cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.21275891.v1
title: Additional file 2 of Proteomic alterations associated with residual disease in neoadjuvant chemotherapy treated ovarian cancer tissues

description: Additional file 2: Table S1. Proteins significantly altered between post versus pre-NACT tissues (LIMMA p-value&lt;0.01). Table S2. Proteins significantly altered between R1 versus R0 patients in pre-NACT tissues (LIMMA p-value&lt;0.05). Table S3. Significantly (LIMMA p&lt;0.05) co-altered proteins between pre-NACT tumors from patients with any level of residual disease vs R0 patients from an independent ovarian cancer cohort (CPTAC 2016) that exhibit highly correlated abundance trends with the present ovarian cancer cohort. Table S4. Diseases and biofunctions (Ingenuity Pathway Analysis) significantly enriched by proteins altered between R1 versus R0 patients in pre-NACT tissues (LIMMA p-value&lt;0.05). Table S5. Proteins altered in R1 versus R0 patients in pre-NACT treated tumors significantly correlating with altered progression free survival in CPTAC ovarian 2016.
DOI: 10.6084/m9.figshare.24920280
title: Sequencing of the insert of the construct pMV306hsp-rv0191, used to complement the ∆<i>rv0191 </i>mutant

description: Two primers were used to sequence the insert in the ∆<i>rv0191</i> complementation construct.Last file is the in silico designed construct (with added optimized ribosomal binding site) used for screening.
DOI: 10.6084/m9.figshare.24920280.v1
title: Sequencing of the insert of the construct pMV306hsp-rv0191, used to complement the ∆<i>rv0191 </i>mutant

description: Two primers were used to sequence the insert in the ∆<i>rv0191</i> complementation construct.Last file is the in silico designed construct (with added optimized ribosomal binding site) used for screening.
DOI: 10.6084/m9.figshare.14462412
title: Output files(part1)

description: The output files of MIP3D.
DOI: 10.6084/m9.figshare.14462412.v1
title: Output files(part1)

description: The output files of MIP3D.
DOI: 10.6084/m9.figshare.1266197
title: Interoperability for Data Repositories. Machine Methods for Retrieving Data for Display or Mining Utilising Persistent (data-DOI) Identifiers

description: Use of a persistent identifier for access to journal articles (the DOI) is now almost universal amongst researchers. It directs to the journal landing page where the human has to then take over navigation (or payment). Recently, the deposition of data into open access repositories and the resulting assignment of a data-DOI to the data or fileset has started to be increasingly adopted, and in the near future probably mandated by funders. Unfortunately, mechanisms for the retrieval and application of the data from such sources are still inherited from those developed for journal articles. We argue these mechanisms are not fit for (data) purpose. In these three demonstrations, we show how existing standards can be used to automate the data retrieval process, starting purely from the DOI assigned to the objects. The first of these utilises the 10320/loc method (see doi:10.1021/ci500302p) which is flexible and efficient, but is not supported by the DataCite registry. The next two schemes were developed to achieve such interoperability, the first using the DataCite Media API and the second exploiting added metadata such as relatedMetadataScheme = ORE to use the repository ORE resource map. We have embedded these methods into a Javascript-based data viewing demonstrator (JSmol), which is designed to display molecular information. Handlers for other types of data could be readily incorporated, and the system could also be exploited for data-mining. Examples of recently published journal articles which use such data-DOI handling will be cited.
DOI: 10.5281/zenodo.10061349
title: TCLBCat: A Changing-Look (Transition) Blazars Catalog

description: A Changing-Look (Transition) Blazars Catalog (CLB Catalog)
DOI: 10.6084/m9.figshare.24920277
title: Sequencing of the insert of the construct pMV306hsp-rv1878, used to complement the ∆<i>rv1878 </i>mutant

description: Three primers were used to sequence the insert in the ∆<i>rv1878</i> complementation construct.Last file is the in silico designed construct (with added optimized ribosomal binding site) used for screening.
DOI: 10.6084/m9.figshare.24920277.v1
title: Sequencing of the insert of the construct pMV306hsp-rv1878, used to complement the ∆<i>rv1878 </i>mutant

