sample of U.S. adults from the National Health and Nutrition Examination Survey was used and an indicator of nutrient exposure was also evaluated in relationship to the U.S. HFSSM questions along with the HEI. The study's findings showed that one U.S. HFSSM question was associated with lower diet quality among both households with and without children and lower nutrient exposure among households without children only. Two other questions were associated with lower diet quality and lower nutrient exposure among households without children only. The findings presented in this thesis may inform the design of intervention and policies that incorporate social isolation in alleviating food insecurity and improve mental health outcomes and in consideration of the design of nutrition security measures and indicators among vulnerable population.
Additional file 4: Table S1. of 3D: diversity, dynamics, differential testing â   a proposed pipeline for analysis of next-generation sequencing T cell repertoire data
Creators: name: Zhang, Li
name: Cham, Jason
name: Paciorek, Alan
name: Trager, James
name: Sheikh, Nadeem
name: Fong, Lawrence
Publisher: name: Figshare
Year: 2017
Subjects: subject: Space Science
subject: Medicine
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Physiology
subject: Ecology
subject: Immunology
subject: FOS: Clinical medicine
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Cancer
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: Virology
subject: Computational Biology

description: The results of serial 1 vs. 1 comparison by modified DESeq analysis for 5 treated prostate cancer subjects (24, 21, 16, 13, and 6). We considered 2 different ways of estimating dispersion: 1 vs. 1 uses Sample 1 and Sample 2 to calculate the dispersion; All Samples uses all available PBMC samples from 3 time points (PBMC.0, PBMC.2 and PBMC.4) to calculate the dispersion. Subject 6 doesnâ  t have data at week 4. The number of the significantly differentiated clones between Sample 1 and Sample 2 (FDR<0.05) was listed for each patient and each comparison. The summary statistics summarized across all 5 patients. Table S2 The results of comparing PBMC samples of week 0 vs. week 2 and week 4, separately, by modified DESeq analysis for 5 treated prostate cancer subjects, where the dispersion was calculated based on all three PBMC samples. Overall mean stands for the average of log10(tissue count) of all the tissue-present clones. N is the number of the significantly differentiated (decreased or increased) clones (FDR<0.05). N* is the number of the significantly differentiated (decreased or increased) tissue-present clones. Mean stands for the average of log10(tissue count) of the corresponding N* significantly differentiated (decreased or increased) clones. P was obtained by comparing log10(tissue count) of the N* significantly differentiated (decreased or increased) tissue-present clones with the overall mean of log10(tissue count) using t-test. (DOCX 165 kb)
Transcriptome analyses of anther in three species of Populus during meiosis stage
Creators: name: 倪婉凝
Publisher: name: CNGB
Year: 2024
Subjects: Transcriptome or Gene expression
Multispecies
Evolution

description: For the purpose of exploring the underlying molecular differences involved in pollen formation between Populus alba, Populus adenopoda and Populus tomentosa Carr., we collected anthers of the three Populus species at three developmental stages of meiosis for Transcriptome analyses.
Additional file 2: Figure S1. of 3D: diversity, dynamics, differential testing â   a proposed pipeline for analysis of next-generation sequencing T cell repertoire data
Creators: name: Zhang, Li
name: Cham, Jason
name: Paciorek, Alan
name: Trager, James
name: Sheikh, Nadeem
name: Fong, Lawrence
Publisher: name: Figshare
Year: 2017
Subjects: subject: Cell Biology
subject: Molecular Biology
subject: Physiology
subject: FOS: Biological sciences
subject: Evolutionary Biology
subject: Immunology
subject: FOS: Clinical medicine
subject: Cancer
subject: 111714 Mental Health
subject: FOS: Health sciences
subject: 110309 Infectious Diseases
subject: 60506 Virology

description: The diversity of TCR from PBMC at week 0, 2 and 4 for the healthy subjects (left) and the treated prostate cancer subjects (right) in NeoACT study. (A) The clonality of TCR from PBMC at week 0, 2 and 4 for the healthy subjects (left) and the treated prostate cancer subjects (right). (B) The geometric coefficient of variation (GCV) of TCR from PBMC at Week 0, 2 and 4 (PBMC.0, PBMC.2 and PBMC.4) for the healthy subjects (left) and the treated prostate cancer subjects (right). (PDF 1774 kb)
Whole genome data of bacteria in captive macaque farm
Creators: name: 吴婕(Jie Wu)
Publisher: name: CNGB
Year: 2024
Subjects: Genome sequencing and assembly
Multispecies

