cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.25422487.v1
title: Supplementary Material for: Ophthalmic symptoms of long-chain 3-hydroxyacyl-CoA dehydrogenase deficiency: A report of three cases

description: Introduction
LCHAD deficiency, typically inherited as a recessive trait, is a genetic condition predominantly observed in Central and Eastern Europe, with birth prevalence in Poland amounting to 1/118,336. In most European countries, e.g., in Poland since 2014, this disorder is included in newborn screening. 

Case presentation
This paper presents the ophthalmic symptoms of long-chain 3-hydroxyacyl-CoA dehydrogenase (LCHAD) deficiency in three pediatric patients. Visual acuity testing, fundus photography, and optical coherence tomography (OCT) were performed and data was collected over several years (2017–2022). In case 1, a female born in 2010, exhibited abnormalities in the central part of the posterior pole, mainly in the macula and included choriocapillaris atrophy, and severe disruption of the outer retinal layer. Case 2, a female born in 2012, presented with progressive short-sightedness and choroid atrophy documented with angio-OCT. Case 3, a male born in 2013, experienced recurrent hospitalizations due to metabolic decompensations, and presented with mild myopia, thinning of the choroid layer and slight pigment dispersion with macular sparing. 

Conclusion
The main ophthalmic symptoms of LCHAD deficiency were choroidal atrophy, disorganization of the outer retinal layer, and myopia. Choroidal atrophy and pigment dispersion were consistently the earliest signs of LCHAD-associated chorioretinopathy. Although the progression of chorioretinopathy in each case resulted from metabolic decompensation, one documented case revealed that not every metabolic crisis results in ophthalmological changes. Nonetheless, strict adherence to a low-fat, high-carbohydrate diet remains crucial to prevent gradual deterioration and vision loss.
DOI: 10.6084/m9.figshare.25406664
title: R Code used in Analyses and Plotting from Consistent seasonal flexibility of the gut and its regions across wild populations of a winter-quiescent fish

description: Full R script file including all necessary code to replicate the included analyses and plotting.
DOI: 10.6084/m9.figshare.25406664.v1
title: R Code used in Analyses and Plotting from Consistent seasonal flexibility of the gut and its regions across wild populations of a winter-quiescent fish

description: Full R script file including all necessary code to replicate the included analyses and plotting.
DOI: 10.6084/m9.figshare.25406667
title: Data used in Analyses and Plotting from Consistent seasonal flexibility of the gut and its regions across wild populations of a winter-quiescent fish

description: Full dataset including all necessary data to replicate the included analyses and plots.
DOI: 10.6084/m9.figshare.25406667.v1
title: Data used in Analyses and Plotting from Consistent seasonal flexibility of the gut and its regions across wild populations of a winter-quiescent fish

description: Full dataset including all necessary data to replicate the included analyses and plots.
DOI: 10.3886/e192375
title: Data and Code for: America, Jump-started: World War II R&D and the Takeoff of the U.S. Innovation System

description: This replication package provides datasets and replication code to reproduce the figures and tables in the following article:<br><br>Gross, Daniel P. and Bhaven N. Sampat. “America, Jump-started: World War II R&D and the Takeoff of the U.S. Innovation System.” Forthcoming at American Economic Review.
description: Key datasets cover the universe of USPTO patents issued between 1920 and 1979, and the universe of patents which resulted from OSRD-funded research in World War II.
description: U.S. patents issued between 1920 and 1979<br>U.K. and French patents issued between 1920 and 1979<br>County x SIC industrial employment in 1980<br>County x SIC D&B company listings in 1980<br><br>.
description: This replication package includes data obtained from archival records of the Office of Scientific Research and Development (OSRD) at the U.S. National Archives and Records Administration (Record Group 227).
DOI: 10.3886/e192375v1-147044
title: Data and Code for: America, Jump-started: World War II R&D and the Takeoff of the U.S. Innovation System