description: Three primers were used to sequence the insert in the ∆<i>rv1878</i> complementation construct.Last file is the in silico designed construct (with added optimized ribosomal binding site) used for screening.
DOI: 10.6084/m9.figshare.24920259
title: Sequencing of the insert of the construct pMV306hsp-rv1877, used to complement the ∆<i>rv1877 </i>mutant

description: Three primers were used to sequence the insert in the ∆<i>rv1877</i> complementation construct.Last file is the in silico designed construct (with added optimized ribosomal binding site) used for screening.
DOI: 10.6084/m9.figshare.24920259.v1
title: Sequencing of the insert of the construct pMV306hsp-rv1877, used to complement the ∆<i>rv1877 </i>mutant

description: Three primers were used to sequence the insert in the ∆<i>rv1877</i> complementation construct.Last file is the in silico designed construct (with added optimized ribosomal binding site) used for screening.
DOI: 10.6084/m9.figshare.24920223
title: Sequencing of the insert of the final construct used to generate the ∆<i>rv</i><i>0191</i> M.tb mutant

description: Here, the fragment of pGOAL17 containing the<i> sacB </i>and <i>LacZ</i> has been cloned into the p2NIL-0191US/DS construct, and this was sequenced again to check for integrity. Since the insert is large, many sequencing reactions were performed, using different primers, named primer 1 to primer 9. Therefore, alignments were performed with all data, to ensure coverage of the entire region.The last two files are the in silico designed constructs, used as template for screening by restriction enzyme digestion (RED) and for the sequencing alignments. Since cloning the fragment from pGOAL17 could face either direction, since it was a blunt end cloning, there are two possible designs of the final construct.
DOI: 10.6084/m9.figshare.24920223.v1
title: Sequencing of the insert of the final construct used to generate the ∆<i>rv</i><i>0191</i> M.tb mutant

description: Here, the fragment of pGOAL17 containing the<i> sacB </i>and <i>LacZ</i> has been cloned into the p2NIL-0191US/DS construct, and this was sequenced again to check for integrity. Since the insert is large, many sequencing reactions were performed, using different primers, named primer 1 to primer 9. Therefore, alignments were performed with all data, to ensure coverage of the entire region.The last two files are the in silico designed constructs, used as template for screening by restriction enzyme digestion (RED) and for the sequencing alignments. Since cloning the fragment from pGOAL17 could face either direction, since it was a blunt end cloning, there are two possible designs of the final construct.
DOI: 10.6084/m9.figshare.24920217
title: Sequencing of the insert of the final construct used to generate the ∆<i>rv</i><i>1878 </i>M.tb mutant

description: Here, the fragment of pGOAL17 containing the<i> sacB </i>and <i>LacZ</i> has been cloned into the p2NIL-1878US/DS construct, and this was sequenced again to check for integrity. Since the insert is large, many sequencing reactions were performed, using different primers. Therefore, alignments were performed with all data, to ensure coverage of the entire region.The last two files are the in silico designed constructs, used as template for screening by restriction enzyme digestion (RED) and for the sequencing alignments. Since cloning the fragment from pGOAL17 could face either direction, since it was a blunt end cloning, there are two possible designs of the final construct.
DOI: 10.6084/m9.figshare.24920217.v1
title: Sequencing of the insert of the final construct used to generate the ∆<i>rv</i><i>1878 </i>M.tb mutant

description: Here, the fragment of pGOAL17 containing the<i> sacB </i>and <i>LacZ</i> has been cloned into the p2NIL-1878US/DS construct, and this was sequenced again to check for integrity. Since the insert is large, many sequencing reactions were performed, using different primers. Therefore, alignments were performed with all data, to ensure coverage of the entire region.The last two files are the in silico designed constructs, used as template for screening by restriction enzyme digestion (RED) and for the sequencing alignments. Since cloning the fragment from pGOAL17 could face either direction, since it was a blunt end cloning, there are two possible designs of the final construct.
DOI: 10.6084/m9.figshare.24920211
title: Sequencing of the insert of the final construct used to generate the ∆<i>rv1877 </i>M.tb mutant

