cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.8046727
title: [IO Islamic 80] ديوان حافظ

description: <strong>Dîwân-i-Ḥâfiż.</strong> <strong>This manuscript is now IO Islamic 1249 in the India Office collections.</strong> <strong>[metadata:</strong> <strong>Hermann Ethé</strong><strong><em>, </em></strong><strong><em>Catalogue of Persian Manuscripts in the Library of the India Office,</em></strong> <strong>2 vols. (Oxford: India Office, 1903): volume 1,</strong> <strong>number 80 here with notations and hyperlinks].</strong> 1249 The same. Contents: Ghazlas, in alphabetical order, on fol. 1<sup>b</sup>, beginning as usual. The same short mathnawî of ten baits, as in Nos. 1246 and 1247 above, beginning, on fol. 186<sup>a</sup>: هر كه آمد در جهان الخ. Muḳaṭṭa’ât, on fol. 186<sup>b</sup>, beginning: فساد چرخ الخ. Rubâ’îs, on fol. 194<sup>a</sup>, beginning: جز نقش تو ىر نظر نيايد مارا جز كوى تو رهگذر نيايد مارا See W. Pertsch, Berlin Cat., No. 849, p. 488. This copy was presented to Major Robert MacKenzie by William Shep. Greene, 1709. No. 80, ff. 198, 2 coll., each ll. 12; excellent Nasta’lîḳ; illuminated frontispiece; ornaments throughout; size, 8<sup>3/8</sup> in. by 5<sup>1/4</sup> in.
DOI: 10.5281/zenodo.8046726
title: [IO Islamic 80] ديوان حافظ

description: <strong>Dîwân-i-Ḥâfiż.</strong> <strong>This manuscript is now IO Islamic 1249 in the India Office collections.</strong> <strong>[metadata:</strong> <strong>Hermann Ethé</strong><strong><em>, </em></strong><strong><em>Catalogue of Persian Manuscripts in the Library of the India Office,</em></strong> <strong>2 vols. (Oxford: India Office, 1903): volume 1,</strong> <strong>number 80 here with notations and hyperlinks].</strong> 1249 The same. Contents: Ghazlas, in alphabetical order, on fol. 1<sup>b</sup>, beginning as usual. The same short mathnawî of ten baits, as in Nos. 1246 and 1247 above, beginning, on fol. 186<sup>a</sup>: هر كه آمد در جهان الخ. Muḳaṭṭa’ât, on fol. 186<sup>b</sup>, beginning: فساد چرخ الخ. Rubâ’îs, on fol. 194<sup>a</sup>, beginning: جز نقش تو ىر نظر نيايد مارا جز كوى تو رهگذر نيايد مارا See W. Pertsch, Berlin Cat., No. 849, p. 488. This copy was presented to Major Robert MacKenzie by William Shep. Greene, 1709. No. 80, ff. 198, 2 coll., each ll. 12; excellent Nasta’lîḳ; illuminated frontispiece; ornaments throughout; size, 8<sup>3/8</sup> in. by 5<sup>1/4</sup> in.
DOI: 10.5281/zenodo.8046737
title: [IO Islamic 2305] ديوان حافظ

description: <strong>Dîwân-i-Ḥâfiż.</strong> <strong>This manuscript is now IO Islamic 1250 in the India Office collections.</strong> <strong>[metadata:</strong> <strong>Hermann Ethé</strong><strong><em>, </em></strong><strong><em>Catalogue of Persian Manuscripts in the Library of the India Office,</em></strong> <strong>2 vols. (Oxford: India Office, 1903): volume 1,</strong> <strong>number 2305 here with notations and hyperlinks].</strong> 1250 The same. Contents: Ghazals, in alphabetical order, on fol. 1<sup>b</sup>, beginning as usual. A few mathnawî-baits and a series of ḳiṭ’as, the latter beginning, on fol. 233<sup>b</sup>: آصف عهد زمان الخ. Rubâ’îs, on fol. 239<sup>b</sup>, beginning: امشب زغمت ميان خون الخ (Brockhaus, No. 626). Dated by Hidâyat-allâh at Multân the 5th of Sha’bân, A.H. 1147 (A.D. 1734, Dec. 31). College of Fort William, 1825. No. 2305, ff. 245, 2 coll., each ll. 9; large Nasta’lîḳ, written on paper sprinkled with gold: illuminated frontispiece; the first two pages adorned with gold arabesques; size, 9<sup>1/8</sup> in. by 5<sup>1/2</sup> in.
DOI: 10.5281/zenodo.8046736
title: [IO Islamic 2305] ديوان حافظ

