cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.23501631
title: Network pharmacology-based screening of active constituents of <i>Avicennia marina</i> and their clinical biochemistry related mechanism against breast cancer

description: Breast cancer is the second major cause of cancer death in women globally. <i>Avicennia marina</i> is a medicinal plant that belongs to the family Acanthaceae and is known as grey or white mangrove. It has antioxidant, antiviral, anticancer, anti-inflammatory, and antibacterial activity in the treatment of various diseases including cancer. The goal of the study is to use a network pharmacology method to identify the potential phenomena of bioactive compounds of <i>A. marina</i> in the treatment of breast cancer and explore clinical biochemistry related aspects. A total of 74 active compounds of <i>A. marina</i> were retrieved from various databases as well as a literature review and collectively 429 targets of these compounds were identified by STITCH and Swiss Target Prediction databases. Breast cancer related 15606 potential targets were retrieved from the GeneCards database. A Venn diagram was drawn to find common key targets. To check the biological functions, the GO enrichment and KEGG pathways analysis of 171 key targets were performed through the DAVID database. To understand the interactions among key targets, Protein-protein interaction (PPI) studies were completed using the STRING database, and the Protein-Protein Interaction (PPI) network, as well as the compound-target-pathway network, was constructed using Cytoscape 3.9.0. Finally, molecular docking analysis of 5 hub genes named tumor protein 53 (TP53), catenin beta 1 (CTNNB1), interleukin 6 (IL6), tumor necrosis factor (TNF), and RAC-alpha serine/threonine protein kinases 1 (AKT1) with the active constituent of <i>A. marina</i> against breast cancer were performed. Additionally, a molecular docking study demonstrates that active drugs have a higher affinity for the target that may be used to decrease breast cancer. The molecular dynamic simulation analysis predicted the very stable behavior of docked complexes with no global structure deviations seen. The MMGBSA further supported strong intermolecular interactions with net energy values as; AKT1_Betulinic_acid (−20.97 kcal/mol), AKT1_Stigmasterol (−44.56 kcal/mol), TNF_Betulinic_acid (−28.68 kcal/mol) and TNF_Stigmastero (−29.47 kcal/mol). Communicated by Ramaswamy H. Sarma
DOI: 10.6084/m9.figshare.23501631.v1
title: Network pharmacology-based screening of active constituents of <i>Avicennia marina</i> and their clinical biochemistry related mechanism against breast cancer

description: Breast cancer is the second major cause of cancer death in women globally. <i>Avicennia marina</i> is a medicinal plant that belongs to the family Acanthaceae and is known as grey or white mangrove. It has antioxidant, antiviral, anticancer, anti-inflammatory, and antibacterial activity in the treatment of various diseases including cancer. The goal of the study is to use a network pharmacology method to identify the potential phenomena of bioactive compounds of <i>A. marina</i> in the treatment of breast cancer and explore clinical biochemistry related aspects. A total of 74 active compounds of <i>A. marina</i> were retrieved from various databases as well as a literature review and collectively 429 targets of these compounds were identified by STITCH and Swiss Target Prediction databases. Breast cancer related 15606 potential targets were retrieved from the GeneCards database. A Venn diagram was drawn to find common key targets. To check the biological functions, the GO enrichment and KEGG pathways analysis of 171 key targets were performed through the DAVID database. To understand the interactions among key targets, Protein-protein interaction (PPI) studies were completed using the STRING database, and the Protein-Protein Interaction (PPI) network, as well as the compound-target-pathway network, was constructed using Cytoscape 3.9.0. Finally, molecular docking analysis of 5 hub genes named tumor protein 53 (TP53), catenin beta 1 (CTNNB1), interleukin 6 (IL6), tumor necrosis factor (TNF), and RAC-alpha serine/threonine protein kinases 1 (AKT1) with the active constituent of <i>A. marina</i> against breast cancer were performed. Additionally, a molecular docking study demonstrates that active drugs have a higher affinity for the target that may be used to decrease breast cancer. The molecular dynamic simulation analysis predicted the very stable behavior of docked complexes with no global structure deviations seen. The MMGBSA further supported strong intermolecular interactions with net energy values as; AKT1_Betulinic_acid (−20.97 kcal/mol), AKT1_Stigmasterol (−44.56 kcal/mol), TNF_Betulinic_acid (−28.68 kcal/mol) and TNF_Stigmastero (−29.47 kcal/mol). Communicated by Ramaswamy H. Sarma
DOI: 10.6084/m9.figshare.23530729
title: Laccase catalytic activity shielded by SiO<sub>2</sub> nanostructured materials: an <i>in vitro</i> and <i>in silico</i> approach