description: Whole genome data of Escherichia coli, Klebsiella pneumoniae, Proteus mirabilis, Enterococcus, Salmonella and Staphylococcus squirrel in rhesus monkeys and the environment.
A COMPARATIVE STUDY OF 19THE CENTURY UZBEK AND ENGLISH REALISTIC LITERATURE
Creators: name: Abdullayeva Sevinch Abdinazar qizi, 3rd year student, Foreign language and literature (English), faculty of Languages, Termez state pedagogical institute
name: Scientific supervisor: Farrukh Normamatov The teacher of the department of Applied English Termiz  state pedagogical institute
Publisher: name: Zenodo
Year: 2025

description: This article is dedicated to the comparative study of the features of realism in 19th-century Uzbek and English literature. It examines the methods used by Uzbek and English writers to reflect the social, political, and cultural issues of their societies. The similarities and differences between the two national literatures, along with their unique ideological and aesthetic characteristics, are analyzed. The article provides insights into how realism, as a universal phenomenon, manifested in Uzbek and English literatures.

Key words: realism, 19th century, Uzbek literature, English literature, comparative analysis, ideological features.
Isolation, Culture, and Sequencing of Ruminococcus gnavus strain 1186
Creators: name: Zhun, Shi
Publisher: name: CNGB
Year: 2024
Subjects: Genome sequencing and assembly
Monoisolate

description: We isolated and cultured a strain of Ruminococcus gnavus (Rg1186) from a fecal sample of a healthy volunteer from Shenzhen, China.
Additional file 8: Figure S5. of 3D: diversity, dynamics, differential testing – a proposed pipeline for analysis of next-generation sequencing T cell repertoire data
Creators: name: Zhang, Li
name: Cham, Jason
name: Paciorek, Alan
name: Trager, James
name: Sheikh, Nadeem
name: Fong, Lawrence
Publisher: name: Figshare
Year: 2017
Subjects: subject: Cell Biology
subject: Molecular Biology
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences

description: The influence of the count thresholds on the pairwise dynamics indices of TCR from PBMC at week 0, 2 and 4 for the treated prostate cancer subjects in NeoACT study. From top to bottom, each row shows the proportion of increase/unchanged/decrease clones from earlier time point to later time point, and pairwise Morisita’s distance. From the left to the right, each column presents the different threshold of the clonotypes count (original data which is > =2, > = 5, > = 10, > = 15, > = 20, > = 25 and > =30). The subject with triangle shapes was the example used in Fig. 1c). The median and interquartiles are shown. (PDF 1283 kb)
Additional file 2: Figure S1. of 3D: diversity, dynamics, differential testing â   a proposed pipeline for analysis of next-generation sequencing T cell repertoire data
Creators: name: Zhang, Li
name: Cham, Jason
name: Paciorek, Alan
name: Trager, James
name: Sheikh, Nadeem
name: Fong, Lawrence
Publisher: name: Figshare
Year: 2017
Subjects: subject: Cell Biology
subject: Molecular Biology
subject: Physiology
subject: FOS: Biological sciences
subject: Evolutionary Biology
subject: Immunology
subject: FOS: Clinical medicine
subject: Cancer
subject: Mental Health
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Virology

description: The diversity of TCR from PBMC at week 0, 2 and 4 for the healthy subjects (left) and the treated prostate cancer subjects (right) in NeoACT study. (A) The clonality of TCR from PBMC at week 0, 2 and 4 for the healthy subjects (left) and the treated prostate cancer subjects (right). (B) The geometric coefficient of variation (GCV) of TCR from PBMC at Week 0, 2 and 4 (PBMC.0, PBMC.2 and PBMC.4) for the healthy subjects (left) and the treated prostate cancer subjects (right). (PDF 1774 kb)
Cushing's Syndrome is associated with Gut Microbial Dysbiosis and Cortisol-Degrading Bacteria
Creators: name: Zhun, Shi
Publisher: name: CNGB
Year: 2024
Subjects: Metagenome
Environment
Medical

description: To assess the gut microbial dysbiosis associated with Cushing's syndrome (CS), we performed shotgun metagenomic sequencing of fecal samples from 78 patients diagnosed with CS and 78 healthy controls matched for age and body mass index. All individiduals were enrolled at Ruijin Hospital affiliated to Shanghai Jiao Tong University School of Medicine from 2019 to 2022.
CORD and SDN Technology Deployment and the Security Issues
Creators: name: Mutasim Abdalla Esmaiel Kharif, https://orcid.org/0000-0001-6134-245.
Publisher: name: figshare
Year: 2025
Subjects: classificationCode: 460609
subject: Networking and communications
classificationCode: 400606
subject: Satellite communications
classificationCode: 400699
subject: Communications engineering not elsewhere classified
classificationCode: 400608
subject: Wireless communication systems and technologies (incl. microwave and millimetrewave)
classificationCode: 400602
subject: Data communications

description: SDN is a network architecture approach that helps inThis paper aims to controlling network intelligently and centrally or programmed by using software applications. This helps in managing the entire network.