description: <strong>Dîwân-i-Ḥâfiż.</strong> <strong>This manuscript is now IO Islamic 1250 in the India Office collections.</strong> <strong>[metadata:</strong> <strong>Hermann Ethé</strong><strong><em>, </em></strong><strong><em>Catalogue of Persian Manuscripts in the Library of the India Office,</em></strong> <strong>2 vols. (Oxford: India Office, 1903): volume 1,</strong> <strong>number 2305 here with notations and hyperlinks].</strong> 1250 The same. Contents: Ghazals, in alphabetical order, on fol. 1<sup>b</sup>, beginning as usual. A few mathnawî-baits and a series of ḳiṭ’as, the latter beginning, on fol. 233<sup>b</sup>: آصف عهد زمان الخ. Rubâ’îs, on fol. 239<sup>b</sup>, beginning: امشب زغمت ميان خون الخ (Brockhaus, No. 626). Dated by Hidâyat-allâh at Multân the 5th of Sha’bân, A.H. 1147 (A.D. 1734, Dec. 31). College of Fort William, 1825. No. 2305, ff. 245, 2 coll., each ll. 9; large Nasta’lîḳ, written on paper sprinkled with gold: illuminated frontispiece; the first two pages adorned with gold arabesques; size, 9<sup>1/8</sup> in. by 5<sup>1/2</sup> in.
DOI: 10.15468/mf4jre
title: Red list of flora and fauna of Chernivtsi region of Ukraine

description: The checklist consists of species of animals and plants that are rare or endangered in the territory of the Chernivtsi region of Ukraine. The checklist was implemented by the Decision of the 13th session of the Chernivtsi Regional Council of the 5th convocation dated 06/07/2007 "On the limits of harvesting medicinal raw materials of wild plant species for 2007 and approval of lists of regionally rare species of plants and animals" #145-13/07.
DOI: 10.15468/rhrku6
title: Red list of flora and fauna of Zhytomyr region of Ukraine

description: The checklist consists of species of animals and plants that are rare or endangered in the territory of the Zhytomyr region of Ukraine. The checklist was implemented by the decision of the thirtieth session of the Zhytomyr Regional Council of the sixth convocation dated 19.03.15 #1460 "On approval of the list of regionally rare species of animals of the Zhytomyr region" and Decision of the twenty-sixth session of the Zhytomyr Regional Council of the fifth convocation dated 05.09.10 #1162 "On approval of the list of regionally rare species of vascular plants of Zhytomyr Region".
DOI: 10.15785/sbgrid/1071
title: X-Ray Diffraction data from Human GalNAc-T1 in complex with UDP, Mn2+, and a Muc5AC glycopeptide, source of 8V9Q structure

description: Native data set to 2.3 angstrom resolution.
DOI: 10.5281/zenodo.10685371
title: Functional annotation of the reference transcriptome for Karenia mikimotoi ARC164

description: De novo transcriptomes generated using both Trinity and velvet-oases were merged with CD-HIT-EST to reduce the transcript redundancy to 90% similarity and generate unique genes. Functional annotation was performed using DIAMOND blastp function (Buchfink et al. 2021).
DOI: 10.5281/zenodo.10685372
title: Functional annotation of the reference transcriptome for Karenia mikimotoi ARC164

