cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/6pvjy3bwz9.1
title: MFA Financial Dataset

description: MFA Financial (“MFA”) Series C fixed-to-floating rate cumulative redeemable preferred stock is an attractive short duration fixed income instrument that I expect to generate approximately a 25% IRR and 40% total return over the next year and a half.

The opportunity exists because 1.) the interest rate and mortgage spread environment over the last two years has presented a challenging backdrop for levered long fixed income investing strategies, 2.) one mortgage REIT peer took a surprising position with respect to the LIBOR transition, and 3.) preferred instruments broadly have been out of favor.

 

I believe the go forward environment for mortgage REITs is conducive to generating positive economic returns, PMT’s position with respect to LIBOR transition is the exception rather than the rule, and there are early signs of increased investor demand for preferred instruments.

 

MFA Series C preferred will begin paying quarterly dividends at an annual rate of 5.345% over 3-month term SOFR as of March 31, 2025. Mortgage REIT fixed-to-floating rate preferreds that have already reset to floating rate such as AGNC Series C (+5.111%), Annaly Series F (+4.993%) and Annaly Series G (+4.172%) trade at or near par (98% to 101% of par).

 

Assuming MFA Series C preferred trades at 95% of par once the first floating rate dividend is paid in June 2025, this preferred will generate an approximate 25% IRR and 40% total return. Assuming MFA Series C preferred trades at par once the first floating rate dividend is paid, this preferred would generate a 29% IRR and 48% total return.

AGNC on 10/31/2023: “Our outlook for Agency MBS is very favorable. Spreads have decoupled from treasuries and corporates due to supply and demand technical factors that we expect will ease over time…spreads and other fixed income sectors are close to post-GFC long-term averages, which spreads on Agency MBS are in the 95-plus percentile area.”

 

MFA on 11/7/2023: “Mortgage spreads are indeed very wide today, but they were at similar levels in 1986, and ’87, in 1999 and 2000 and in 2008 before the Fed began its first round of QE.”

 

 

The PMT LIBOR transition wrinkle

PennyMac Mortgage Investment Trust (“PMT”) is a mortgage REIT with two series of fixed-to-floating rate preferred stock. On August 25, 2023, PMT issued a press release stating their position that the Federal Reserve’s LIBOR rule would result in PMT’s fixed-to-floating rate preferred not transitioning to a floating reference rate as a result of USD LIBOR being phased out.

 

PMT’s press release can be found here.

 

I believe PMT has taken an aggressive and unique position and am not aware of any other company that has or has indicated an intent to take a similar position. I believe that MFA’s Series C preferred will transition to floating, as scheduled, with the floating benchmark referring to Term SOFR rather than LIBOR for the following reasons:
DOI: 10.17632/nfz7nncmcb.1
title: Cutaneous manifestations of misuse of androgenic anabolic steroids: A retrospective cohort study

description: Online Supplement.
DOI: 10.17632/7dr4fyx6zm.2
title: MTOR modulation induces selective perturbations in histone methylation which influence the anti-proliferative effects of mTOR inhibitors

description: Emerging data suggest a significant cross-talk between metabolic and epigenetic programs. However, the relationship between the mechanistic target of rapamycin (mTOR), which is a pivotal metabolic regulator, and epigenetic modifications remains poorly understood. Our results showed that mTORC1 activation caused by the abrogation of its negative regulator tuberous sclerosis complex 2 (TSC2) coincides with increased levels of the histone modification H3K27me3 but not H3K4me3 or H3K9me3. This selective H3K27me3 induction was mediated via 4E-BP-dependent increase in EZH2 protein levels. Surprisingly, mTOR inhibition also selectively induced H3K27me3. This was independent of TSC2, and was paralleled by reduced EZH2 and increased EZH1 protein levels. Notably, the ability of mTOR inhibitors to induce H3K27me3 levels was positively correlated with their anti-proliferative effects. Collectively, our findings demonstrate that both activation and inhibition of mTOR selectively increase H3K27me3 by distinct mechanisms, whereby the induction of H3K27me3 may potentiate the anti-proliferative effects of mTOR inhibitors.
DOI: 10.17632/7dr4fyx6zm.1
title: MTOR modulation induces selective perturbations in histone methylation which influence the anti-proliferative effects of mTOR inhibitors