description: This replication package provides datasets and replication
code to reproduce the figures and tables in the following article:<br><br>Gross, Daniel P. and Bhaven N. Sampat. “America,
Jump-started: World War II R&D and the Takeoff of the U.S. Innovation
System.” Forthcoming at American Economic
Review.
description: Key datasets cover the universe of USPTO patents issued between 1920 and 1979, and the universe of patents which resulted from OSRD-funded research in World War II.
description: U.S. patents issued between 1920 and 1979<br>U.K. and French patents issued between 1920 and 1979<br>County x SIC industrial employment in 1980<br>County x SIC D&B company listings in 1980<br><br>.
description: This replication package includes data obtained from archival records of the Office of Scientific Research and
Development (OSRD) at the U.S. National Archives and Records Administration
(Record Group 227).
DOI: 10.6084/m9.figshare.25422514
title: Supplementary Material for: Pseudophakic Pupillary Block Due to Capsular Bag Intraocular lens Implant Located in the Sulcus: A Case Report

description: Introduction: Pupillary block, a concerning complication of cataract surgery, is heightened when a single-piece acrylic (SPA) intraocular lens (IOL) is implanted in the ciliary sulcus. We report an unusual occurrence of relative pupillary block and chronic angle-closure glaucoma (ACG) identified in the late postoperative period due to unintentional SPA IOL implantation in the sulcus.

Case Presentation: An 82-year-old woman presented with a history of chronic ACG five years after bilateral cataract extraction. Postoperatively, she experienced anterior chamber shallowing, elevated intraocular pressure (IOP), and two acute angle-closure attacks in the left eye, successfully managed with laser peripheral iridotomies (LPI). Despite Nd:YAG capsulotomy, elevated IOP persisted. Maximal medical therapy (MMT) effectively controlled IOP; however, a shallow anterior chamber remained, prompting referral to our glaucoma service.

Slit-lamp examination revealed a shallow peripheral anterior chamber, patent LPIs, and an Alcon SA60WF SPA IOL situated posteriorly with the optic against the pupil margin OS. Gonioscopy indicated a closed angle with peripheral anterior synechiae (PAS). Ultrasound biomicroscopy (UBM) confirmed haptics in the sulcus, with the lens optic and haptics anterior to the bag. These findings suggest relative pupillary block as the cause of her chronic ACG. The SPA IOL's bulky haptics in the sulcus likely induced iris bowing, leading to prolonged appositional angle-closure and chronic PAS formation.

Conclusion: IOLs designed for the capsular bag should not be placed in the sulcus. Therefore, IOLs of varying dimensions should be taken to the operating room in the event of complicated cataract extraction. Finally, UBM proves valuable in identifying causes of pupillary block.
DOI: 10.6084/m9.figshare.25422514.v1
title: Supplementary Material for: Pseudophakic Pupillary Block Due to Capsular Bag Intraocular lens Implant Located in the Sulcus: A Case Report

description: Introduction: Pupillary block, a concerning complication of cataract surgery, is heightened when a single-piece acrylic (SPA) intraocular lens (IOL) is implanted in the ciliary sulcus. We report an unusual occurrence of relative pupillary block and chronic angle-closure glaucoma (ACG) identified in the late postoperative period due to unintentional SPA IOL implantation in the sulcus.

Case Presentation: An 82-year-old woman presented with a history of chronic ACG five years after bilateral cataract extraction. Postoperatively, she experienced anterior chamber shallowing, elevated intraocular pressure (IOP), and two acute angle-closure attacks in the left eye, successfully managed with laser peripheral iridotomies (LPI). Despite Nd:YAG capsulotomy, elevated IOP persisted. Maximal medical therapy (MMT) effectively controlled IOP; however, a shallow anterior chamber remained, prompting referral to our glaucoma service.

Slit-lamp examination revealed a shallow peripheral anterior chamber, patent LPIs, and an Alcon SA60WF SPA IOL situated posteriorly with the optic against the pupil margin OS. Gonioscopy indicated a closed angle with peripheral anterior synechiae (PAS). Ultrasound biomicroscopy (UBM) confirmed haptics in the sulcus, with the lens optic and haptics anterior to the bag. These findings suggest relative pupillary block as the cause of her chronic ACG. The SPA IOL's bulky haptics in the sulcus likely induced iris bowing, leading to prolonged appositional angle-closure and chronic PAS formation.