description: De novo transcriptomes generated using both Trinity and velvet-oases were merged with CD-HIT-EST to reduce the transcript redundancy to 90% similarity and generate unique genes. Functional annotation was performed using DIAMOND blastp function (Buchfink et al. 2021).
DOI: 10.15785/sbgrid/1054
title: X-Ray Diffraction data from Copper-bound YcnI protein from B. subtilis, W137F mutant, source of 8UM6 structure

description: Native dataset, Cu-bound protein
DOI: 10.25345/c5zg6gj65
title: MassIVE MSV000094135 - Lee_feline_fecal_12min_gradient
title: Fecal samples from 14 different species of felines were extracted using 50:50 MeOH: H2O and chromatographed using a Phenomenex polar C18 column. MS/MS data was acquired on Orbitrap in positive ionization mode on 12 min LC gradient.
DOI: 10.25959/mx78-zb37
title: Supplementary document for 'Children's Questions on Climate Change Focus on Climate Action, Impacts, Existential Concerns, and Science'

description: This dataset is drawn from publicly available material on the Curious Climate Schools website www.curiousclimate.org.au/schools that is used in our research article 'Children's Questions on Climate Change Focus on Climate Action, Impacts, Existential Concerns, and Science' in One Earth.
DOI: 10.5281/zenodo.10672613
title: PlanckData
DOI: 10.5281/zenodo.10672620
title: PlanckData
DOI: 10.5281/zenodo.10677073
title: PlanckData
DOI: 10.5281/zenodo.10672604
title: PlanckData
DOI: 10.5281/zenodo.10677170
title: PlanckData
DOI: 10.5281/zenodo.10681483
title: PlanckData
DOI: 10.5281/zenodo.10685379
title: PlanckData
DOI: 10.6073/pasta/85633906e628c01f79eddd56d9925918
title: MCR LTER: Coral Reef: In Situ Light Data, ongoing since 2021

description: This time series describes light (PAR, 400-700 nm) recorded in the air, on the surface, and at depth (17.1 m depth) at the LTER2 fore reef site. Surface data originate from twin cosine collectors (Hobo/Onset brand, model S-LIA-M003) attached to USB micro weather stations (Hobo/Onset brand, model H21-USB). Sensors are attached to the roof of the waterfront building at the UCB Gump station (-17.490598, -149.826208) with the sensors ~ 6 m above sea level.
 In situ light is recorded with a single PME miniPAR logger fitted with a Li-COR LI-192 cosine correct PAR sensor attached to a PME miniWiper. The sensor is mounted underwater with the top of the sensor at 17.1 m depth. The objective is to measure K dPAR
, the diffuse attenuation coefficient for PAR wavelengths, over long periods. The technique relies on the assumption that ~96% of surface PAR is transmitted through the air-sea interface when sun altitudes are &gt; 46° and wind speeds are &lt; 5 m s-1 (Gregg and Carder 1990). Departures from this assumption degrade the estimation of subsurface PAR from surface PAR, which is required to calculate K dPAR
.
 
 
 This material is based upon work supported by the U.S. National Science Foundation under Grant No. OCE 22-24354 (and earlier awards) as well as a generous gift from the Gordon and Betty Moore Foundation. Research was completed under permits issued by the French Polynesian Government (Délégation à la Recherche) and the Haut-commissariat de la République en Polynésie Francaise (DTRT) (Protocole d'Accueil 2005-2024). This work represents a contribution of the Moorea Coral Reef (MCR) LTER Site.
DOI: 10.5281/zenodo.10685397
title: Functional annotation of the reference transcriptome for Karenia selliformis ARC356

description: De novo transcriptomes generated using both Trinity and velvet-oases were merged with CD-HIT-EST to reduce the transcript redundancy to 90% similarity and generate unique genes. Functional annotation was performed using DIAMOND blastp function (Buchfink et al. 2021).
DOI: 10.5281/zenodo.10685398
title: Functional annotation of the reference transcriptome for Karenia selliformis ARC356