description: Emerging data suggest a significant cross-talk between metabolic and epigenetic programs. However, the relationship between the mechanistic target of rapamycin (mTOR) which is a pivotal regulator of cellular metabolism, and epigenetic modifications remains poorly understood. We thus explored the impact of modulating mTOR signaling on histone methylation, a well-known epigenetic modification. Our results show that constitutive mTORC1 activation caused by abrogation of TSC2 increases H3K27me3 but not H3K4me3 or H3K9me3, via 4E-BPs-mediated induction of EZH2 protein levels. Surprisingly, mTOR inhibition also induced H3K27me3 independently of TSC2. This coincided with reduced EZH2 and increased EZH1 protein levels. Notably, the ability of mTOR inhibitors to induce H3K27me3 levels was positively correlated with their anti-proliferative effects. Collectively, our findings demonstrate that both activation and inhibition of mTOR selectively increase H3K27me3 by distinct mechanisms, whereby the ability of mTOR inhibitors to induce H3K27me3 influences their anti-proliferative effects.
DOI: 10.17632/7dr4fyx6zm.3
title: MTOR modulation induces selective perturbations in histone methylation which influence the anti-proliferative effects of mTOR inhibitors

description: Emerging data suggest a significant cross-talk between metabolic and epigenetic programs. However, the relationship between the mechanistic target of rapamycin (mTOR), which is a pivotal metabolic regulator, and epigenetic modifications remains poorly understood. Our results showed that mTORC1 activation caused by the abrogation of its negative regulator tuberous sclerosis complex 2 (TSC2) coincides with increased levels of the histone modification H3K27me3 but not H3K4me3 or H3K9me3. This selective H3K27me3 induction was mediated via 4E-BP-dependent increase in EZH2 protein levels. Surprisingly, mTOR inhibition also selectively induced H3K27me3. This was independent of TSC2, and was paralleled by reduced EZH2 and increased EZH1 protein levels. Notably, the ability of mTOR inhibitors to induce H3K27me3 levels was positively correlated with their anti-proliferative effects. Collectively, our findings demonstrate that both activation and inhibition of mTOR selectively increase H3K27me3 by distinct mechanisms, whereby the induction of H3K27me3 may potentiate the anti-proliferative effects of mTOR inhibitors.
DOI: 10.17632/chkhyxp43p.1
title: Effects of aerobic, resistance and combined training on endothelial function and arterial stiffness in older adults: a systematic review and meta-analysis

description: We examined the effects of aerobic, resistance and combined training on flow-mediated dilation and pulse wave velocity in older adults. We conducted a systematic review of randomized clinical trials evaluating the effects of aerobic, resistance and/or combined training on flow-mediated dilation and/or pulse wave velocity selected from the electronic databases PubMed, Cochrane, LILACS, EMBASE, Web of Science and the gray literature. We assessed the studies using Cochrane risk of bias (RoB2) tool and the GRADE tool. Our analysis of 23 RCTs showed that aerobic training was effective to improve flow-mediated dilation and pulse wave velocity by compared to the control group. The subgroup analyses showed no flow-mediated dilation differences following aerobic training in healthy adults when compared to those with any health condition. Combined training was effective in improving flow-mediated dilation and pulse wave velocity. But these same parameters did not show any improvement in response to resistance training. Aerobic and combined training may be effective to improve flow-mediated dilation and pulse wave velocity in older adults. Few studies evaluated resistance training alone and therefore the results for this modality should be interpreted with caution.
DOI: 10.17632/h3fnnjm432.1
title: IgG4 and CCL18 in gastric carcinoma

description: Immunohistochemical expression and significance of IgG4, and CCL18 in primary tumor and corresponding lymph node metastasis
DOI: 10.17632/p3hjzd9mjb.1
title: Analyzing the temperature performance gap in heavyweight construction in hot Mediterranean summers

description: 3 files excel sheet EDSL TAS simulation; Recorded Temperature Data for weather and in 3 Purpose built test cells
DOI: 10.17632/ts4gv6tkr5.1
title: Seismic Performance of Bridge Piers