Conclusion: IOLs designed for the capsular bag should not be placed in the sulcus. Therefore, IOLs of varying dimensions should be taken to the operating room in the event of complicated cataract extraction. Finally, UBM proves valuable in identifying causes of pupillary block.
DOI: 10.5281/zenodo.10823884
title: Mechanistic principles of hydrogen evolution in the membrane-bound hydrogenase

description: Optimized coordinates of DFT models of the [NiFe] active-site from the membrane-bound hydrogenase

Table of contents1. Ni-SIa state2. Ni-L and Ni-C state3. Ni-R state4. Ni-SIa state (with His75+)5. Ni-L and Ni-C state (with His75+)6. Ni-R state (with His75+)7. [NiFe] active-site from DvMF in the Ni-R state (Geometries optimized using various DFT functional)
DOI: 10.57967/hf/1897
title: test
DOI: 10.6084/m9.figshare.25422502
title: Genome sequencing of baobabs

description: Genome assembly and annotation files of eight baobab species
DOI: 10.6084/m9.figshare.25422502.v1
title: Genome annotations of baobabs

description: Genome annotation files of eight baobab species
DOI: 10.6084/m9.figshare.25422580
title: Supplementary Material for: Two cases of portal annular pancreas in patients undergoing pancreaticoduodenectomy

description: Introduction: Portal annular pancreas (PAP) is a congenital anomaly resulting from aberrant fusion of the ventral and dorsal pancreatic buds around the portal vein (PV). PAP was classified into three types by Joseph et al., based on the location of the main pancreatic duct around the PV. The presence of PAP is important for the surgical procedure because it is associated with the postoperative pancreatic fistula. There are no standardized surgical procedures of resection and reconstruction for PAP. Case presentation: We report two cases of subtotal stomach-preserving pancreatoduodenectomy in patients with PAP. One case of PAP was discovered coincidentally intraoperatively, and the other case was diagnosed before surgery. The first case was an 84-year-old male patient who underwent surgery for distal bile duct cancer. PAP was noticed intraoperatively when the uncinate process of the pancreas was detached from behind the PV. The second case was an 84-year-old female patient who also underwent surgery for distal bile duct cancer. We recognized PAP from preoperative computed tomography images. In both cases, the ductal anatomy was consistent with type IIIA PAP, and the dorsal pancreas was resected using a stapling device. During the postoperative period, there was no clinically relevant postoperative pancreatic fistula. Conclusion: PAP is rarely encountered intraoperatively; however, it is important to recognize it before surgery and take it into consideration when deciding upon the procedures for resection and reconstruction.
DOI: 10.6084/m9.figshare.25422580.v1
title: Supplementary Material for: Two cases of portal annular pancreas in patients undergoing pancreaticoduodenectomy

description: Introduction: Portal annular pancreas (PAP) is a congenital anomaly resulting from aberrant fusion of the ventral and dorsal pancreatic buds around the portal vein (PV). PAP was classified into three types by Joseph et al., based on the location of the main pancreatic duct around the PV. The presence of PAP is important for the surgical procedure because it is associated with the postoperative pancreatic fistula. There are no standardized surgical procedures of resection and reconstruction for PAP. Case presentation: We report two cases of subtotal stomach-preserving pancreatoduodenectomy in patients with PAP. One case of PAP was discovered coincidentally intraoperatively, and the other case was diagnosed before surgery. The first case was an 84-year-old male patient who underwent surgery for distal bile duct cancer. PAP was noticed intraoperatively when the uncinate process of the pancreas was detached from behind the PV. The second case was an 84-year-old female patient who also underwent surgery for distal bile duct cancer. We recognized PAP from preoperative computed tomography images. In both cases, the ductal anatomy was consistent with type IIIA PAP, and the dorsal pancreas was resected using a stapling device. During the postoperative period, there was no clinically relevant postoperative pancreatic fistula. Conclusion: PAP is rarely encountered intraoperatively; however, it is important to recognize it before surgery and take it into consideration when deciding upon the procedures for resection and reconstruction.
DOI: 10.6084/m9.figshare.25422589
title: GeoGPT-Results

description: None
DOI: 10.6084/m9.figshare.25422589.v1
title: GeoGPT-Results

description: None
DOI: 10.5281/zenodo.10823906
title: PERDAW (Plan, and Elevation Representations of Doors And Windows)

