cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.13020/0cdv-q695
title: Data supporting "PHEIGES, all-cell-free phage synthesis and selection from engineered genomes"

description: Bacteriophages constitute an invaluable biological reservoir for biotechnology and medicine. The ability to exploit such vast resources is hampered by the lack of methods to rapidly engineer, assemble, package genomes, and select phages. Cell-free transcription-translation (TXTL) offers experimental settings to address such a limitation. Here, we describe PHage Engineering by In vitro Gene Expression and Selection (PHEIGES) using T7 phage genome and Escherichia coli TXTL. Phage genomes are assembled in vitro from PCR-amplified fragments and directly expressed in batch TXTL reactions to produce up to 1011 PFU/ml engineered phages within one day. We further demonstrate a significant genotype-phenotype linkage of phage assembly in bulk TXTL. This enables rapid selection of phages with altered rough lipopolysaccharides specificity from phage genomes incorporating tail fiber mutant libraries. We establish the scalability of PHEIGES by one pot assembly of such mutants with fluorescent gene integration and 10% length-reduced genome.
description: Microsoft Excel files with experimental data (microscopy data)
DNA sequencing data (NGS sequencing)
DOI: 10.6084/m9.figshare.24968940.v1
title: Pulmonary Circulation Vessels Dataset for pathology аssessment using Machine Learning-based Image Segmentation

description: Pulmonary hypertension (PH) is a symptom complex that accompanies a number of diseases of different etiologies, associated with basic mechanisms of structural and functional changes of the pulmonary circulation vessels and revealed pressure increasing in the pulmonary artery. The structural changes in the pulmonary circulation vessels are the main limiting factor determining the prognosis of patients with PH. Thickening and irreversible deposition of collagen in the pulmonary artery branches walls leads to rapid disease progression and a therapy effectiveness decreasing. In this regard, histological examination of the pulmonary circulation vessels is critical both in preclinical studies and clinical practice. However, measurements of quantitative parameters such as the average vessel outer diameter, the vessel walls area, and the hypertrophy index claimed significant time investment and the requirement for specialist training to analyze micrographs.
DOI: 10.21227/xbec-7n91
title: Fourfold-N step phase-shifting images

description: This data is for Fourfold-N step phase shifting method. There are three types of images here and in each type : '1. bmp', '5. bmp', '9. bmp', and '13. bmp' are the first set of data, '2. bmp', '6. bmp', '10. bmp', and '14. bmp' are the second set of data, '3. bmp', '7. bmp', '11. bmp', and '15. bmp' are the third set of data, and '4. bmp', '8. bmp', '12. bmp', and '16. bmp' are the fourth set of data. And 'g1. bmp', 'g2. bmp', 'g3. bmp', and 'g4. bmp' are Gray code images with auxiliary phase unwrapping.
DOI: 10.5281/zenodo.10671575
title: TILSHUNOSLIKDA SO'Z BIRIKMALARI NAZARIYASI

description: Abstract. The article is about the role of word combinations in linguistics and its linguistic features. In addition, several studies were conducted on aspects such as grammatical communication methods, syntactic relationship with word groups, synonymy, polyfunctionality, and polysemy.

Keywords: synonymy, polyfunctionality, equivalence, syntactic mechanism.

Аннотация. В статье говорится о роли словосочетаний в языкознании и их лингвистических особенностях. Кроме того, был проведен ряд исследований по таким аспектам, как грамматические способы общения, синтаксическая связь с группами слов, синонимия, полифункциональность и многозначность.

Ключевые слова: синонимия, полифункциональность, эквивалентность, синтаксический механизм.

Annotatsiya. Maqolada so‘z birikmalarining tilshunoslikda tutgan o‘rni va uning lisoniy xususiyatlari haqida so‘z boradi. Shuningdek, lisoniy birliklarning grammatik aloqa usullari, so‘z turkumlari bilan sintaktik munosabatga kirishuvi, sinonimik, polifunksionallik, ko‘p ma’noliligi kabi jihatlari xususida qator tadqiqotlar olib borildi.