description: De novo transcriptomes generated using both Trinity and velvet-oases were merged with CD-HIT-EST to reduce the transcript redundancy to 90% similarity and generate unique genes. Functional annotation was performed using DIAMOND blastp function (Buchfink et al. 2021).
DOI: 10.6084/m9.figshare.25254538
title: Data

description: AUD Review data set
DOI: 10.6084/m9.figshare.25254538.v1
title: Data

description: AUD Review data set
DOI: 10.5517/ccdc.csd.cc2h47ws
title: CCDC 2297995: Experimental Crystal Structure Determination

description: Related Article: Lei Fang, Gaozhang Gou, Man Wang, Tao Fan, Ying Yin, Liangchun Li|2024|ACS Applied Materials and Interfaces|16|5823|doi:10.1021/acsami.3c15958
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2h9x7z
title: CCDC 2303431: Experimental Crystal Structure Determination

description: Related Article: Subrata Ranjan Dhara, Rajat Saha, Nabajyoti Baildya, Kusumita Acharya, Arijit Bhattacharya, Kumaresh Ghosh|2024|ACS Applied Materials and Interfaces|16|7275|doi:10.1021/acsami.3c16248
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.6084/m9.figshare.25254556
title: Supplementary material: Klain V et al. 2024. Chapter 1.

description: Full models table
DOI: 10.6084/m9.figshare.25254556.v1
title: Supplementary material: Klain V et al. 2024. Chapter 1.

description: Full models table
DOI: 10.15151/esrf-es-1519600406
title: Crystallographic studies of natural, mutant and artificial metalloenzymes and metalloproteins

description: We want to use high-resolution crystallography to continue or do new fundamental research on: 1) the oxygen-sensitivity of metalloenzymes and metalloproteins; 2)
maturation proteins involved in the biosynthesis of metal sites in hydrogenases and nitrogenase; 3) SAM radical enzymes; 4) the biological assembly of iron-sulfur
clusters; 5) the role of quinolinate synthase in NAD biosynthesis; 6) transduction of signals like oxygen and NO by Fe-S cluster-dependent transcriptional regulators.
Our main goal is to understand the structure-function relationships of these proteins and to decipher their mechanisms. More distant goals include the design and
production of improved enzymes, facilitating their use for biotechnological applications.
DOI: 10.6084/m9.figshare.25254634
title: Supplementary material: Klain et al. 2024. Chapter 2

description: Full models table
DOI: 10.6084/m9.figshare.25254634.v1
title: Supplementary material: Klain et al. 2024. Chapter 2

description: Full models table
DOI: 10.6084/m9.figshare.25254655
title: Supplementary material: Klain et al. 2024. Chapter 3.

description: Full models table
DOI: 10.6084/m9.figshare.25254655.v1
title: Supplementary material: Klain et al. 2024. Chapter 3.

description: Full models table
DOI: 10.13026/fmj9-p237
title: CHIFIR: Cytology and Histopathology Invasive Fungal Infection Reports

description: Surveillance of invasive fungal infection (IFI) in clinical settings is a
laborious process requiring a detailed review of patient medical history. One
of the key sources of clinical information is cytology and histopathology
reports: pathologist-produced free-text reports outlining the macroscopic and
microscopic structure of a specimen. The data was generated to facilitate the
development of an automated tool for the detection of IFI. The Cytology and
Histopathology Invasive Fungal Infection Reports (CHIFIR) corpus contains 283
de-identified reports annotated by infectious diseases physicians for
terminology relevant to the IFI diagnosis. These include IFI-specific concepts
and certainty cues, as well as relations between them. We release the
annotation schema and the original reports along with the corresponding
annotation files. We anticipate the CHIFIR corpus to be useful in the
development and validation of named entity recognition and relation extraction
methods with a focus on clinical data. Such methods can be instrumental in
processing other types of clinical documentation (radiology reports, clinical
notes, nursing notes) with various downstream tasks in mind.
DOI: 10.13026/g3t3-2c54
title: CHIFIR: Cytology and Histopathology Invasive Fungal Infection Reports