description: The Perdaw dataset comprises 28,800 images depicting doors and windows, initially created as digital 3D objects and projected onto plan (top view) and elevation (front/back view). Twenty 3D objects were designed, including 10 doors and 10 windows.
DOI: 10.5281/zenodo.10823907
title: PERDAW (Plan, and Elevation Representations of Doors And Windows)

description: The Perdaw dataset comprises 28,800 images depicting doors and windows, initially created as digital 3D objects and projected onto plan (top view) and elevation (front/back view). Twenty 3D objects were designed, including 10 doors and 10 windows.
DOI: 10.6084/m9.figshare.25422598
title: GeoGPT-KernelDensity-Results

description: None
DOI: 10.6084/m9.figshare.25406200
title: Elsafty_RBCs_Slide_16

description: Each one of (Elsafty_RBCs_Slide_1-25) contains the field images/patches of a specific slide/patient. The names of the patches start with the respective slide/patient number, followed by the unique patch/field number. There is a total of 47,363 patches with 1076x535 pixels size from the 25 slides/patients, the counts of patches per slide/patient are as follows: 1690, 1709, 2697, 2400, 1905, 1803, 2964, 3049, 2464, 2080, 1894, 1852, 2590, 2263, 3328, 983, 1066, 935, 1131, 1237, 1874, 1393, 1277, 1199, and 1580.
DOI: 10.6084/m9.figshare.23271569.v1
title: The Emerging Human Influence on the Seasonal Cycle of Sea Surface Temperature

description: The Emerging Human Influence on the Seasonal Cycle of Sea Surface Temperature.
DOI: 10.6084/m9.figshare.23271569
title: The Emerging Human Influence on the Seasonal Cycle of Sea Surface Temperature

description: The Emerging Human Influence on the Seasonal Cycle of Sea Surface Temperature.
DOI: 10.6084/m9.figshare.22237489.v1
title: Genome assemblies of 11 bamboo species highlight diversification induced by dynamic subgenome dominance

description: Contain six sheets of genes used for phylogenetic and RNA analyses.
DOI: 10.6084/m9.figshare.22237489
title: Genome assemblies of 11 bamboo species highlight diversification induced by dynamic subgenome dominance

description: Contain six sheets of genes used for phylogenetic and RNA analyses.
DOI: 10.6084/m9.figshare.25187768.v1
title: Triboelectric micro-flexure-sensitive fiber electronics

description: The document includes data on the electrical, mechanical, and fatigue properties of a triboelectric micro-flexure-sensitive fiber. It also covers sensor signals for monitoring physiological activities, such as pulse, respiration, and muscle force detection. Additionally, the document discusses the fiber's application in biomechanical feedback systems.
DOI: 10.6084/m9.figshare.25187768
title: Triboelectric micro-flexure-sensitive fiber electronics

description: The document includes data on the electrical, mechanical, and fatigue properties of a triboelectric micro-flexure-sensitive fiber. It also covers sensor signals for monitoring physiological activities, such as pulse, respiration, and muscle force detection. Additionally, the document discusses the fiber's application in biomechanical feedback systems.
DOI: 10.6084/m9.figshare.25326064
title: Associations between Handedness and Brain Functional Connectivity Patterns in Children

description: Global functional connectivity density (gFCD) refers to the number of connections that a specific grayordinate has with all other grayordinates in the brain network. It provides insight into the importance or centrality of a particular brain region within the network. Nodes with a high gFCD are considered hubs and may play crucial roles in integrating information across different brain regions. The matlab scripts were developed at NIAAA to map positive (gFCDp), negative (gFCDn), ipsilateral (igFCD) and contralateral (cgFCD) connectivity from fMRI datasets in CIFTI format such as those of the ABCD brain imaging data structure (BIDS) Community Collection (ABCC) (https://collection3165.readthedocs.io/en/stable/). The Code is provided "as is," without any warranty of any kind, express or implied, including but not limited to the warranties of merchantability, fitness for a particular purpose, and non-infringement. Developer/Owner makes no representations or warranties regarding the accuracy, reliability, or completeness of the Code or its suitability for any particular purpose. In no event shall Developer/Owner be liable for any direct, indirect, incidental, special, consequential, or punitive damages arising out of or in connection with the use or performance of the Code, even if Developer/Owner has been advised of the possibility of such damages.
DOI: 10.6084/m9.figshare.25326064.v1
title: Associations between Handedness and Brain Functional Connectivity Patterns in Children

