gebhart/patrepeval huggingface dataset:
Toward Molecular Imaging of Intestinal Pathology (2020)

Inflammatory bowel disease (IBD) is defined by a chronic relapsing and remitting inflammation of the gastrointestinal tract, with intestinal fibrosis being a major complication. The etiology of IBD remains unknown, but it is thought to arise from a dysregulated and excessive immune response to gut luminal microbes triggered by genetic and environmental factors. To date, IBD has no cure, and treatments are currently directed at relieving symptoms and treating inflammation. The current diagnostic of IBD relies on endoscopy, which is invasive and does not provide information on the presence of extraluminal complications and molecular aspect of the disease. Cross-sectional imaging modalities such as computed tomography enterography (CTE), magnetic resonance enterography (MRE), positron emission tomography (PET), single photon emission computed tomography (SPECT), and hybrid modalities have demonstrated high accuracy for the diagnosis of IBD and can provide both functional and morphological information when combined with the use of molecular imaging probes. This review presents the state-of-the-art imaging techniques and molecular imaging approaches in the field of IBD and points out future directions that could help improve our understanding of IBD pathological processes, along with the development of efficient treatments.
Characterization of Backbone Structures in Poly(vinylidene fluoride-co-hexafluoropropylene) Copolymers by Multidimensional 19F NMR Spectroscopy (2013)

Advanced modern multidimensional solution NMR experiments have been used to deduce the sequence distribution in poly(VDF-co-HFP) copolymers. Assignment of 19F resonances from different monomer- and regio-sequences in poly(VDF-co-HFP) copolymer were identified. In addition to corroborating some assignments reported in earlier literature, this work provides assignments of some new resonances from the spectra of poly(VDF-co-HFP) copolymer, which resulted from better dispersion of the resonances. These assignments are used for the monomer sequence analyses of two polymers using first-order Markovian statistics, and the relative reactivities of the monomers during polymerization are discussed. The results from this study provide insight into the polymerization chemistry for this fluoropolymer.
ChemInform Abstract: Electron Transfer at the WO3‐Electrolyte Interface Under Controlled Mass Transfer Conditions. (1986)

Abstract The reduction of Fe" and Ce" at a polycrystalline n‐WO3 rotating disk electrode has been investigated in the dark.
Cerebral astrocytomas: histopathologic correlation of MR and CT contrast enhancement with stereotactic biopsy. (1988)

Gadolinium-labeled diethylenetriaminepentaacetic acid was used as a contrast agent for stereotactic magnetic resonance (MR) imaging in six selected patients with brain tumors who underwent stereotactic biopsy. Regions of contrast enhancement demonstrated by computed tomography (CT) and MR imaging in four of the six patients correlated with areas of malignant neovascularity and endothelial proliferation within solid tumor. Radiation necrosis produced contrast enhancement indistinguishable from that of recurrent neoplasm. Isolated tumor cells within intact white matter were identified in biopsy specimens obtained outside of regions that were depicted as abnormal by contrast material-enhanced CT, as well as by precontrast and postcontrast T1- and T2-weighted MR images.
Probiotic-fermented purple sweet potato yogurt activates compensatory IGF-IR/PI3K/Akt survival pathways and attenuates cardiac apoptosis in the hearts of spontaneously hypertensive rats (2013)