Kalit so‘zlar: sinonimik, polifunksionallik, ekvivalent, sintaktik mexanizm.
DOI: 10.5281/zenodo.10671574
title: TILSHUNOSLIKDA SO'Z BIRIKMALARI NAZARIYASI

description: Abstract. The article is about the role of word combinations in linguistics and its linguistic features. In addition, several studies were conducted on aspects such as grammatical communication methods, syntactic relationship with word groups, synonymy, polyfunctionality, and polysemy.

Keywords: synonymy, polyfunctionality, equivalence, syntactic mechanism.

Аннотация. В статье говорится о роли словосочетаний в языкознании и их лингвистических особенностях. Кроме того, был проведен ряд исследований по таким аспектам, как грамматические способы общения, синтаксическая связь с группами слов, синонимия, полифункциональность и многозначность.

Ключевые слова: синонимия, полифункциональность, эквивалентность, синтаксический механизм.

Annotatsiya. Maqolada so‘z birikmalarining tilshunoslikda tutgan o‘rni va uning lisoniy xususiyatlari haqida so‘z boradi. Shuningdek, lisoniy birliklarning grammatik aloqa usullari, so‘z turkumlari bilan sintaktik munosabatga kirishuvi, sinonimik, polifunksionallik, ko‘p ma’noliligi kabi jihatlari xususida qator tadqiqotlar olib borildi.

Kalit so‘zlar: sinonimik, polifunksionallik, ekvivalent, sintaktik mexanizm.
DOI: 10.5281/zenodo.10671581
title: BEVOSITA TARJIMADA FRAZEOLOGIZMLAR MA'NOSINI BERISH MUAMMOLARI

description: Abstract. This article provides information on the problems of giving the meaning of phraseology in direct translation from English. Although translation, at first glance, looks like a simple work process, when the work is recreated in another language, the translator is busy with a creative task and, like the author, bears all the responsibility for the reliability of each word, phrase, and sentence. undertakes. If he does not see what the author of the root of the word sees, if he does not feel what he feels, no matter how well the word is chosen in the translation, the meaning will not be understood. Because the word in the translation should be like the original word in all respects and should not contradict the reality.

Keywords: western literature, direct translation, translation problems, phraseology, artistic work, translation process.

Аннотация. В данной статье представлена информация о проблемах придания значения фразеологии в прямом переводе с английского языка. Хотя перевод, на первый взгляд, выглядит простым рабочим процессом, когда произведение воссоздается на другом языке, переводчик занят творческой задачей и, как и автор, несет всю ответственность за достоверность каждого слова, фразы, и приговор. Если он не увидит того, что видит автор корня слова, если он не почувствует того, что чувствует, как бы удачно ни было выбрано слово в переводе, смысл не будет понят. Потому что слово в переводе должно быть похоже на слово оригинала во всех отношениях и не должно противоречить действительности.

Ключевые слова: западная литература, прямой перевод, проблемы перевода, фразеология, художественное произведение, переводческий процесс.

 Annotatsiya. Ushbu maqolada inglizchadan bevosita tarjimada frazeologizmlar ma’nosini berish muommolari haqida ma’lumotlar berilgan. Tarjima, bir qarashda, oddiy ish jarayoniga o‘xshasa-da, asar boshqa tilda qayta yaratilar ekan, tarjimon ijodiy vazifa bilan band bo‘lib, muallif singari har bir so‘z, birikma, jumlaning ishonchli bo‘lishi uchun butun mas’uliyatni o‘z zimmasiga oladi. Agar u so‘z zamiridagi muallif ko‘rgan narsani ko‘rmas, u his qilgan narsani tuymas ekan, tarjimada so‘z qanchalik maqbul tanlangan bo‘lmasin, ma’no anglashilmay qolaveradi. Chunki tarjimadagi so‘z har jihatdan asliyat so‘ziga monand bo‘lish bilan birga voqelikka zid bo‘lmasligi kerak.