description: Surveillance of invasive fungal infection (IFI) in clinical settings is a
laborious process requiring a detailed review of patient medical history. One
of the key sources of clinical information is cytology and histopathology
reports: pathologist-produced free-text reports outlining the macroscopic and
microscopic structure of a specimen. The data was generated to facilitate the
development of an automated tool for the detection of IFI. The Cytology and
Histopathology Invasive Fungal Infection Reports (CHIFIR) corpus contains 283
de-identified reports annotated by infectious diseases physicians for
terminology relevant to the IFI diagnosis. These include IFI-specific concepts
and certainty cues, as well as relations between them. We release the
annotation schema and the original reports along with the corresponding
annotation files. We anticipate the CHIFIR corpus to be useful in the
development and validation of named entity recognition and relation extraction
methods with a focus on clinical data. Such methods can be instrumental in
processing other types of clinical documentation (radiology reports, clinical
notes, nursing notes) with various downstream tasks in mind.
DOI: 10.13026/m1rk-ns13
title: CHIFIR: Cytology and Histopathology Invasive Fungal Infection Reports

description: Surveillance of invasive fungal infection (IFI) in clinical settings is a
laborious process requiring a detailed review of patient medical history. One
of the key sources of clinical information is cytology and histopathology
reports: pathologist-produced free-text reports outlining the macroscopic and
microscopic structure of a specimen. The data was generated to facilitate the
development of an automated tool for the detection of IFI. The Cytology and
Histopathology Invasive Fungal Infection Reports (CHIFIR) corpus contains 283
de-identified reports annotated by infectious diseases physicians for
terminology relevant to the IFI diagnosis. These include IFI-specific concepts
and certainty cues, as well as relations between them. We release the
annotation schema and the original reports along with the corresponding
annotation files. We anticipate the CHIFIR corpus to be useful in the
development and validation of named entity recognition and relation extraction
methods with a focus on clinical data. Such methods can be instrumental in
processing other types of clinical documentation (radiology reports, clinical
notes, nursing notes) with various downstream tasks in mind.
DOI: 10.13026/ssk0-1x59
title: CHIFIR: Cytology and Histopathology Invasive Fungal Infection Reports

description: Surveillance of invasive fungal infection (IFI) in clinical settings is a
laborious process requiring a detailed review of patient medical history. One
of the key sources of clinical information is cytology and histopathology
reports: pathologist-produced free-text reports outlining the macroscopic and
microscopic structure of a specimen. The data was generated to facilitate the
development of an automated tool for the detection of IFI. The Cytology and
Histopathology Invasive Fungal Infection Reports (CHIFIR) corpus contains 283
de-identified reports annotated by infectious diseases physicians for
terminology relevant to the IFI diagnosis. These include IFI-specific concepts
and certainty cues, as well as relations between them. We release the
annotation schema and the original reports along with the corresponding
annotation files. We anticipate the CHIFIR corpus to be useful in the
development and validation of named entity recognition and relation extraction
methods with a focus on clinical data. Such methods can be instrumental in
processing other types of clinical documentation (radiology reports, clinical
notes, nursing notes) with various downstream tasks in mind.
DOI: 10.5281/zenodo.10685504
title: Birth of new protein folds and functions in the virome - Foldseek Database

description: This is a Foldseek database of protein structures described in the manuscript "Birth of new protein folds and functions in the virome", by authors Jason Nomburg, Nate Price, and Jennifer A. Doudna.
DOI: 10.21227/za6j-a529
title: DivNEDS: Diverse Naturalistic Edge Driving Scene Dataset for Autonomous Vehicle Scene Understanding