Apoptosis is recognized as a predictor of adverse outcomes in subjects with cardiac diseases. The aim of this study was to explore the effects of probiotic-fermented purple sweet potato yogurt (PSPY) with high γ-aminobutyric acid (GABA) content on cardiac apoptosis in spontaneously hypertensive rat (SHR) hearts. The rats were orally adminsitered with 2 different concentrations of PSPY (10 and 100%) or captopril, 15.6 mg/kg, body weight (BW)/day. The control group was administered distilled water. DAPI and TUNEL staining were used to detect the numbers of apoptotic cells. A decrease in the number of TUNEL-positive cardiac myocytes was observed in the SHR-PSPY (10 and 100%) groups. In addition, the levels of key components of the Fas receptor- and mitochondrial-dependent apoptotic pathways were determined by western blot analysis. The results revealed that the levels of the key components of the Fas receptor- and mitochondrial-dependent apoptotic pathway were significantly decreased in the SHR-captopril, and 10 and 100% PSPY groups. Additionally, the levels of phosphorylated insulin-like growth factor‑I receptor (p-IGF‑IR) were increased in SHR hearts from the SHR-control group; however, no recovery in the levels of downstream signaling components was observed. In addition, the levels of components of the compensatory IGF-IR-dependent survival pathway (p-PI3K and p-Akt) were all highly enhanced in the left ventricles in the hearts form the SHR-10 and 100% PSPY groups. Therefore, the oral administration of PSPY may attenuate cardiomyocyte apoptosis in SHR hearts by activating IGF‑IR-dependent survival signaling pathways.
Foundations of lasing and emission from surface-patterned structures (2021)

Periodic wavelength-scale surface patterns have long been used in the context of lasing and spontaneous emission to enhance emission by light trapping (distributed Bragg resonances). Buried within these well-known devices, however, are theoretical mysteries that are still being unravelled. A periodic surface grating actually creates a continuum of resonant modes, so what determines which single mode (if any) lases? Technically, what determines the stability of a periodic lasing mode: is it only the finite size of a surface that allows single-mode lasing, or can it arise for arbitrarily large structures? More generally, if one continuously deforms an unpatterned surface to maximize light emission, how is the symmetry broken and what optimal structures arise? We address these questions by combining new computational techniques for modeling and large-scale optimization of incoherent emission and lasing with new analytical results arising from perturbation and stability theory.
ChemInform Abstract: An Efficient and Practical EPC Synthesis of β‐Amino Acids from L‐Asparagine. (1992)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
Advanced Processing for High-Performance Optical and Electronic Systems (1999)

Abstract : Our research on Photonic Imaging Networks is a part of the Graphics Server Consortium, which represents UCSD's continued participation in the DoD's Focused Research Initiative (FRI) program, supported by the BMDO via AFOSR.
Transesterification Chemistry, Low Temperature Reactions of O-Nithophenyl Carbonates (1991)

Abstract The application of o-nitrophenyl carbonate to preparation of aromatic carbonates and polycarbonates is described. The differences in reactivity of ortho- and para-nitrophenyl carbonates are elaborated. Reaction of o-nitrophenyl carbonate, bisphenol, and catalytic nucleophilic base affords clean formation of polycarbonates via trans-esterification at or below ambient temperatures.
Alginate-microencapsulation of human stem cell–derived β cells with CXCL12 prolongs their survival and function in immunocompetent mice without systemic immunosuppression (2019)

Pancreatic β-cell replacement by islet transplantation for the treatment of type 1 diabetes (T1D) is currently limited by donor tissue scarcity and the requirement for lifelong immunosuppression. The advent of in vitro differentiation protocols for generating functional β-like cells from human pluripotent stem cells, also referred to as SC-β cells, could eliminate these obstacles. To avoid the need for immunosuppression, alginate-microencapsulation is widely investigated as a safe path to β-cell replacement. Nonetheless, inflammatory foreign body responses leading to pericapsular fibrotic overgrowth often causes microencapsulated islet-cell death and graft failure. Here we used a novel approach to evade the pericapsular fibrotic response to alginate-microencapsulated SC-β cells; an immunomodulatory chemokine, CXCL12, was incorporated into clinical grade sodium alginate to microencapsulate SC-β cells. CXCL12 enhanced glucose-stimulated insulin secretion activity of SC-β cells and induced expression of genes associated with β-cell function in vitro. SC-β cells co-encapsulated with CXCL12 showed enhanced insulin secretion in diabetic mice and accelerated the normalization of hyperglycemia. Additionally, SC-β cells co-encapsulated with CXCL12 evaded the pericapsular fibrotic response, resulting in long-term functional competence and glycemic correction (>150 days) without systemic immunosuppression in immunocompetent C57BL/6 mice. These findings lay the groundwork for further preclinical translation of this approach into large animal models of T1D.
<title>Field experiments of a fast frequency-hopped FSK testbed with diversity combining and packet communication</title> (2001)