Kalit so‘zlar: g‘arb adabiyoti, bevosita tarjima, tarjima muommolari, frazeologizmlar, badiiy asar, tarjima jarayoni.
DOI: 10.5281/zenodo.10671582
title: BEVOSITA TARJIMADA FRAZEOLOGIZMLAR MA'NOSINI BERISH MUAMMOLARI

description: Abstract. This article provides information on the problems of giving the meaning of phraseology in direct translation from English. Although translation, at first glance, looks like a simple work process, when the work is recreated in another language, the translator is busy with a creative task and, like the author, bears all the responsibility for the reliability of each word, phrase, and sentence. undertakes. If he does not see what the author of the root of the word sees, if he does not feel what he feels, no matter how well the word is chosen in the translation, the meaning will not be understood. Because the word in the translation should be like the original word in all respects and should not contradict the reality.

Keywords: western literature, direct translation, translation problems, phraseology, artistic work, translation process.

Аннотация. В данной статье представлена информация о проблемах придания значения фразеологии в прямом переводе с английского языка. Хотя перевод, на первый взгляд, выглядит простым рабочим процессом, когда произведение воссоздается на другом языке, переводчик занят творческой задачей и, как и автор, несет всю ответственность за достоверность каждого слова, фразы, и приговор. Если он не увидит того, что видит автор корня слова, если он не почувствует того, что чувствует, как бы удачно ни было выбрано слово в переводе, смысл не будет понят. Потому что слово в переводе должно быть похоже на слово оригинала во всех отношениях и не должно противоречить действительности.

Ключевые слова: западная литература, прямой перевод, проблемы перевода, фразеология, художественное произведение, переводческий процесс.

 Annotatsiya. Ushbu maqolada inglizchadan bevosita tarjimada frazeologizmlar ma’nosini berish muommolari haqida ma’lumotlar berilgan. Tarjima, bir qarashda, oddiy ish jarayoniga o‘xshasa-da, asar boshqa tilda qayta yaratilar ekan, tarjimon ijodiy vazifa bilan band bo‘lib, muallif singari har bir so‘z, birikma, jumlaning ishonchli bo‘lishi uchun butun mas’uliyatni o‘z zimmasiga oladi. Agar u so‘z zamiridagi muallif ko‘rgan narsani ko‘rmas, u his qilgan narsani tuymas ekan, tarjimada so‘z qanchalik maqbul tanlangan bo‘lmasin, ma’no anglashilmay qolaveradi. Chunki tarjimadagi so‘z har jihatdan asliyat so‘ziga monand bo‘lish bilan birga voqelikka zid bo‘lmasligi kerak.

Kalit so‘zlar: g‘arb adabiyoti, bevosita tarjima, tarjima muommolari, frazeologizmlar, badiiy asar, tarjima jarayoni.
DOI: 10.5281/zenodo.10671531
title: Supporting files for research paper "A chromosome-scale reference genome of Lathyrus sativus"

description:  

This is a supporting dataset for the research paper: "A chromosome-scale reference genome of Lathyrus sativus"

Abstract

Grass pea (Lathyrus sativus L.) is an underutilised but promising legume crop with tolerance to a wide range of abiotic and biotic stress factors, and potential for climate-resilient agriculture. Despite a long history and wide geographical distribution of cultivation, only limited breeding resources are available. This paper reports a 5.96 Gbp genome assembly of grass pea genotype LS007, of which 5.03 Gbp is scaffolded into 7 pseudo-chromosomes. The assembly has a BUSCO completeness score of 99.1% and is annotated with 31719 gene models and repeat elements. This represents the most contiguous and accurate assembly of the grass pea genome to date.