description: Here, the fragment of pGOAL17 containing the<i> sacB </i>and <i>LacZ</i> has been cloned into the p2NIL-1877US/DS construct, and this was sequenced again to check for integrity. Since the insert is large, many sequencing reactions were performed, using different primers, named primer -1 to primer 9. Therefore, alignments were performed with all data, to ensure coverage of the entire region.The last two files are the in silico designed constructs, used as template for screening by restriction enzyme digestion (RED) and for the sequencing alignments. Since cloning the fragment from pGOAL17 could face either direction, since it was a blunt end cloning, there are two possible designs of the final construct.
DOI: 10.6084/m9.figshare.24920211.v1
title: Sequencing of the insert of the final construct used to generate the ∆<i>rv1877 </i>M.tb mutant

description: Here, the fragment of pGOAL17 containing the<i> sacB </i>and <i>LacZ</i> has been cloned into the p2NIL-1877US/DS construct, and this was sequenced again to check for integrity. Since the insert is large, many sequencing reactions were performed, using different primers, named primer -1 to primer 9. Therefore, alignments were performed with all data, to ensure coverage of the entire region.The last two files are the in silico designed constructs, used as template for screening by restriction enzyme digestion (RED) and for the sequencing alignments. Since cloning the fragment from pGOAL17 could face either direction, since it was a blunt end cloning, there are two possible designs of the final construct.
DOI: 10.6084/m9.figshare.24920187
title: Sequencing data of the insert of p2NIL-0191US/DS produced during the generation of the ∆<i>rv</i><i>0191</i>mutant

description: This is the second construct generated during the cloning process leading to the final construct used to delete rv0191 in M.tbHere, the US and DS regions have been cloned into the p2NIL vector, and they are sequenced to check for integrity. Since the insert is large, many sequencing reactions were performed, using different primers, named primer -1 to primer 9. Therefore, alignments were performed with all data, to ensure coverage of the entire region.The last file, is the in silico designed construct, used as template for screening by restriction enzyme digestion (RED) and for the sequencing alignments
DOI: 10.6084/m9.figshare.24920187.v1
title: Sequencing data of the insert of p2NIL-0191US/DS produced during the generation of the ∆<i>rv</i><i>0191</i>mutant

description: This is the second construct generated during the cloning process leading to the final construct used to delete rv0191 in M.tbHere, the US and DS regions have been cloned into the p2NIL vector, and they are sequenced to check for integrity. Since the insert is large, many sequencing reactions were performed, using different primers, named primer -1 to primer 9. Therefore, alignments were performed with all data, to ensure coverage of the entire region.The last file, is the in silico designed construct, used as template for screening by restriction enzyme digestion (RED) and for the sequencing alignments
DOI: 10.6084/m9.figshare.25052864.v1
title: Data for: The estimation of additive genetic variance of body size in a wild passerine is sensitive to the method used to estimate relatedness among the individuals

description: These data and codes are for "The estimation of additive genetic variance of body size in a wild passerine is sensitive to the method used to estimate relatedness among the individuals" by Jablonszky et al.Additive genetic variance and heritability of tarsus length was investigated with animal models, relatedness was assessed among the individuals with two different matrixes: one based on social pedigree and a genetic similarity matrix based on SNPs.The data was collected in a Hungarian population of collared flycatcher (Ficedula albicollis). Tarsus length was measured and blood sample was collected from the birds. Pedigree were built based on a long-term dataset.Files:Am_csakszoc.Rdata - social pedigree matrixgdmatrix5_morf.Rdata - genetic similarity matrixsdata2_dataset.Rdata - the data, ring_ring and ring2 are IDs compatible with the pedigree matrices and the genetic similarity matrix respectively. Sex if M for males and F for females. Measurer2 was made by eliminating one measurer for which there was not enough data. Tars is tarsus length (in 0.1 mm), tars_repeatno is indicating the order of the focal measurement among the tarsus length measurements of the individual. Minage is the known minimum age of the birdstarsusheritability_code.R - the code
DOI: 10.6084/m9.figshare.25232345.v1
title: Supplementary Material for: Less invasive surfactant administration (LISA) compared to intubation surfactant rapid extubation (INSURE) method in preterm neonates - an umbrella review