This paper reports on field measurements of a highly versatile frequency-hopped (FH) frequency shift keyed (FSK) prototype operating in the 900 MHz ISM band and providing 160 kbps indoor wireless data communication. The testbed is used to study the impact of frequency hopping rate, channel spacing, diversity combining, and packet communication on frequency-hopped wireless transmission. Results are presented for 5,850 field trials of the testbed, programmed with different hopping configurations in three typical indoor environments. The measurement results underscore the dramatic potential of a system with fast hopping rates that employs equal gain hop combining with proper interleaving and frequency separation between hopping channels. However, fast hopping rate employed without diversity combining degrades symbol error rate (SER) almost linearly proportional to the hopping rate.
Calcium store‐mediated signaling in sustentacular cells of the mouse olfactory epithelium (2008)

Sustentacular cells have structural features that allude to functions of secretion, absorption, phagocytosis, maintenance of extracellular ionic gradients, metabolism of noxious chemicals, and regulation of cell turnover. We present data detailing their dynamic activity. We show, using a mouse olfactory epithelium slice model, that sustentacular cells are capable of generating two types of calcium signals: intercellular calcium waves where elevations in intracellular calcium propagate between neighboring cells, and intracellular calcium oscillations consisting of repetitive elevations in intracellular calcium confined to single cells. Sustentacular cells exhibited rapid, robust increases in intracellular calcium in response to G-protein coupled muscarinic and purinergic receptor stimulation. In a subpopulation of sustentacular cells, oscillatory calcium transients were evoked. We pharmacologically characterized the properties of purinergic-evoked increases in intracellular calcium. Calcium transients were elicited by release from intracellular stores and were not dependent on extracellular calcium. BAPTA-AM, a cytosolic calcium chelator, and cyclopiazonic acid, an endoplasmic reticulum Ca(2+)-ATPase inhibitor irreversibly blocked the purinergic-induced calcium transient. Phospholipase C antagonist U73122 inhibited the purinergic-evoked calcium transient. 2-Aminoethoxydiphenyl borate, an inositol-1,4,5-trisphosphate (IP(3)) receptor antagonist, and the ryanodine receptor (RyR) antagonists tetracaine and ryanodine, inhibited the UTP-induced calcium transients. Collectively, these data suggest that activation of the phospholipase C pathway, IP(3)-mediated calcium release, and subsequent calcium-induced-calcium release is involved in ATP-elicited increases in intracellular calcium. Our findings indicate that sustentacular cells are not static support cells, and, like glia in the central nervous system, have complex calcium signaling.
Semiquantitative assessment of the microdistribution of fluorescence‐labeled monoclonal antibody in small peritoneal disseminations of ovarian cancer (2009)