description: This Mendeley dataset delves into the seismic performance of bridge piers, offering valuable insights into the structural behavior under seismic loading conditions. The dataset encompasses a comprehensive study on the impact of seismic forces on bridge piers, focusing on various parameters such as shape memory alloy (SMA) reinforcement, plastic hinge length, aspect ratio, axial load ratio, concrete compressive strength, and steel yield strength. The dataset includes numerical simulations, validated models, and statistical analyses, providing a thorough understanding of the seismic resilience of bridge piers and contributing to advancements in earthquake-resistant infrastructure design.
DOI: 10.17632/xgzvhgd49s.1
title: Data for Numerical Investigation of Liquid Sloshing in 2D Flexible Tanks Subjected to Complex External Loading

description: Result data of liquid sloshing inside a half filled rectangular tank described in the paper (Kha et al. (2024) Numerical Investigation of Liquid Sloshing in 2D Flexible Tanks Subjected to Complex External Loading. Under review in JFS journal), induced by an unidirectional seismic excitation. The ground horizontal component of acceleration of the 1994 Northridge earthquake recorded at Santa Monica City Hall station. 
The dataset contains:
- the earthquake signal
- the mesh of fluid and structure domains
- the velocity and pressure fields of the fluid in flexible tank case 
- the volume fraction (alpha) for the two-phase flow in flexible tank case 
- the deformation fields of the structure in flexible tank case
DOI: 10.6084/m9.figshare.24980760
title: epiTCR-KDA - Datasets: DA_TSVFiles

description: epiTCR-KDA: Knowledge Distillation model on Dihedral Angles for TCR-peptide prediction
DOI: 10.6084/m9.figshare.24980760.v1
title: epiTCR-KDA - Datasets: DA_TSVFiles

description: epiTCR-KDA: Knowledge Distillation model on Dihedral Angles for TCR-peptide prediction
DOI: 10.5281/zenodo.10486754
title: Reconstructing glacial lake outburst floods in the Poiqu River basin, central Himalaya
DOI: 10.17632/hd9p858nn9.1
title: nccrFOAM suite: Nonlinear coupled constitutive relation solver in the OpenFOAM framework for rarefied and microscale gas flows with vibrational non-equilibrium

description: The nccrFOAM suite is a collection of nonlinear coupled constitutive relation (NCCR) solvers for rarefied and microscale gas flows with vibrational non-equilibrium, in conjunction with the conservation laws implemented in the foam-extend framework which is an open-source solver with a General Public License (GPL 3). nccrFOAM solvers are developed as an extension to the dbnsTurbFoam solver by implementing additional algebraic constitutive relations for the non-conserved quantities of the stress tensor and heat flux vector. In contrast to Navier-Stokes-Fourier (NSF) solvers that employ first-order constitutive relations to calculate non-conserved quantities and consequently suffer from obvious shortcomings when simulating gas flows in high non-equilibrium, the second-order NCCR framework presents a novel alternative to simulate rarefied and microscale gas flows in a better and a more intuitive manner. In addition to the solver for monoatomic gases, the solvers are for the first time implemented for diatomic and polyatomic gases with translational-rotational and vibrational degrees of freedom based on second-order constitutive models in a three-dimensional framework. Towards this, a new foam-extend library has been written based on the two-temperature formulation to handle the translational-rotational and vibrational modes. The new foam-extend solver was validated for several representative problems, and an exhaustive list of tutorials is documented. The solver will certainly benefit the rarefied and microscale gas dynamics and hypersonics communities at large interested in flows involving high degrees of rarefaction, speed, and temperature variations.
DOI: 10.17632/fkm8mjfj5k.1
title: Raw data for "Development of adult Dirofilaria immitis worms in the Rag2Il2ry mouse model"

description: Raw data for figure 1 for the manuscript "Development of adult Dirofilaria immitis worms in the Rag2Il2ry mouse model".
DOI: 10.5281/zenodo.10486586
title: Original data for the manuscript "Distinct neurochemical influences on fMRI response polarity in the striatum