description: This study investigates the enhancement of enzymatic catalytic performance by immobilizing laccase on various nanostructured mesoporous silica materials (SBA-15, MCF, and MSU-F). The activity of immobilized laccase was evaluated under different hydrothermal, pH, and solvent conditions, with laccase@MSU-F showing a three-fold increase in stability. Laccase immobilized on these materials demonstrated stability in a pH range of 4.5 to 10.0, while free laccase was inactivated at pH higher than 7. Molecular dynamics simulations revealed that electrostatic interactions and protective confinement effects contribute to the improved stability of immobilized laccase. Overall, the findings suggest that nanomaterials can enhance the operational stability and recovery of enzymes. Communicated by Ramaswamy H. Sarma
DOI: 10.6084/m9.figshare.23530729.v1
title: Laccase catalytic activity shielded by SiO<sub>2</sub> nanostructured materials: an <i>in vitro</i> and <i>in silico</i> approach

description: This study investigates the enhancement of enzymatic catalytic performance by immobilizing laccase on various nanostructured mesoporous silica materials (SBA-15, MCF, and MSU-F). The activity of immobilized laccase was evaluated under different hydrothermal, pH, and solvent conditions, with laccase@MSU-F showing a three-fold increase in stability. Laccase immobilized on these materials demonstrated stability in a pH range of 4.5 to 10.0, while free laccase was inactivated at pH higher than 7. Molecular dynamics simulations revealed that electrostatic interactions and protective confinement effects contribute to the improved stability of immobilized laccase. Overall, the findings suggest that nanomaterials can enhance the operational stability and recovery of enzymes. Communicated by Ramaswamy H. Sarma
DOI: 10.6084/m9.figshare.23565818.v1
title: A comprehensive examination of ACE2 receptor and prediction of spike glycoprotein and ACE2 interaction based on <i>in silico</i> analysis of ACE2 receptor

description: The ACE2 receptor plays a vital role not only in the SARS-CoV-induced epidemic but also in various other diseases, including cardiovascular diseases and ARDS. While studies have explored the interactions between ACE2 and SARS-CoV proteins, comprehensive research utilizing bioinformatic tools on the ACE2 protein has been lacking. The one aim of present study was to extensively analyze the regions of the ACE2 protein. After utilizing all bioinformatics tools especially G104 and L108 regions on ACE2 were come forward. The results of our analysis revealed that possible mutations or deletions in the G104 and L108 regions play a critical role in both the biological functioning and the determination of the chemical-physical properties of ACE2. Additionally, these regions were found to be more susceptible to mutations or deletions compared to other regions of the ACE2 protein. Notably, the randomly selected peptide, LQQNGSSVLS (100–109), which includes G104 and L108, exhibited a crucial role in binding the RBD of the spike protein, as supported by docking scores. Furthermore, both MDs and iMODs results provided evidence that G104 and L108 influence the dynamics of ACE2-spike complexes. This study is expected to offer a new perspective on the ACE2-SARS-CoV interaction and other research areas where ACE2 plays a significant role, such as biotechnology (protein engineering, enzyme optimization), medicine (RAS, pulmonary and cardiac diseases), and basic research (structural motifs, stabilizing protein folds, or facilitating important inter molecular contacts, protein’s proper structure and function). Communicated by Ramaswamy H. Sarma
DOI: 10.25549/examiner-c44-33177
title: Murder trial preliminary (Inglewood), 1952

description: 4 images. Murder trial preliminary (Inglewood), 10 April 1952. Mrs. Laura Medart -- 35 years; Deputy Mary Halladay; Attorney Grant Cooper; Billy Medart -- 17 years; Betty Medart -- 17 years.
DOI: 10.6084/m9.figshare.23498042.v1
title: Human indoleamine-2,3-dioxygenase 2 cofactor lability and low substrate affinity explained by homology modeling, molecular dynamics and molecular docking