description: Global functional connectivity density (gFCD) refers to the number of connections that a specific grayordinate has with all other grayordinates in the brain network. It provides insight into the importance or centrality of a particular brain region within the network. Nodes with a high gFCD are considered hubs and may play crucial roles in integrating information across different brain regions. The matlab scripts were developed at NIAAA to map positive (gFCDp), negative (gFCDn), ipsilateral (igFCD) and contralateral (cgFCD) connectivity from fMRI datasets in CIFTI format such as those of the ABCD brain imaging data structure (BIDS) Community Collection (ABCC) (https://collection3165.readthedocs.io/en/stable/). The Code is provided "as is," without any warranty of any kind, express or implied, including but not limited to the warranties of merchantability, fitness for a particular purpose, and non-infringement. Developer/Owner makes no representations or warranties regarding the accuracy, reliability, or completeness of the Code or its suitability for any particular purpose. In no event shall Developer/Owner be liable for any direct, indirect, incidental, special, consequential, or punitive damages arising out of or in connection with the use or performance of the Code, even if Developer/Owner has been advised of the possibility of such damages.
DOI: 10.6084/m9.figshare.25422646
title: Supplementary Material for: Place of concordance-discordance model in evaluating NGS performance

description: Introduction: Ideally, evaluating NGS performance requires a gold standard; in its absence, concordance between replicates is often used as substitute standard. However, the appropriateness of the concordance-discordance criterion has been rarely evaluated. This study analyzes the relationship between the probability of discordance and the probability of error under different conditions. 
Methods: This study used a conditional probability approach under conditional dependence then conditional independence between two sequencing results and compares the probabilities of discordance and error in different theoretical conditions of sensitivity, specificity, and correlation between replicates, then on real results of sequencing genome NA12878. The study examines also covariate effects on discordance and error using generalized additive models with smooth functions. 
Results: With 99% sensitivity and 99.9% specificity under conditional independence, the probability of error for a positive concordant pair of calls is 0.1%. With additional hypotheses of 0.1% prevalence and 0.9 correlation between replicates, the probability of error for a positive concordant pair is 47.4%. With real data, the estimated sensitivity, specificity, and correlation between tests for variants are around 98.98%, 99.996%, and 93%, respectively, and the error rate for positive concordant calls approximates 2.5%. In covariate effect analyses, the effects’ functional form are close between discordance and error models, though the parts of deviance explained by the covariates differ between discordance and error models. 
Conclusion: With conditional independence of two sequencing results, the concordance-discordance criterion seems acceptable as substitute standard. However, with high correlation, the criterion becomes questionable because a high percentage of false concordant results appears among concordant results.
DOI: 10.6084/m9.figshare.25422646.v1
title: Supplementary Material for: Place of concordance-discordance model in evaluating NGS performance

description: Introduction: Ideally, evaluating NGS performance requires a gold standard; in its absence, concordance between replicates is often used as substitute standard. However, the appropriateness of the concordance-discordance criterion has been rarely evaluated. This study analyzes the relationship between the probability of discordance and the probability of error under different conditions. 
Methods: This study used a conditional probability approach under conditional dependence then conditional independence between two sequencing results and compares the probabilities of discordance and error in different theoretical conditions of sensitivity, specificity, and correlation between replicates, then on real results of sequencing genome NA12878. The study examines also covariate effects on discordance and error using generalized additive models with smooth functions. 
Results: With 99% sensitivity and 99.9% specificity under conditional independence, the probability of error for a positive concordant pair of calls is 0.1%. With additional hypotheses of 0.1% prevalence and 0.9 correlation between replicates, the probability of error for a positive concordant pair is 47.4%. With real data, the estimated sensitivity, specificity, and correlation between tests for variants are around 98.98%, 99.996%, and 93%, respectively, and the error rate for positive concordant calls approximates 2.5%. In covariate effect analyses, the effects’ functional form are close between discordance and error models, though the parts of deviance explained by the covariates differ between discordance and error models. 
Conclusion: With conditional independence of two sequencing results, the concordance-discordance criterion seems acceptable as substitute standard. However, with high correlation, the criterion becomes questionable because a high percentage of false concordant results appears among concordant results.