description: Human fMRI data with TMS at the right pMFG is shared as preprocessed subject-level 3d+t scansAccompanying manuscript preprint can be found here: https://www.biorxiv.org/content/10.1101/2023.02.20.529283v1
DOI: 10.5281/zenodo.10486587
title: Original data for the manuscript "Distinct neurochemical influences on fMRI response polarity in the striatum

description: Human fMRI data with TMS at the right pMFG is shared as preprocessed subject-level 3d+t scansAccompanying manuscript preprint can be found here: https://www.biorxiv.org/content/10.1101/2023.02.20.529283v1
DOI: 10.17632/k5x2bsf27m.1
title: Mammography and breast tomosynthesis simulator for virtual clinical trials

description: Computer modeling and simulations are increasingly being used to predict the clinical performance of x-ray imaging devices in silico, and to generate synthetic patient images for training and testing of machine learning algorithms. We present a detailed description of the computational models implemented in the open source GPU-accelerated Monte Carlo x-ray imaging simulation code MC-GPU. This code, originally developed to simulate radiography and computed tomography, has been extended to replicate a commercial full-field digital mammography and digital breast tomosynthesis (DBT) device. The code was recently used to image 3000 virtual breast models with the aim of reproducing in silico a clinical trial used in support of the regulatory approval of DBT as a replacement of mammography for breast cancer screening. The updated code implements a more realistic x-ray source model (extended 3D focal spot, tomosynthesis acquisition trajectory, tube motion blurring) and an improved detector model (direct-conversion Selenium detector with depth-of-interaction effects, fluorescence tracking, electronic noise and anti-scatter grid). The software uses a high resolution voxelized geometry model to represent the breast anatomy. To reduce the GPU memory requirements, the code stores the voxels in memory within a binary tree structure. The binary tree is an efficient compression mechanism because many voxels with the same composition are combined in common tree branches while preserving random access to the phantom composition at any location. A delta scattering ray-tracing algorithm which does not require computing ray-voxel interfaces is used to minimize memory access. Multiple software verification and validation steps intended to establish the credibility of the implemented computational models are reported. The software verification was done using a digital quality control phantom and an ideal pinhole camera. The validation was performed reproducing standard bench testing experiments used in clinical practice and comparing with experimental measurements. A sensitivity study intended to assess the robustness of the simulated results to variations in some of the input parameters was performed using an in silico clinical trial pipeline with simulated lesions and mathematical observers. We show that MC-GPU is able to simulate x-ray projections that incorporate many of the sources of variability found in clinical images, and that the simulated results are robust to some uncertainty in the input parameters. Limitations of the implemented computational models are discussed.
DOI: 10.17632/k5x2bsf27m.2
title: MCGPU-PET: An open-source real-time Monte Carlo PET simulator

description: Monte Carlo (MC) simulations are commonly used to model the emission, transmission, and/or detection of radiation in Positron Emission Tomography (PET). In this work, we introduce a new open-source MC software for PET simulation, MCGPU-PET, which has been designed to fully exploit the computing capabilities of modern GPUs to simulate the acquisition of more than 100 million coincidences per second from voxelized sources and material distributions. The new simulator is an extension of the PENELOPE-based MCGPU code previously used in cone-beam CT and mammography applications. We validated the accuracy of the accelerated code by comparing it to GATE and PeneloPET simulations achieving an agreement within 10 percent approximately. As an example application of the code for fast estimation of PET coincidences, a scan of the NEMA IQ phantom was simulated. A fully 3D sinogram with 6382 million true coincidences and 731 million scatter coincidences was generated in 54 s in one GPU. MCGPU-PET provides an estimation of true and scatter coincidences and spurious background (for positron-gamma emitters such as 124I) at a rate 3 orders of magnitude faster than CPU-based MC simulators. This significant speed-up enables the use of the code for accurate scatter and prompt-gamma background estimations within an iterative image reconstruction process.
DOI: 10.17632/xm327j3brn.1
title: On the visibility of GP-zones in 6xxx Al alloys in atomic1 LAADF-STEM

description: Raw data
DOI: 10.17632/kjg78vw2hs.1
title: Carrot interest bioactive compounds network dataset

description: This dataset includes supplementary information for the manuscript: "Methodological framework for supporting bioprospecting re-search: a case study on carrot (Daucus carota L.) crop by-products", to be used in VOSviewer.
DOI: 10.17632/k8p3xktjz2.1
title: Decoding real-world outcomes: exploring clinical features associated with efficacy in patients treated with dupilumab. Mendeley Supplements.