Uniform antibody microdistribution throughout tumor nodules is crucial for antibody-targeted therapy, because non-uniform microdistribution leads to suboptimal therapeutic effect, a commonly observed limitation of therapeutic antibodies. Herein, we evaluated the microdistribution of different doses of intraperitoneally injected fluorescence-labeled full-antibody trastuzumab (15, 50, and 150 microg) and its Fab fragment (trastuzumab-Fab: 15 and 50 microg) in a mouse model of ovarian cancer with peritoneal disseminated tumor. A semiquantitative approach (central/peripheral accumulation ratio; C/P ratio) was developed using in situ fluorescence microscopy. Furthermore, we compared the microdistribution of intact trastuzumab with a mixed injection of trastuzumab and trastuzumab-Fab or serial injections of trastuzumab using in situ multicolor fluorescence microscopy. Fluorescence images after the administration of 15 or 50 microg trastuzumab and 15 microg trastuzumab-Fab demonstrated antibody accumulation in the tumor periphery, whereas administration of 150 microg trastuzumab and 50 microg trastuzumab-Fab showed relatively uniform accumulation throughout the tumor nodule. Using serial injections (19-h interval) of trastuzumab-rhodamine green and carboxytetramethylrhodamine (TAMRA), it was observed that the latterly injected trastuzumab-TAMRA was distributed more centrally than trastuzumab-rhodamine green injected first, whereas no difference was observed in the control mixed-injection group. Moreover, the mixed injection of trastuzumab and trastuzumab-Fab showed that trastuzumab-Fab distributed more centrally than the same amount of co-injected trastuzumab. Our results suggest that the strategies of increasing dose and using Fab fragments can be used to achieve a uniform antibody distribution within peritoneal disseminated nodules after intraperitoneal injection. Furthermore, serial-injection and mixed-injection strategies can modify antibody microdistribution within tumors and have the potential for preferential delivery of anticancer drugs to either the tumor periphery or its center.
Self‐Assembled Monolayers of Thiolates on Metals as a Form of Nanotechnology (2005)

Abstract For Abstract see ChemInform Abstract in Full Text.
A Pixel Pitch-Matched Ultrasound Receiver for 3-D Photoacoustic Imaging With Integrated Delta-Sigma Beamformer in 28-nm UTBB FD-SOI (2017)

This paper presents a pixel pitch-matched readout chip for 3-D photoacoustic (PA) imaging, featuring a dedicated signal conditioning and delta-sigma modulation integrated within a pixel area of 250 µm by 250 µm. The proof-of-concept receiver was implemented in an STMicroelectronics's 28-nm Fully Depleted Silicon On Insulator technology, and interfaces to a 4 × 4 subarray of capacitive micromachined ultrasound transducers (CMUTs). The front-end signal conditioning in each pixel employs a coarse/fine gain tuning architecture to fulfill the 90-dB dynamic range requirement of the application. The employed delta-sigma beamforming architecture obviates the need for area-consuming Nyquist ADCs and thereby enables an efficient in-pixel A/D conversion. The per-pixel switched-capacitor ΔΣ modulator leverages slewing-dominated and area-optimized inverter-based amplifiers. It occupies only 1/4th of the pixel, and its area compares favorably with state-of-the-art designs that offer the same SNR and bandwidth. The modulator's measured peak signal-to-noise-and-distortion ratio is 59.9 dB for a 10-MHz input bandwidth, and it consumes 6.65 mW from a 1-V supply. The overall subarray beamforming approach improves the area per channel by 7.4 times and the single-channel SNR by 8 dB compared to prior art with similar delay resolution and power dissipation. The functionality of the designed chip was evaluated within a PA imaging experiment, employing a flip-chip bonded 2-D CMUT array.
Transactivation of human immunodeficiency virus type 1 long terminal repeat-directed gene expression by the human foamy virus bel1 protein requires a specific DNA sequence (1992)

Human foamy virus (HFV) encodes the transcriptional transactivator bel1. The bel1 protein transactivates HFV long terminal repeat (LTR)-directed gene expression by recognizing a region in U3. It also transactivates human immunodeficiency virus type 1 (HIV-1) LTR-directed gene expression in transient transfection assays. To identify the specific region in HIV-1 LTR responsible for bel1 action, we examined the effect of bel1 on chloramphenicol acetyltransferase (CAT) gene expression in transfected cells with a series of mutant HIV-1 LTR/CAT plasmids. The region between -158 and -118 from the transcription initiation site, immediately upstream of the core enhancer element, was identified as responsible for the transactivation by bel1. In addition, bel1 transactivated a heterologous promoter when this region was positioned upstream of it in the sense and antisense orientations. Optimal transactivation of the HIV-1 LTR by bel1 did not require an intact TAR sequence, suggesting that the binding of tat to the TAR sequence is not a prerequisite for bel1 function in HIV-1 LTR-directed gene expression. In the region of the HIV-1 LTR that is necessary for the bel1-mediated transactivation, we have found a sequence which is conserved between HIV-1 and HFV. Our results suggest that the bel1 action on HIV-1 seems to be mediated by a specific DNA sequence which is shared by both the HIV-1 LTR and HFV LTR.
Enzyme-based biohybrid foams designed for continuous flow heterogeneous catalysis and biodiesel production (2011)