These days all enterprises and service providers facing lots of technical and network management problems according to wide growth in data, multimedia content, increasing of mobile usage and stretching of cloud computing .so it is benefit-able to use SDN technology to ease and facilitate all network management aspects. SDN enables the programming of network behavior in a centrally controlled manner through software applications using open APIs. By opening up traditionally closed network platforms and implementing a common SDN control layer. SDN helps all organizations in terms of (Network programmability, logically centralize intelligence and control, abstraction of the network).

CORD (Central Office Re-architected as a Datacenter) is an Open-Software that integrated VNF and SDN to explores and exploits the maximum capability of its platforms as a way to meet the performance, reliability, availability and efficient management ability of network (software and hardware) elements that required or demanded by the various types of users, companies or enterprises. However, such an approach has resulted in incompatibility between different manufacturer’s that work in areas of Cloud to Extends the agility of micro-services to the access network, SDN Interconnects VNFs and NFV Supports legacy VNFs and pushes the limits of disaggregation. CORD can be configured for different domains such as Residential, Enterprise and mobile.
Cicadetta cerdaniensis Puissant & Boulard 2000
Creators: name: Sueur, Jérôme
name: Puissant, Stéphane
Publisher: name: Zenodo
Year: 2007
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hemiptera
Cicadidae
Cicadetta
Cicadetta cerdaniensis

description: C. cerdaniensis calling song
Because C. cantilatrix sp. nov. and C. cerdaniensis calling songs have been previously mistaken, we here provide a description of a typical sound emission produced by C. cerdaniensis male. Echemes emitted by C. cerdaniensis basically follow the same pattern as those produced by C. cantilatrix sp. nov. However, as stated in the original description (Puissant & Boulard, 2000), a typical calling sequence of C. cerdaniensis includes three phrases differing in echeme production rate (Figure 6A). All temporal parameters (ED, FPD, SPD, IED) covary (Figure 6B). The first phrase is made of short echemes produced at high rate (short ED, short FPD, short SPD, short IED, Figure 6C). Then, during the second phrase, echemes lengthen and the gaps between them also increase (long ED, long FPD, long SPD, long IED, Figure 6D). The third phrase is characterised by the emission of short echemes at a very high rate (short ED, short FPD, short, SPD, very short IED, Figure 6E).
In the frequency domain, most of the spectral energy is between 12 kHz and 19 kHz, but the dominant frequency is around 15 kHz, higher than that of C. cantilatrix sp. nov. (Table 1, Figure 7).
description: Published as part of Sueur, Jérôme & Puissant, Stéphane, 2007, Similar look but different song: a new Cicadetta species in the montana complex (Insecta, Hemiptera, Cicadidae), pp. 55-68 in Zootaxa 1442 on page 61, DOI: 10.5281/zenodo.176017
Additional file 7: Figure S4. of 3D: diversity, dynamics, differential testing – a proposed pipeline for analysis of next-generation sequencing T cell repertoire data
Creators: name: Zhang, Li
name: Cham, Jason
name: Paciorek, Alan
name: Trager, James
name: Sheikh, Nadeem
name: Fong, Lawrence
Publisher: name: Figshare
Year: 2017
Subjects: subject: Physiology
subject: FOS: Biological sciences
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences

description: The influence of the count thresholds on the pairwise binary similarity measures of TCR from PBMC at week 0, 2 and 4 for the treated prostate cancer subjects in NeoACT study. From top to bottom, each row shows five different types of similarity measures. From the left to the right, each column presents the different threshold of the clonotypes count (original data which is > =2, > = 5, > = 10, > = 15, > = 20, > = 25 and > =30). The subject with triangle shapes was the example used in Fig. 1c). The median and interquartiles are shown. (PDF 1234 kb)
CORD and SDN Technology Deployment and the Security Issues.pdf
Creators: name: Mutasim Abdalla Esmaiel Kharif, https://orcid.org/0000-0001-6134-245.
Publisher: name: figshare
Year: 2022
Subjects: classificationCode: 460609
subject: Networking and communications
classificationCode: 400606
subject: Satellite communications
classificationCode: 400699
subject: Communications engineering not elsewhere classified
classificationCode: 400608
subject: Wireless communication systems and technologies (incl. microwave and millimetrewave)
classificationCode: 400602
subject: Data communications

description: SDN is a network architecture approach that helps inThis paper aims to controlling network intelligently and centrally or programmed by using software applications. This helps in managing the entire network.