description: The human indoleamine-2,3-dioxygenase 2 (hIDO2) protein is growing of interest as it is increasingly implicated in multiple diseases (cancer, autoimmune diseases, COVID-19). However, it is only poorly reported in the literature. Its mode of action remains unknown because it does not seem to catalyze the reaction for which it is attributed: the degradation of the L-Tryptophan into N-formyl-kynurenine. This contrasts with its paralog, the human indoleamine-2,3-dioxygenase 1 (hIDO1), which has been extensively studied in the literature and for which several inhibitors are already in clinical trials. Yet, the recent failure of one of the most advanced hIDO1 inhibitors, the Epacadostat, could be caused by a still unknown interaction between hIDO1 and hIDO2. In order to better understand the mechanism of hIDO2, and in the absence of experimental structural data, a computational study mixing homology modeling, Molecular Dynamics, and molecular docking was conducted. The present article highlights an exacerbated lability of the cofactor as well as an inadequate positioning of the substrate in the active site of hIDO2, which might bring part of an answer to its lack of activity. Communicated by Ramaswamy H. Sarma
DOI: 10.6084/m9.figshare.23565818
title: A comprehensive examination of ACE2 receptor and prediction of spike glycoprotein and ACE2 interaction based on <i>in silico</i> analysis of ACE2 receptor

description: The ACE2 receptor plays a vital role not only in the SARS-CoV-induced epidemic but also in various other diseases, including cardiovascular diseases and ARDS. While studies have explored the interactions between ACE2 and SARS-CoV proteins, comprehensive research utilizing bioinformatic tools on the ACE2 protein has been lacking. The one aim of present study was to extensively analyze the regions of the ACE2 protein. After utilizing all bioinformatics tools especially G104 and L108 regions on ACE2 were come forward. The results of our analysis revealed that possible mutations or deletions in the G104 and L108 regions play a critical role in both the biological functioning and the determination of the chemical-physical properties of ACE2. Additionally, these regions were found to be more susceptible to mutations or deletions compared to other regions of the ACE2 protein. Notably, the randomly selected peptide, LQQNGSSVLS (100–109), which includes G104 and L108, exhibited a crucial role in binding the RBD of the spike protein, as supported by docking scores. Furthermore, both MDs and iMODs results provided evidence that G104 and L108 influence the dynamics of ACE2-spike complexes. This study is expected to offer a new perspective on the ACE2-SARS-CoV interaction and other research areas where ACE2 plays a significant role, such as biotechnology (protein engineering, enzyme optimization), medicine (RAS, pulmonary and cardiac diseases), and basic research (structural motifs, stabilizing protein folds, or facilitating important inter molecular contacts, protein’s proper structure and function). Communicated by Ramaswamy H. Sarma
DOI: 10.6084/m9.figshare.23498042
title: Human indoleamine-2,3-dioxygenase 2 cofactor lability and low substrate affinity explained by homology modeling, molecular dynamics and molecular docking

description: The human indoleamine-2,3-dioxygenase 2 (hIDO2) protein is growing of interest as it is increasingly implicated in multiple diseases (cancer, autoimmune diseases, COVID-19). However, it is only poorly reported in the literature. Its mode of action remains unknown because it does not seem to catalyze the reaction for which it is attributed: the degradation of the L-Tryptophan into N-formyl-kynurenine. This contrasts with its paralog, the human indoleamine-2,3-dioxygenase 1 (hIDO1), which has been extensively studied in the literature and for which several inhibitors are already in clinical trials. Yet, the recent failure of one of the most advanced hIDO1 inhibitors, the Epacadostat, could be caused by a still unknown interaction between hIDO1 and hIDO2. In order to better understand the mechanism of hIDO2, and in the absence of experimental structural data, a computational study mixing homology modeling, Molecular Dynamics, and molecular docking was conducted. The present article highlights an exacerbated lability of the cofactor as well as an inadequate positioning of the substrate in the active site of hIDO2, which might bring part of an answer to its lack of activity. Communicated by Ramaswamy H. Sarma
DOI: 10.25549/examiner-c44-88171
title: Baseball -- Dodgers on television at airport, 1958