 

Other supporting data files related to this submission:

raw Pacific Biosciences HiFi long reads of LS007 genomic DNA, available at PRJEB70892, FASTQ

scaffolded assembly of LS007 along with annotations as an EMBL format file GCA_963859935 under project PRJEB70892 

CENH3 ChIP-seq sequencing, Illumina paired end, PRJEB54858 (run accessions ERR12509730-ERR12509733), FASTQ 

 

Code Availability

Source code for the gene annotation is available on github (https://github.com/gitbackspacer/grasspea_annotation)

 

Files in this datadepository:

README_F.txt

Readme file with MD5sums of submitted files.

lathyrus.emapper.decorated.gff

Orthology based functional annotation of protein coding genes

 

lathyrus_interproscan.annotations.gff3The annotation of functional domains of protein coding genes.

lathy.emapper.annotations.tab.xlsx.zip

lathy.emapper.annotations.tab.xlsx

Outputs from eggNOG-mapper for Orthology based functional annotation of LS007 Lathyrus sativus genes

lathyrus_interproscan.zip

lathyrus_interproscan.tab

Outputs from Interproscan for structure and domains of annotated LS007 Lathyrus sativus genes

repeat annotation_reversed chromosomes.zip

DANTE_LTR_full_output.gff3Full-length and partial LTR-RT elements annotated by DANTE_LTR

DANTE_filtered_output.gff3Protein coding regions of transposable elements annotated by DANTE

RM_LIB_All_concatenated.fastaCustom library of mobile elements, including LTR-RT, LINE, and Class II elements

Repeat_annotations_merged_31072023_sorted.gff3Repeat annotation based on a custom library and RepeatMasker search, as well as DANTE protein domain. The GFF3 includes annotation of mobile elements and simple repeats.

all_scaf_run_all_default_annotation.gff3Tandem repeats with a monomer size 40-3000 nt annotated by TideCluster, minimum array size 5kb

all_scaf_run_all_default_tidehunter.gff3All tandem repeats with monomer size 40-3000 identified by TideHunter.

all_scaf_run_all_short_monom_annotation.gff3Tandem repeats with monomer size 10-39 nt annotated by TideCluster with a minimum array size 5kb

all_scaf_run_all_short_monom_tidehunter.gff3All tandem repeats with monomer size 10-39 nt identified by TideHunter.
DOI: 10.14459/2024mp1735421
title: Data profiling and migration processes

description: In large research projects participants are required to migrate data to the official 
information infrastructure and adopt that for subsequent research activities. This package contains migration plan and corresponding data 
which were created to migrate data and users of large Collaborative Research Centres (CRC) e.g. TRR277 AMC (a CRC funded by German Research Council).
In this data package there are two code packages, an example of data profile, data profile templates and a plan of data and users’ migration. One 
of the code packages is an example of framework for data profiling to migrate data. The current implementation of this package is based on the 
example of WebDAV interface offered by PowerFolder. The other code package creates directory structures together with corresponding metadata 
files in bulk quantity for data to be placed in Data Science Storage (DSS). It creates all the entities based on the specified naming convention for projects, work packages, storages and folders as well as corresponding metadata templates. For details about templates and structures, 
please refer to the data package “Simplified DataCite compliant metadata templates and directory structures to manage research data” available at 
https://doi.org/10.14459/2024mp1735150. The naming convention in this case maintains the contextual information and facilitates the integration of data in TUM Workbench. The profile templates are in tabular forms which are also suitable for spreadsheet format and Web/digital form. Example of data profile, generated by the data profiling application, is in JSON format. It has been truncated to remove redundant information and edited to replace personal information e.g. values are replaced with ###
The contents of this data package are based on the AMC specific policy, information infrastructure, project distribution and organisation, 
nature of data etc. For details about policy, please refer to the data package “Research data Management policy for large 
CRC projects” available at https://doi.org/10.14459/2024mp1734393. The defined strategy and procedures may be adapted by the target 
groups as per their own policy, information infrastructure, the distribution of tasks and data organisation schemes etc.
DOI: 10.5281/zenodo.10671412
title: Bibliographic Dataset for the Systematic Literature Review on Industry 5.0 Concepts and Enabling Technologies, Towards an Enhanced Conservation Practice