These days all enterprises and service providers facing lots of technical and network management problems according to wide growth in data, multimedia content, increasing of mobile usage and stretching of cloud computing .so it is benefit-able to use SDN technology to ease and facilitate all network management aspects. SDN enables the programming of network behavior in a centrally controlled manner through software applications using open APIs. By opening up traditionally closed network platforms and implementing a common SDN control layer. SDN helps all organizations in terms of (Network programmability, logically centralize intelligence and control, abstraction of the network).

CORD (Central Office Re-architected as a Datacenter) is an Open-Software that integrated VNF and SDN to explores and exploits the maximum capability of its platforms as a way to meet the performance, reliability, availability and efficient management ability of network (software and hardware) elements that required or demanded by the various types of users, companies or enterprises. However, such an approach has resulted in incompatibility between different manufacturer’s that work in areas of Cloud to Extends the agility of micro-services to the access network, SDN Interconnects VNFs and NFV Supports legacy VNFs and pushes the limits of disaggregation. CORD can be configured for different domains such as Residential, Enterprise and mobile.
Additional file 3: Figure S2. of 3D: diversity, dynamics, differential testing – a proposed pipeline for analysis of next-generation sequencing T cell repertoire data
Creators: name: Zhang, Li
name: Cham, Jason
name: Paciorek, Alan
name: Trager, James
name: Sheikh, Nadeem
name: Fong, Lawrence
Publisher: name: Figshare
Year: 2017
Subjects: subject: Cell Biology
subject: Molecular Biology
subject: Physiology
subject: FOS: Biological sciences
subject: Evolutionary Biology
subject: Immunology
subject: FOS: Clinical medicine
subject: Cancer
subject: 111714 Mental Health
subject: FOS: Health sciences
subject: 110309 Infectious Diseases
subject: 60506 Virology

description: The dynamics of TCR from PBMC across time course (NeoACT study). (A) The Baroni-Urbani and Buser (BUB) overlap index of TCR from PBMC across week 0, 2 and 4 (PBMC.0- > PBMC.2, PBMC.0- > PBMC.4 and PBMC.2- > PBMC.4) for the healthy subjects (left) and the treated prostate cancer subjects (right). (B) The intraclass correlation coefficient (ICC) of TCR from PBMC across week 0, 2 and 4 (PBMC.0- > PBMC.2, PBMC.0- > PBMC.4 and PBMC.2- > PBMC.4) for the healthy subjects (left) and the treated prostate cancer subjects (right). The ICC was calculated based on the clones present at both time points of each paired samples (i.e., the overlap clones). (C) A binned analysis of fold change in clonal frequency for the healthy subjects (left) and the treated prostate cancer subjects (right), for example, PBMC.0- > PBMC.2 is the fraction of clones where the ratio of frequencies at week 2 vs. week 0 is greater than 4 (“Increase”), less than 0.25 (“Decrease”), or between 0.25 and 4 (“Unchanged”), similarly for week 4 vs. week 0 (PBMC.0- > PBMC.4) and week 4 vs. week 2 (PBMC.2- > PBMC.4). This fold change analysis only includes the clones that present at both paired time points (i.e., the overlap clones). The median and interquartiles are shown. (PDF 1941 kb)
Stenus (Hypostenus) yiae , Zhao & Zhou 2020, sp. nov.
Creators: name: Zhao, Cai-Yun
name: Zhou, Hong-Zhang
Publisher: name: Zenodo
Year: 2020
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Coleoptera
Staphylinidae
Stenus
Stenus yiae

description: 2. Stenus (Hypostenus) yiae Zhao & Zhou, sp. nov.
Type Material. Holotype: male, CHINA, Beijing, Chaoyang, Datunxiang (116°24′E, 39°59′N), 21.V. 1996, Hong-zhang Zhou collected [Deposited in Institute of Zoology, Chinese Academy of Sciences (IZ-CAS)]; Paratypes: 1 female, same data as holotype; 1 male, 1 female, CHINA, Beijing (116°28′E, 40°13′N), 1942; 1 male, 2 females, CHINA, Fujian, Shaxian (117°46′E, 26°25′N), 15.VII.1977, Xiao-nan Luo collected; 2 males, 3 females, CHINA, Shanghai (121°29′E, 31°13′N), A. SAVIO collected; 14 ex., CHINA, Shanghai (121°29′E, 31°13′N), O. PIEL collected. [Deposited in Institute of Zoology, Chinese Academy of Sciences (IZ-CAS)]
Diagnosis. This new species belongs to the cicindeloides group. It can be easily distinguished from S. (H.) verticalis Benick and S. (H.) primivenatus Zhao & Zhou sp. nov. by the absence of spots on elytra. It is similar to S. (H.) cicindeloides (Schaller), but differs from the latter by having a broad apical part of median lobe and a different spermatheca structure. Detailed description and illustrations of the species are provided by Zhao & Zhou (2008).
description: Published as part of Zhao, Cai-Yun & Zhou, Hong-Zhang, 2020, Validation of Stenus (Hypostenus) primivenatus and Stenus (Hypostenus) yiae (Coleoptera, Staphylinidae, Steninae), pp. 591-592 in Zootaxa 4881 (3) on page 591, DOI: 10.11646/zootaxa.4881.3.11, http://zenodo.org/record/4283876
Actinopus Perty 1833
Creators: name: Miglio, Laura Tavares
name: Pérez-Miles, Fernando
name: Bonaldo, Alexandre B.
Publisher: name: Zenodo
Year: 2020
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Arachnida
Araneae
Actinopodidae
Actinopus