description: Introduction: In spontaneously breathing neonates, surfactant can be administered via thin catheter while enabling the own breathing (less invasive surfactant administration (LISA)). Alternatively, the neonate is intubated for surfactant delivery (Intubation, Surfactant, Rapid Extubation (INSURE)). Thus, the aim was to provide an overview of the efficacy of the LISA compared to INSURE. 
Methods: We performed an umbrella review of previous meta-analyses including randomized controlled trials. We searched PubMed, Scopus, and Web of Science in July 2023. Two authors screened the search results and systematic reviews with meta-analyses that focused on LISA vs INSURE were included. One author extracted, and another author validated the extracted data. AMSTAR-2 and ROBIS evaluations were performed by two authors independently. 
Results: A total of 9 systematic reviews with meta-analyses were included. The quality according to AMSTAR-2 was high in one, moderate in one, low in three, and critically low in four. According to ROBIS the risk of bias was low in three and high in six of the reviews. LISA was more effective than INSURE in preventing mechanical ventilation (8/8 reviews), death or BPD (4/4 reviews), death (3/9 reviews) and BPD (3/9 reviews). 
Conclusions: All the included systematic reviews and meta-analyses reported LISA to be more effective than INSURE in terms of need for mechanical ventilation and death or BPD. However, the quality of the published systematic reviews has been mostly deficient. Future systematic reviews should focus on reporting quality.
DOI: 10.4231/d39z90b9t
title: ACI 369 Circular Column Database

description: The American Concrete Institute (ACI) committee 369 (Seismic Repair and Rehabilitation) is in the process of updating provisions pertaining to reinforced concrete structures of the American Society of Civil Engineers (ASCE) Standard 41-06 Supplement No.1 (2007) entitled "Seismic Rehabilitation of Existing Structures". This database is part of that ACI 369 committee effort. The circular column database is one of two parts of the ACI 369 column database. The database was compiled by Balaji Sivaramakrishnan and Dr. Wassim Ghannoum at the University of Texas at Austin and builds on the PEER Structural Performance database (http://nisee.berkeley.edu/spd/index.html). In turn, the PEER database was based on databases built by researchers at the National Institute of Standards and Technology (NIST) - (Taylor and Stone, 1993; Taylor et al., 1997). The PEER column data was collected and processed by University of Washington students Michael Berry, Haili Camarillo, Amit Mookerjee, Myles Parrish, and Zachary Price under the supervision of Professor Marc Eberhard. The database is made public through the NEEShub website to facilitate knowledge transfer to the community thus allowing users of ACI 369 documents and the ASCE 41 standard to evaluate the data on which the provisions are based. Posting the database online also serves to facilitate updating of the database with additional experimental data. We encourage the community to point out any column tests that have been omitted in the database or submit any new experimental data that can be added to the database. Please contact Dr. Ghannoum at (ghannoum@mail.utexas.edu) if you would like to contribute to this database. Any data submitted will be processed and verified by ACI committee 369 before being posted. The data are organized and presented as a spreadsheet: each row contains information about one test and the columns contain information about geometry, reinforcement details, strength of materials, drift ratio at different level of loading, lateral load, shear capacity, and lateral load-deflection data files. Data files can be downloaded in CSV formats.
DOI: 10.6084/m9.figshare.24920172
title: Sequencing data of the insert of p2NIL-1878US/DS produced during the generation of the ∆<i>rv</i><i>1878</i> mutant

description: This is the second construct generated during the cloning process leading to the final construct used to delete rv1878 (glnA3) in M.tbHere, the US and DS regions have been cloned into the p2NIL vector, and they are sequenced to check for integrity. Since the insert is large, many sequencing reactions were performed, using different primers, named primer -1 to primer 10. Therefore alignments were performed with all data, to ensure coverage of the entire region.The last file, is the in silico designed construct, used as template for screening by restriction enzyme digestion (RED) and for the sequencing alignments
DOI: 10.6084/m9.figshare.24920172.v1
title: Sequencing data of the insert of p2NIL-1878US/DS produced during the generation of the ∆<i>rv</i><i>1878</i> mutant

description: This is the second construct generated during the cloning process leading to the final construct used to delete rv1878 (glnA3) in M.tbHere, the US and DS regions have been cloned into the p2NIL vector, and they are sequenced to check for integrity. Since the insert is large, many sequencing reactions were performed, using different primers, named primer -1 to primer 10. Therefore alignments were performed with all data, to ensure coverage of the entire region.The last file, is the in silico designed construct, used as template for screening by restriction enzyme digestion (RED) and for the sequencing alignments
DOI: 10.6084/m9.figshare.24920160
title: Sequencing data of the insert of p2NIL-1877US/DS produced during the generation of the ∆<i>rv</i><i>1877</i> mutant