description: 1. Supplemental Materials including:
 Supplemental Table 1: Patients’ demographics and baseline disease characteristics.
 Supplemental Table 2: Patient-reported outcomes with treatment of dupilumab in 16 weeks among different age groups.
 Supplemental Table 3: Associations between patients’ characteristics and EASI-75 at week 16 among different age groups.
 Supplemental Table 4: Adverse events while on dupilumab therapy among different groups.
 Supplementary Figure 1: Graphical abstract.
 Supplementary Figure 2: Predictability of week 16 EASI-75 responses by PP-NRS change from baseline at week 2 with dupilumab.
2.Supplemental Methods
DOI: 10.17632/7dvvhvgypp.1
title: SFU-HW-Objects-v2

description: A refinement of the SFU-HW-Objects-v1 dataset, with some adjustments to the bounding boxes and annotations.
DOI: 10.17632/7dvvhvgypp.2
title: SFU-HW-Objects-v2

description: A refinement of the SFU-HW-Objects-v1 dataset, with some adjustments to the bounding boxes and annotations.
DOI: 10.17632/37fkrxgx8j.1
title: Pan-cancer identified ARPC1B as a promising target for tumor immunotherapy and prognostic biomarker, particularly in READ

description: ARPC1B encodes the protein known as actin-related protein 2/3 complex subunit 1B (ARPC1B), which controls actin polymerization in the human body. Although ARPC1B has been linked to several human malignancies, its function in these cancers remains unclear. TCGA, GTEx, CCLE, Xena, CellMiner, TISIDB, and molecular signature databases were used to analyze ARPC1B expression in cancers. Visualization of data was primarily achieved using R language, version 4.0. Nineteen tumors exhibited high levels of ARPC1B expression, which were associated with different tumor stages and significantly affected the prognosis of various cancers. The level of ARPC1B expression substantially connected the narrative of ARPC1B expression with several TMB cancers and showed significant changes in MSI. Additionally, tolerance to numerous anticancer medications has been linked to high ARPC1B gene expression. Using Gene Set Variation Analysis / Gene Set Enrichment Analysis and concentrating on Rectum adenocarcinoma (READ), we thoroughly examined the molecular processes of the ARPC1B gene in pan-cancer. Using WGCNA, we examined the co-expression network of READ and ARPC1B. Meanwhile, ten specimens were selected for immunohistochemical examination, which showed high expression of ARPC1B in READ. Human pan-cancer samples show higher ARPC1B expression than healthy tissues. In many malignancies, particularly READ, ARPC1B overexpression is associated with immune cell infiltration and a poor prognosis. These results imply that the molecular biomarker ARPC1B may be used to assess the prognosis and immune infiltration of patients with READ.
DOI: 10.17632/vy3p2k7y4c.1
title: covid-19

description: Data related to Covid-19 of the whole world
DOI: 10.17632/vxyy62m2c7.1
title: Profiling of ERBB receptors and downstream pathways reveals selectivity and hidden properties of ERBB4 antagonists

description: ERBB receptor tyrosine kinases are involved in development and diseases like cancer, cardiovascular, neurodevelopmental, and mental disorders. Although existing drugs target ERBB receptors, the next generation of drugs requires enhanced selectivity and understanding of physiological pathway responses to improve efficiency and reduce side effects. To address this, we developed a multi-level barcoded reporter profiling assay, termed ‘ERBBprofiler’, in living cells to monitor the activity of all ERBB targets and key physiological pathways simultaneously. This assay helps differentiate on-target therapeutic effects from off-target and off-pathway side effects of ERBB antagonists. To challenge the assay, eight established ERBB antagonists were profiled. Known effects were confirmed, and previously uncharacterized properties were discovered, such as pyrotinib's preference for ERBB4 over EGFR. Additionally, two lead compounds selectively targeting ERBB4 were profiled, showing promise for clinical trials. Taken together, this multiparametric profiling approach can guide early-stage drug development and lead to improved future therapeutic interventions.