description: The safe implementation and adoption of Autonomous Vehicle (AV) vision models on public roads requires not only an understanding of the natural environment comprising pedestrians and other vehicles but also the ability to reason about edge situations such as unpredictable maneuvers by other drivers, impending accidents, erratic movement of pedestrians, cyclists, and motorcyclists, animal crossings, and cyclists using hand signals. Despite advances in complex tasks such as object tracking, human behavior modeling, activity recognition, and trajectory planning, the fundamental challenge of interpretable scene understanding, especially in out-of-distribution environments, remains evident. This is highlighted by the 84% of AV disengagements attributed to scene understanding errors in real-world AV tests. To address this limitation, we introduce the Diverse Naturalistic Edge Driving Scene Dataset (DivNEDS), a novel dataset comprising 11,084 edge scenes and 203,000 descriptive captions sourced from 12 distinct locations worldwide, captured under varying weather conditions and at different times of the day. Our approach includes a novel embedded hierarchical dense captioning strategy aimed at enabling few-shot learning and mitigating overfitting by excluding irrelevant scene elements. Additionally, we propose a Generative Region- to-Text Transformer, with a baseline embedded hierarchical dense captioning performance of 60.3mAP, a new benchmark for AV scene understanding models trained on dense captioned data sets. This work represents a significant step toward improving AVs’ ability to comprehend diverse, real-world edge and complex driving scenarios, thereby enhancing their safety and adaptability in dynamic environments.
DOI: 10.6084/m9.figshare.25254562
title: December 2023 release of the databases for PaperBLAST, Curated BLAST for Genomes, and SitesBLAST

description: This includes the December 2023 release of three related tools: PaperBLAST, Curated BLAST for Genomes, and SitesBLAST. PaperBLAST links protein sequences to papers about them and to curated annotations. Curated BLAST for Genomes uses the characterized subset of PaperBLAST's database to find candidates with a function of interest within a genome. SitesBLAST links protein sequences to functional sites, such as catalytic residues or substrate-binding residues.Most of the files are gzipped:litsearch.db -- the sqlite3 database for PaperBLAST and SitesBLAST. Also see the schema.litsearch.faa -- sequences for all of the proteins mentioned in the Gene or CuratedGene tables, in fasta formatuniq.faa -- unique sequences from litsearch.faa, in fasta format. (Also see the SeqToDuplicate table.)stats -- some statistics on the PaperBLAST databasecurated.faa -- the curated subset of PaperBLAST's database, in fasta formathassites.faa -- sequences for all the proteins mentioned in the HasSites table, in fasta format.To run the tools from these downloaded databases, you need to gunzip the files and format the BLAST databases. For more information see here.References:PaperBLAST: Text Mining Papers for Information about Homologs (mSystems, 2017)Curated BLAST for Genomes (mSystems, 2020)Interactive Analysis of Functional Residues in Protein Families (mSystems, 2022)
DOI: 10.6084/m9.figshare.25254562.v1
title: December 2023 release of the databases for PaperBLAST, Curated BLAST for Genomes, and SitesBLAST

description: This includes the December 2023 release of three related tools: PaperBLAST, Curated BLAST for Genomes, and SitesBLAST. PaperBLAST links protein sequences to papers about them and to curated annotations. Curated BLAST for Genomes uses the characterized subset of PaperBLAST's database to find candidates with a function of interest within a genome. SitesBLAST links protein sequences to functional sites, such as catalytic residues or substrate-binding residues.Most of the files are gzipped:litsearch.db -- the sqlite3 database for PaperBLAST and SitesBLAST. Also see the schema.litsearch.faa -- sequences for all of the proteins mentioned in the Gene or CuratedGene tables, in fasta formatuniq.faa -- unique sequences from litsearch.faa, in fasta format. (Also see the SeqToDuplicate table.)stats -- some statistics on the PaperBLAST databasecurated.faa -- the curated subset of PaperBLAST's database, in fasta formathassites.faa -- sequences for all the proteins mentioned in the HasSites table, in fasta format.To run the tools from these downloaded databases, you need to gunzip the files and format the BLAST databases. For more information see here.References:PaperBLAST: Text Mining Papers for Information about Homologs (mSystems, 2017)Curated BLAST for Genomes (mSystems, 2020)Interactive Analysis of Functional Residues in Protein Families (mSystems, 2022)