description: 4 images. Baseball -- Dodgers on television at airport, 1 June1958. Walter Alston; Vince Scully (announcer); Pee Wee Reese; Mrs. Scott Drysdale (mother of Don); Ginder Dubberly (Don's fiance); Mrs. Walter Alston; Mrs. Joe Becker (wife of coach); Mrs. Charley Neal. "Sports". (Sleeve reads: S-12371).; Caption slip reads: "Photographer: Gray. Date: 06-02. Reporter: Brown. Assignment: Dodgers TV. L/R: Mrs. Scott Drysdale, mother of Don; Ginger Dubberly, Don's fiance; Mrs. Walter Alston; Mrs. Joe Becker, wife of the coach; Mrs. Charley Neal. 15/16/9/10: Long shots of crowd & Dodgers plane. 19/20, L/R: Walter Alston; Vince Scully, announcer; Pee Wee Reese, on plane ramp".
DOI: 10.6084/m9.figshare.23522701
title: Phylogeny and evolution of SARS-CoV-2 during Delta and Omicron variant waves in India

description: SARS-CoV-2 evolution has continued to generate variants, responsible for new pandemic waves locally and globally. Varying disease presentation and severity has been ascribed to inherent variant characteristics and vaccine immunity. This study analyzed genomic data from 305 whole genome sequences from SARS-CoV-2 patients before and through the third wave in India. Delta variant was reported in patients without comorbidity (97%), while Omicron BA.2 was reported in patients with comorbidity (77%). Tissue adaptation studies brought forth higher propensity of Omicron variants to bronchial tissue than lung, contrary to observation in Delta variants from Delhi. Study of codon usage pattern distinguished the prevalent variants, clustering them separately, Omicron BA.2 isolated in February grouped away from December strains, and all BA.2 after December acquired a new mutation S959P in ORF1b (44.3% of BA.2 in the study) indicating ongoing evolution. Loss of critical spike mutations in Omicron BA.2 and gain of immune evasion mutations including G142D, reported in Delta but absent in BA.1, and S371F instead of S371L in BA.1 could explain very brief period of BA.1 in December 2021, followed by complete replacement by BA.2. Higher propensity of Omicron variants to bronchial tissue, probably ensured increased transmission while Omicron BA.2 became the prevalent variant possibly due to evolutionary trade-off. Virus evolution continues to shape the epidemic and its culmination. Communicated by Ramaswamy H. Sarma
DOI: 10.6084/m9.figshare.23522701.v1
title: Phylogeny and evolution of SARS-CoV-2 during Delta and Omicron variant waves in India

description: SARS-CoV-2 evolution has continued to generate variants, responsible for new pandemic waves locally and globally. Varying disease presentation and severity has been ascribed to inherent variant characteristics and vaccine immunity. This study analyzed genomic data from 305 whole genome sequences from SARS-CoV-2 patients before and through the third wave in India. Delta variant was reported in patients without comorbidity (97%), while Omicron BA.2 was reported in patients with comorbidity (77%). Tissue adaptation studies brought forth higher propensity of Omicron variants to bronchial tissue than lung, contrary to observation in Delta variants from Delhi. Study of codon usage pattern distinguished the prevalent variants, clustering them separately, Omicron BA.2 isolated in February grouped away from December strains, and all BA.2 after December acquired a new mutation S959P in ORF1b (44.3% of BA.2 in the study) indicating ongoing evolution. Loss of critical spike mutations in Omicron BA.2 and gain of immune evasion mutations including G142D, reported in Delta but absent in BA.1, and S371F instead of S371L in BA.1 could explain very brief period of BA.1 in December 2021, followed by complete replacement by BA.2. Higher propensity of Omicron variants to bronchial tissue, probably ensured increased transmission while Omicron BA.2 became the prevalent variant possibly due to evolutionary trade-off. Virus evolution continues to shape the epidemic and its culmination. Communicated by Ramaswamy H. Sarma
DOI: 10.25549/examiner-c44-34253
title: Murder, 1952.

description: 5 images. Murder, 12 May 1952. Attorney Frederick C. Dockweiler; Mrs. Patricia Moore; District Attorney S. Ernest Roll; Toni Thomas (daughter of Mrs. Moore).
DOI: 10.25549/examiner-c44-34095
title: Reckless flyer crashes, 1952.