description: Group pinhao
Diagnosis. The group pinhao is recognized by the following combination of characters: Medium total length; serrated area distal to PAc large; BTA present; embolus with three long keels. Females are recognized by the spermathecae with two asymmetric receptacles, with 75%–100% of each receptacle filled by pores.
Species included. Actinopus pinhao sp. nov.; Actinopus ducke sp. nov.; Actinopus hirsutus sp. nov.; Actinopus jaboticatubas sp. nov.; Actinopus confusus sp. nov.; Actinopus pampulha sp. nov.; Actinopus candango sp. nov.; Actinopus paraitinga sp. nov.; Actinopus cornelli sp. nov.; Actinopus insignis (Holmberg, 1881); and Actinopus ramirezi Ríos-Tamayo & Goloboff, 2018.
description: Published as part of Miglio, Laura Tavares, Pérez-Miles, Fernando & Bonaldo, Alexandre B., 2020, Taxonomic Revision of the Spider Genus Actinopus Perty, 1833 (Araneae, Mygalomorphae, Actinopodidae), pp. 1-256 in Megataxa 2 (1) on page 37, DOI: 10.11646/megataxa.2.1.1, http://zenodo.org/record/5597237
Thesea Duchassaing & Michelotti 1860
Creators: name: Carpinelli, Ágatha Nascimento
name: Cordeiro, Ralf Tarciso Silva
name: Castro, Clovis Barreira
name: Kitahara, Marcelo Visentini
Publisher: name: Zenodo
Year: 2022
Subjects: Biodiversity
Taxonomy
Animalia
Cnidaria
Anthozoa
Alcyonacea
Plexauridae
Thesea

description: Genus Thesea Duchassaing & Michelotti, 1860
Thesea Duchassaing & Michelotti, 1860: 18.— Bayer, 1961: 91.— Deichmann, 1936: 110–123 [in part: not T. plana (= Lytreia)]; 1959: 14–17.— Wirshing et al., 2005: fig. 1E– F (in part: not Pacific specimens fig. 1G–H).—Breedy & Guzman, 2018: 1517.
Filigella Gray, 1868: 443–444.
Not Thesea, Verrill, 1869: 428–429 (= Swiftia).
Not Thesea, Nutting 1910: 50–51.
Not Thesea, Riess, 1929: 401.
Type and type-locality. Thesea guadalupensis (Duchassaing & Michelotti, 1860), by monotypy. Guadeloupe, Southern Caribbean.
Diagnosis. Colonies slightly planar to bushy, laterally or pinnately branched without branch anastomosis. Branches long and ascending. Coenenchyme thin to moderately thick (compared to other plexaurids). Outer layer granulose and thicker than axial sheath. Coenenchymal layers sometimes indistinct in species with thinner branches. Polyp mounds slightly raised to prominent and longitudinally arranged, with eight marginal lobes with covering sclerites. Coenenchymal sclerites large, rugose plates with outer undulate appearance and inner irregular warty spindles.Axial sheath mostly with smaller spindles.Anthocodia with curved rods arranged in points, with a few rods at base, without a clearly differentiated collaret. Color of the colonies, white, light-yellow, red, pink, and various hues of orange (adapted from Breedy & Gúzman, 2018a).
description: Published as part of Carpinelli, Ágatha Nascimento, Cordeiro, Ralf Tarciso Silva, Castro, Clovis Barreira & Kitahara, Marcelo Visentini, 2022, Thesea pyrrha sp. nov., a new shallow-water octocoral (Cnidaria, Anthozoa) from southwestern Atlantic, and implications on the systematics of the genus, pp. 89-106 in Zootaxa 5116 (1) on page 96, DOI: 10.11646/zootaxa.5116.1.4, http://zenodo.org/record/6364360
Microtrombicula (Microtrombicula) boneti
Creators: name: Nielsen, David H.
name: Robbins, Richard G.
name: Rueda, Leopoldo M.
Publisher: name: Zenodo
Year: 2021
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Arachnida
Actinedida
Trombiculidae
Microtrombicula
Microtrombicula boneti