description: This database contains all the bibliographic information found after applying the Search Strategy used for the Industry 5.0 Concepts and Enabling Technologies, Towards an Enhanced Conservation Practice: Systematic Literature Review. The following electronic databases were searched:



Scopus.


A total of 907 records were found. The search was conducted on 16/02/2024.

The information is presented in .ris, .bib, and .csv format.
DOI: 10.5281/zenodo.10671588
title: ПРЕОДОЛЕНИЕ РЕЧЕВЫХ НАРУШЕНИЙ ПРИ ОБУЧЕНИИ  РУССКОМУ ЯЗЫКУ КАК НЕРОДНОМУ У ДЕТЕЙ ДОШКОЛЬНОГО ВОЗРАСТА

description: Abstract. The article discusses the results of a survey of the native and Russian speech of preschool children (5-7 years old) in conditions of bilingualism with speech underdevelopment, to identify the levels of formation of the linguistic components of speech in the Uzbek and Russian languages. The study involved 20 preschool children with general speech underdevelopment of levels 2-3. Children are brought up in bilingual conditions: their native language is Uzbek, the language of education and upbringing in preschool institutions is Russian.

Keywords. Bilingualism, conditions, deficiency, levels, speech, level, training, russian language.

Annotatsiya. Maqolada nutq rivojlanmagan ikki tillilik sharoitida maktabgacha yoshdagi (5-7 yoshli) bolalarning ona va rus tilidagi nutqini o‘rganish natijalari, o‘zbek va rus tillarida nutqning lingvistik tarkibiy qismlarining shakllanish darajalarini aniqlash masalalari ko‘rib chiqiladi. Tadqiqotda umumiy nutqi 2-3 darajali rivojlanmagan 20 nafar maktabgacha yoshdagi bolalar ishtirok etdi. Bolalar ikki tilli sharoitda tarbiyalanadi: ularning ona tili o‘zbek tili, maktabgacha ta’lim muassasalarida ta’lim va tarbiya tili rus tilidir.

Kalit so‘zlar: ikki tillilik, shart-sharoitlar, kamchilik, darajalar, nutq, daraja, tayyorgarlik, rus tili.

Аннотация. В статье рассматриваются результаты исследования родной и русской речи детей дошкольного возраста (5-7лет) в условиях билингвизма, имеющих речевое недоразвитие, выявляются уровни сформированности языковых компонентов речи узбекского и русского языков.В исследовании приняли участие 20 дошкольников с общим недоразвитием речи 2–3 уровня. Дети воспитываются в условиях билингвизма: родной язык – узбекский, язык обучения и воспитания в дошкольном учреждении – русский.

Ключи. Билингвизм, условия, недостаток, уровни, речь, уровень, обучение, русский язык.
DOI: 10.5281/zenodo.10671589
title: ПРЕОДОЛЕНИЕ РЕЧЕВЫХ НАРУШЕНИЙ ПРИ ОБУЧЕНИИ  РУССКОМУ ЯЗЫКУ КАК НЕРОДНОМУ У ДЕТЕЙ ДОШКОЛЬНОГО ВОЗРАСТА

description: Abstract. The article discusses the results of a survey of the native and Russian speech of preschool children (5-7 years old) in conditions of bilingualism with speech underdevelopment, to identify the levels of formation of the linguistic components of speech in the Uzbek and Russian languages. The study involved 20 preschool children with general speech underdevelopment of levels 2-3. Children are brought up in bilingual conditions: their native language is Uzbek, the language of education and upbringing in preschool institutions is Russian.