description: This is the second construct generated during the cloning process leading to the final construct used to delete rv1877 in M.tbHere, the US and DS regions have been cloned into the p2NIL vector, and they are sequenced to check for integrity. Since the insert is large, many sequencing reactions were performed, using different primers, named primer -1 to primer 9. Therefore alignments were performed with all data, to ensure coverage of the entire region.The last file, is the in silico designed construct, used as template for screening by restriction enzyme digestion (RED) and for the sequencing alignments
DOI: 10.6084/m9.figshare.24920160.v1
title: Sequencing data of the insert of p2NIL-1877US/DS produced during the generation of the ∆<i>rv</i><i>1877</i> mutant

description: This is the second construct generated during the cloning process leading to the final construct used to delete rv1877 in M.tbHere, the US and DS regions have been cloned into the p2NIL vector, and they are sequenced to check for integrity. Since the insert is large, many sequencing reactions were performed, using different primers, named primer -1 to primer 9. Therefore alignments were performed with all data, to ensure coverage of the entire region.The last file, is the in silico designed construct, used as template for screening by restriction enzyme digestion (RED) and for the sequencing alignments
DOI: 10.6084/m9.figshare.16557281.v1
title: Additional file 3 of Human gut-derived B. longum subsp. longum strains protect against aging in a d-galactose-induced aging mouse model

description: Additional file 2. Supplementary tables.
DOI: 10.6084/m9.figshare.24920157
title: Sequencing data of <i>rv0191</i> insert in the pJET-0191 construct produced during the generation of the complementation of the ∆<i>rv</i>0191 M.tb mutant

description: The rv0191 gene that was cloned into the subcloning vector pJET for the purpose of generating the complementation construct.Many primers were used to sequence the insert, and the last two files are the in silico designed constructs used as template during screening and alignments. The insert could face either direction, so either template could be used depending on the direction of the insert.
DOI: 10.6084/m9.figshare.24920157.v1
title: Sequencing data of <i>rv0191</i> insert in the pJET-0191 construct produced during the generation of the complementation of the ∆<i>rv</i>0191 M.tb mutant

description: The rv0191 gene that was cloned into the subcloning vector pJET for the purpose of generating the complementation construct.Many primers were used to sequence the insert, and the last two files are the in silico designed constructs used as template during screening and alignments. The insert could face either direction, so either template could be used depending on the direction of the insert.
DOI: 10.17190/amf/1871140
title: AmeriFlux FLUXNET-1F US-Ne1 Mead - irrigated continuous maize site

description: This is the AmeriFlux Management Project (AMP) created FLUXNET-1F version of the carbon flux data for the site US-Ne1 Mead - irrigated continuous maize site. This is the FLUXNET version of the carbon flux data for the site US-Ne1 Mead - irrigated continuous maize site produced by applying the standard ONEFlux (1F) software. Site Description - The study site is one of three fields (all located within 1.6 km of each other) at the University of Nebraska Agricultural Research and Development Center near Mead, Nebraska. This site is irrigated with a center pivot system. Prior to the initiation of the study, the irrigated site had a 10-yr history of maize-soybean rotation under no-till. A tillage operation (disking) was done just prior to the 2001 planting to homogenize the top 0.1 m of soil, incorporate P and K fertilizers, as well as previously accumulated surface residues. Since the tillage operation, the site has been under no-till management until the harvest of 2005. Following harvest, a conservation-plow tillage operation was initiated where a small amount of N fertilizer is sprayed on the residue immediately prior to the plow operation. Approximately 1/3 of the crop residue is left on the surface. The post-harvest conservation-plow operation continues as the current practice.
DOI: 10.6084/m9.figshare.7120316
title: Additional file 1: of Transcriptional profiling of liver during the critical embryo-to-hatchling transition period in the chicken (Gallus gallus)

description: Experimental design of microarray hybridizations. A Microsoft Excel file containing a single work sheet â Array Hybridization Designâ which describes the hybridization scheme used for the 24 Affymetrix Chicken Genome Arrays. (XLSX 12 kb)