description: Microtrombicula (Microtrombicula) boneti (Hoffmann, 1952):
NEO
Trombicula (Trombicula) boneti Hoffmann, 1952
Eltonella (Coecicula) boneti, Vercammen-Grandjean 1965d
Microtrombicula boneti, Webb & Loomis 1971b
description: Published as part of Nielsen, David H., Robbins, Richard G. & Rueda, Leopoldo M., 2021, Annotated world checklist of the Trombiculidae and Leeuwenhoekiidae (1758 - 2021) (Acari: Trombiculoidea), with notes on nomenclature, taxonomy, and distribution, pp. 1-243 in Zootaxa 4967 (1) on page 148, DOI: 10.11646/zootaxa.4967.1.1, http://zenodo.org/record/4745510
Additional file 9: Figure S3. of 3D: diversity, dynamics, differential testing â   a proposed pipeline for analysis of next-generation sequencing T cell repertoire data
Creators: name: Zhang, Li
name: Cham, Jason
name: Paciorek, Alan
name: Trager, James
name: Sheikh, Nadeem
name: Fong, Lawrence
Publisher: name: Figshare
Year: 2017
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Immunology
subject: FOS: Clinical medicine
subject: Cancer
subject: 110309 Infectious Diseases
subject: FOS: Health sciences

description: The scatter plot of the number of unique clones with the Shannon index, Clonality and Geometric coefficient of variation (GCV) of TCR repertoire from PBMC (week 0, 2 and 4) of the five treated prostate cancer subjects in NeoACT study. Pearson correlation coefficient and corresponding pvalues were calculated for each pair. (PDF 2882 kb)
Multiomics data of fish
Creators: name: 余鹏(Peng Yu)
Publisher: name: CNGB
Year: 2024
Subjects: Genome sequencing and assembly
Raw sequence reads
Genome sequencing
Assembly
Phenotype or Genotype
Proteome
Transcriptome or Gene expression
Metabolome
Multispecies
Agricultural

description: Genomic, transcriptomic, metabolomic and other omics data of fish
Additional file 9: Figure S3. of 3D: diversity, dynamics, differential testing â   a proposed pipeline for analysis of next-generation sequencing T cell repertoire data
Creators: name: Zhang, Li
name: Cham, Jason
name: Paciorek, Alan
name: Trager, James
name: Sheikh, Nadeem
name: Fong, Lawrence
Publisher: name: Figshare
Year: 2017
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Immunology
subject: FOS: Clinical medicine
subject: Cancer
subject: Infectious Diseases
subject: FOS: Health sciences

description: The scatter plot of the number of unique clones with the Shannon index, Clonality and Geometric coefficient of variation (GCV) of TCR repertoire from PBMC (week 0, 2 and 4) of the five treated prostate cancer subjects in NeoACT study. Pearson correlation coefficient and corresponding pvalues were calculated for each pair. (PDF 2882 kb)
Single-cell spatial map of chromatin accessibility in macaque cortex
Creators: name: 朱志勇
Publisher: name: CNGB
Year: 2024
Subjects: Genome sequencing and assembly
Epigenomics
Monoisolate
Model organism

description: Using single-nucleus Assay for Transposase-Accessible Chromatin followed by sequencing (snATAC-seq) of ~3 million macaque cortical cells.
Additional file 3: Figure S2. of 3D: diversity, dynamics, differential testing – a proposed pipeline for analysis of next-generation sequencing T cell repertoire data
Creators: name: Zhang, Li
name: Cham, Jason
name: Paciorek, Alan
name: Trager, James
name: Sheikh, Nadeem
name: Fong, Lawrence
Publisher: name: Figshare
Year: 2017
Subjects: subject: Cell Biology
subject: Molecular Biology
subject: Physiology
subject: FOS: Biological sciences
subject: Evolutionary Biology
subject: Immunology
subject: FOS: Clinical medicine
subject: Cancer
subject: Mental Health
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Virology