Keywords. Bilingualism, conditions, deficiency, levels, speech, level, training, russian language.

Annotatsiya. Maqolada nutq rivojlanmagan ikki tillilik sharoitida maktabgacha yoshdagi (5-7 yoshli) bolalarning ona va rus tilidagi nutqini o‘rganish natijalari, o‘zbek va rus tillarida nutqning lingvistik tarkibiy qismlarining shakllanish darajalarini aniqlash masalalari ko‘rib chiqiladi. Tadqiqotda umumiy nutqi 2-3 darajali rivojlanmagan 20 nafar maktabgacha yoshdagi bolalar ishtirok etdi. Bolalar ikki tilli sharoitda tarbiyalanadi: ularning ona tili o‘zbek tili, maktabgacha ta’lim muassasalarida ta’lim va tarbiya tili rus tilidir.

Kalit so‘zlar: ikki tillilik, shart-sharoitlar, kamchilik, darajalar, nutq, daraja, tayyorgarlik, rus tili.

Аннотация. В статье рассматриваются результаты исследования родной и русской речи детей дошкольного возраста (5-7лет) в условиях билингвизма, имеющих речевое недоразвитие, выявляются уровни сформированности языковых компонентов речи узбекского и русского языков.В исследовании приняли участие 20 дошкольников с общим недоразвитием речи 2–3 уровня. Дети воспитываются в условиях билингвизма: родной язык – узбекский, язык обучения и воспитания в дошкольном учреждении – русский.

Ключи. Билингвизм, условия, недостаток, уровни, речь, уровень, обучение, русский язык.
DOI: 10.6084/m9.figshare.25234009
title: Rúbrica analítica reseñas

description: Esta rúbrica analítica permite evaluar desde el punto de vista cualitativo y cuantitativo ejercicios académicos centrados en la lectura y elaboración de un ejercicio crítico sobre una monografía u obra colectiva.
DOI: 10.6084/m9.figshare.25234009.v1
title: Rúbrica analítica reseñas

description: Esta rúbrica analítica permite evaluar desde el punto de vista cualitativo y cuantitativo ejercicios académicos centrados en la lectura y elaboración de un ejercicio crítico sobre una monografía u obra colectiva.
DOI: 10.6084/m9.figshare.22337635
title: Persistent changes in expression of genes involved in inflammation and fibrosis in the lungs of rats exposed to airborne lunar dust

description: NASA is currently planning return missions to the Moon for further exploration and research. The Moon is covered by a layer of potentially reactive fine dust, which could pose a toxicological risk of exposure to explorers. To assess this risk, we exposed rats to lunar dust (LD) that was collected during the Apollo14 mission. Rats were exposed to respirable sizes of LD at concentrations of 0, 2.1, 6.8, 20.8, or 60.6 mg/m<sup>3</sup> for 4 weeks. At thirteen  weeks after exposure, we assessed 44,000 gene transcripts and found the expression of 614 genes with known functions were significantly altered in the rats exposed to the 2 higher concentrations of LD, whereas few changes in gene expression were detected in the group exposed to the lowest concentration of LD. Many of the significant changes in gene expression involved genes known to be associated with inflammation or fibrosis. Four genes encoding pro-inflammatory chemokines were analyzed further for all the sampling points at 1 day, and 1, 4, and 13 weeks after the 4-week dust exposure, using real-time polymerase chain reaction. The expression of these genes was altered in a dose- and time-dependent manner and persistently changed in the lungs of the rats exposed to the two higher concentrations of LD. Their expressions are consistent with changes we detected in pulmonary toxicity biomarkers and pathology in these animals during a previous study. Because Apollo-14 LD contains common mineral oxides similar to an Arizona volcanic ash, besides revealing the toxicity of LD, our findings could help elucidate the genomic and molecular mechanisms involved in pulmonary toxicity induced by terrestrial mineral dusts.