The one-pot synthesis and use of monolithic biohybrid foams in a continuous flow device reported in here presents the advantages of covalent stabilization of the enzymes, together with a low steric hindrance between proteins and substrates, optimized mass transport due to the interconnected macroporous network and simplicity with regard to the column in situ synthetic path. Those features, when applied to transesterification (biodiesel production) viaenzyme catalysis, provide among the top enzymatic activities displayed by biohybrid catalysts bearing unprecedented endurance of continuous catalysis for a two month period.
High Q factor over 3000 due to out-of-plane precession in nano-contact spin-torque oscillator based on magnetic tunnel junctions (2014)

We investigated microwave oscillation in a sombrero-shaped nano-contact spin-torque oscillator under an external magnetic field with an out-of-plane component. By increasing the out-of-plane field, we observed an abrupt change from in-plane precession to out-of-plane precession around the effective demagnetization field of the free layer. The out-of-plane precession under optimized conditions yielded not only a fundamental oscillation peak with a very large Q factor (3200) but also higher-order harmonic peaks with frequencies up to at least 45 GHz. A high Q factor and high-frequency oscillations are of great importance for device applications such as telecommunications, radar sensors, and high-speed magnetic field sensors.
Accuracy of automatic abnormal potential annotation for substrate identification in scar‐related ventricular tachycardia (2021)

The Lumipoint algorithm was as/more accurate than manual annotation in 79% of patients. FP annotation detected LAVAs most accurately regardless of mapping rhythm and scar location. The accuracy of LP and DP annotations varied depending on mapping rhythm or scar location.
Simplified system of marking the cornea for a toric intraocular lens (2009)

A 2-instrument set comprising a half-circle axis marker and a degree gauge that facilitates precise placement of ink marks on the cornea is described. Guiding the half-circle axis marker by the previously positioned degree gauge ensures placement of the marks on the astigmatic axis line that transects the center of the cornea and overlies the index marks on the toric intraocular lens.
Summary of Tutorials at The Web Conference 2021 (2021)

This report summarizes the 23 tutorials hosted at The Web Conference 2021: nine lecture-style tutorials and 14 hands-on tutorials.
Naa12 rescues embryonic lethality in Naa10-Deficient Mice in the amino-terminal acetylation pathway (2020)

There is an enormous amount of variation in proteins introduced by co- and post-translational modifications, including N-terminal acetylation (NTA), catalyzed by a set of N terminal acetyltransferases (NATs). The NatA complex (including X-linked Naa10 and Naa15) is the major acetyltransferase, with 40-50% of all mammalian proteins being potential substrates. However, the overall role of NTA on a whole-organism level is poorly understood, particularly in mammals. Male mice lacking Naa10 show no globally apparent in vivo NTA impairment and, surprisingly, do not exhibit embryonic lethality. Rather Naa10 nulls display increased neonatal lethality, and the majority of surviving undersized mutants exhibit a combination of hydrocephaly, cardiac defects, homeotic anterior transformation (including an extra thoracic rib), piebaldism and urogenital anomalies. The lack of complete embryonic lethality in Naa10-null mice is explained by the discovery of Naa12, a previously unannotated Naa10-like paralogue with NAT activity that genetically compensates for Naa10. Mice deficient for Naa12 have no apparent phenotype, except for decreased fertility, whereas mice doubly deficient for Naa10 and Naa12 display embryonic lethality, thus presenting the complete machinery for NatA mediated NTA in mouse development.