description: The dynamics of TCR from PBMC across time course (NeoACT study). (A) The Baroni-Urbani and Buser (BUB) overlap index of TCR from PBMC across week 0, 2 and 4 (PBMC.0- > PBMC.2, PBMC.0- > PBMC.4 and PBMC.2- > PBMC.4) for the healthy subjects (left) and the treated prostate cancer subjects (right). (B) The intraclass correlation coefficient (ICC) of TCR from PBMC across week 0, 2 and 4 (PBMC.0- > PBMC.2, PBMC.0- > PBMC.4 and PBMC.2- > PBMC.4) for the healthy subjects (left) and the treated prostate cancer subjects (right). The ICC was calculated based on the clones present at both time points of each paired samples (i.e., the overlap clones). (C) A binned analysis of fold change in clonal frequency for the healthy subjects (left) and the treated prostate cancer subjects (right), for example, PBMC.0- > PBMC.2 is the fraction of clones where the ratio of frequencies at week 2 vs. week 0 is greater than 4 (“Increase”), less than 0.25 (“Decrease”), or between 0.25 and 4 (“Unchanged”), similarly for week 4 vs. week 0 (PBMC.0- > PBMC.4) and week 4 vs. week 2 (PBMC.2- > PBMC.4). This fold change analysis only includes the clones that present at both paired time points (i.e., the overlap clones). The median and interquartiles are shown. (PDF 1941 kb)
MOESM1 of Effects of probiotic Bacillus as a substitute for antibiotics on antioxidant capacity and intestinal autophagy of piglets
Creators: name: Wang, Yang
name: Yanping Wu
name: Baikui Wang
name: Xuefang Cao
name: Aikun Fu
name: Yali Li
name: Weifen Li
Publisher: name: Figshare
Year: 2017
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Pharmacology
subject: Evolutionary Biology
subject: Ecology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified

description: Additional file 1: Table S1. Gene name, primer sequences (F: forward, R: reverse) and product sizes.
Additional file 1: Table S1. of Instrumented gait analysis: a measure of gait improvement by a wheeled walker in hospitalized geriatric patients
Creators: name: Schülein, Samuel
name: Barth, Jens
name: Rampp, Alexander
name: Rupprecht, Roland
name: Eskofier, Björn
name: Winkler, Jürgen
name: Karl-Günter Gaßmann
name: Klucken, Jochen
Publisher: name: Figshare
Year: 2017
Subjects: subject: Space Science
subject: Medicine
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Developmental Biology
subject: Science Policy
subject: Hematology

description: Correlations analysis between gait parameter and clinical/functional assessments. (DOCX 19 kb)
PS77: A Novel Peptide with a-Helical Structure for Targeted Anti-Inflammatory Therapy in Biomaterials Design
Creators: name: 林豪杰
Publisher: name: CNGB
Year: 2024
Subjects: Raw sequence reads
Monoisolate

description: Chronic inflammation underlies many diseases, posing challenges in therapeutic management due to the limitations and side effects of current treatments and necessitating novel therapeutic solutions. Here, we introduce PS77, a novel a-helical peptide derived from Squama Manitis, a Traditional Chinese Medicine, and unveil its remarkable anti-inflammatory properties, potentially revolutionizing biomaterials design for targeted anti-inflammatory therapies. Using an in vitro TNF-a-induced inflammatory model in human keratinocytes (HaCaT cells), we demonstrated that PS77 significantly reduced IL-8 and MMP-3 expression, indicating potent anti-inflammatory activity without cytotoxicity to normal cells. Transcriptomic analysis further elucidated PS77's mechanism of action, revealing significant modulation of 265 genes (137 upregulated and 128 downregulated), with a particular focus on the downregulation of genes within the BMP and TGF-beta signaling pathways--key players in inflammation. Moreover, PS77 regulated several inflammation-associated genes, including CHRNA7, CXCR5, RXRG, KRT76, IL12RB2, and COLEC11, underscoring its comprehensive anti-inflammatory effects. This study not only highlights PS77's therapeutic potential as a biomaterial for treating inflammatory diseases but also paves the way for further research into its mechanisms and applications in biomedicine. By leveraging the novel biomaterial properties of PS77, this research contributes to the development of targeted, efficient, and biocompatible anti-inflammatory therapies, marking a significant advance in the field of biomaterials and offering a promising avenue for precision medicine in inflammation management.
Additional file 1: Figure S6. of 3D: diversity, dynamics, differential testing – a proposed pipeline for analysis of next-generation sequencing T cell repertoire data
Creators: name: Zhang, Li
name: Cham, Jason
name: Paciorek, Alan
name: Trager, James
name: Sheikh, Nadeem
name: Fong, Lawrence
Publisher: name: Figshare
Year: 2017
Subjects: subject: Space Science
subject: Cell Biology
subject: Molecular Biology
subject: Ecology
subject: FOS: Biological sciences
subject: Immunology
subject: FOS: Clinical medicine
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology

description: Results of all ipilimumab treated prostate caner subjects and separately by long survivors (overall survival > = 23.6 months) and short survivors (overall survival
Transcriptome sequencing of lims1 gene knockout zebrafish heart tissue.
Creators: name: 覃武明(Wuming Qin)
Publisher: name: CNGB
Year: 2025
Subjects: Raw sequence reads
Transcriptome or Gene expression
Monoisolate

description: Zebrafish heart tissue (3dpf) was stripped using a syringe needle for transcriptome sequencing.
cell-free RNAs in seminal plasma and its association with male fertility
Creators: name: 周青(Qing Zhou)
Publisher: name: CNGB
Year: 2024
Subjects: Raw sequence reads
Transcriptome or Gene expression
Multiisolate
Medical

description: Seminal plasma is a biological fluid containing large amounts of tissue-specific components secreted by organs of the male reproductive system. Thus, seminal plasma has great potential as a clinical sample for biomarker discovery and noninvasive diagnostics of male reproductive disorders. We applied a previously developed library method of polyadenylation ligation-mediated sequencing (PALM-Seq) to capture and sequence the cell-free RNAs (cfRNAs) of seminal plasma from adult men with infertility and healthy individuals. We comprehensively characterized kinds of cfRNAs in seminal plasma for the first time and indicated their specific changes in men with infertility.
Additional file 1: Figure S6. of 3D: diversity, dynamics, differential testing – a proposed pipeline for analysis of next-generation sequencing T cell repertoire data
Creators: name: Zhang, Li
name: Cham, Jason
name: Paciorek, Alan
name: Trager, James
name: Sheikh, Nadeem
name: Fong, Lawrence
Publisher: name: Figshare
Year: 2017
Subjects: subject: Space Science
subject: Cell Biology
subject: Molecular Biology
subject: Ecology
subject: FOS: Biological sciences
subject: Immunology
subject: FOS: Clinical medicine
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology

description: Results of all ipilimumab treated prostate caner subjects and separately by long survivors (overall survival > = 23.6 months) and short survivors (overall survival
Paracanestrinia denmarkica Haitlinger, 2017, nov.sp.
Creators: name: Haitlinger, Ryszard
Publisher: name: Zenodo
Year: 2017
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Arachnida
Sarcoptiformes
Canestriniidae
Paracanestrinia
Paracanestrinia denmarkica

description: Paracanestrinia denmarkica nov.sp.
M a t e r i a l e x a m i n e d: 2♀♀ Locus typicus: Denmark, 11 km north of Hvidbjerg, 6 July 2007, from undetermined Carabus sp., coll. R. Haitlinger, Holotype and paratype are deposited at the Museum of Natural History, Wrocław University, Poland.
D i a g n o s i s: as for the genus.
D e s c r i p t i o n (♀): Idiosma pear-shaped. Gnathosoma relatively narrow (50 holotype, 47 paratype). Dorsal surface of idiosoma reticulated as on Fig 1. Setae c 1, c 2. d 1, d 2, e 1 and e2 short; setae d 2 are the longest (Table 1). Setae c 2 not reach the bases of setae d 2. The distance c 1 -c 1 is longer than distance d 1 -d 1, e 1 -e 1 and e 2 -e 2. Setae h 1 and h 2 very long whip-like, placed at posterior margin of idiosoma.. Posterior part of idiosoma narrow.
Ventral surface with thin setae, h3 and ad2 are the longest (Table 1). Setae f 2 placed at lateral margins, widely arranged (f2-f2 155-166). Apodemes I joint medially to form Yshaped structure. Gnathosoma only partially covered by propodosoma. Bursa copulatrix positioned posteroventrally (Figs 2, 3).
Legs. Tarsus IV is the longest. Tarsus III> tarsi I, II. Ta I: ω1, ω2, ω3, ε, d, wa, e, p, q, Ti I φ, Ge I σ, mG, cG, Fe I vF, Tr I vTr (Fig. 4); Ta II ω, d, wa, e, la, ra, Ti II φ, Ge II σ, mG, cG, Fe II vF, Tr II vTr (Fig. 5); Ta III w, d, e, Ti III φ, Ge III nG, Tr III vTr (Fig. 6); Ta IV w, d, e, Ti IV φ, Tr IV vTr (Fig. 7). Measurements are given in Table 1.
E t y m o l o g y: Named after the country where holotype was collected.
description: Published as part of Haitlinger, Ryszard, 2017, Paracanestrinia denmarkica nov. gen., nov. sp. (Astigmata: Canestriniidae) from Denmark, pp. 657-662 in Linzer biologische Beiträge 49 (1) on page 659, DOI: 10.5281/zenodo.13151163