description: 10 images. Reckless flyer crashes, 15 May 1952. Clemo E. Lee -- 31 years (injured in crash while fleeing in plane after stunting); Sheriff Sergeant J.P. Hackley; Captain Sewell Griggers (of Sheriff Aero Squadron, examines wreck); Donald A. McCormack (witness to crash); Katheryn McCormack (witness to crash). (Sleeve reads: A-9561).; Caption slip reads: "Photographer: Emery. Date: 1952-05-15. Reporter: Emery to Desick. Assignment: Plane crash versus Sheriff's Aero Squad. 030, etc: Captain Sewell Griggers, head of sheriff's aero squad, examining smashed Piper Cub in field 100 yards east of Avalon Boulevard, 1 mile north of Carson Street. Man and woman in other shots are witnesses to crash, Donald A. McCormack, 28, and wife Katheryn, of 23425 Avalon Boulevard, Wilmington, who saw plane spin down while they were driving south on Avalon Boulevard in own auto".
DOI: 10.25549/examiner-c44-34080
title: Cesspool cave-in in Pico, 1952.

description: 8 images. Cesspool cave-in in Pico, 2 May 1952. Carl Kilmer, 47, victim, saved; Doctor Walter Stafford; Ralph Lewis. (Sleeve reads: A-9561).
DOI: 10.25549/examiner-c44-87983
title: Freelanders planning fashion show, 1951

description: 10 images. Freelanders planning fashion show, 09 October 1951. Mrs. Ben Samelson; Mrs. Morey Berck; Mrs. William Lieberman; Mrs. Theodore Freistat; Mrs. Seymour C. Fabrick; Mrs. Irving M. Richardson. (Sleeve reads: S-9362).; Caption slip reads: "Photographer: Miller. Date: 1951-10-09. Assignment: Freelanders. 45-46-33-34: Mrs. Ben Samelson; Mrs. Morey Berck; Mrs. Wm. Lieberman; Mrs. Theo. Freistat. 43-44-39: Mrs. Seymour C. Fabrick; Mrs. Ben Samelson; Mrs. Wm. Lieberman; Mrs. Irving M. Richman; Mrs. Morey J. Berck".
DOI: 10.25549/examiner-c44-87615
title: Millionaires Paternity Suit, 1951

description: 3 images. Millionaires Paternity Suit, 18 October 1951. Mrs. Ann Jackson.
DOI: 10.25549/examiner-c44-87886
title: Society... League for Disabled Children Women planning benefit, 1951

description: 5 images. Society... League for Disabled Children Women planning benefit, 5 October 1951. Mrs. Kenneth Graue; Mrs. Roger M. Coe; Mrs. Algerd N. Port; Mrs. Charles L. Robinson. (Sleeve reads: S-9362).; Caption slip reads: "Photographer: Snow. Date: 1951-10-05. Assignment: Society. 25: L to R: Mrs. Kenneth Graue; Mrs. Roger M. Coe; Mrs. Algerd N. Port; Charles L. Robinson. 27-28: Mrs. Roger M. Coe; Mrs. Algerd N. Port; Mrs. Charles R. Robinson; Mrs. Kenneth Graue. 26: Mrs. Charles L. Robinson; Mrs. Keneneth Graue; Mrs. Algerd Port; Mrs. Roger Coe".
DOI: 10.25549/examiner-c44-29537
title: Young Women's Christian Association ...8th grade Junior High School hop, Glendale, 1951

description: 27 images. Young Women's Christian Association ...8th grade Junior High School hop, Glendale, 17 November 1951.
DOI: 10.15468/dl.tgdagq
title: Occurrence Download

description: A dataset containing 534 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((56.40723 13.37258,169.59277 13.37258,169.59277 58.62742,56.40723 58.62742,56.40723 13.37258))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Gastrodia elata Blume"
 ]
}

 The dataset includes 534 records from 62 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0014887-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/examiner-c44-29212
title: Harbor area flood pictures, 1951

description: 4 images. Harbor area flood pictures, 29 December 1951. 248th Street and Eshelman Street in Lomita; Western Avenue near Lomita Boulevard; Officer M. J. Mathison (with overturned car at Western Avenue near Green Hills Memorial, San Pedro).; Supplementary material reads: "Chernus -- Harbor. Captions. Two negs show cars plowing through water filled road on Eshelman Street near 248th Street, Lomita. In background is mechanical ditch digger. One neg shows cars plowing through water filled Western Avenue near Lomita Blvd. One neg shows Officer M. J. Mathison examining overturned car in gully on Western Ave. near Green Hills Memorial, San Pedro. Driver of the car, Lester Sickinger, 31, of 1130 W. 21st Street, Manhattan Beach, suffered dislocated shoulder. Three others in car escaped injury. Car skidded out of control on rain-slickened street, went off highway down 30-foot embankment ovverturning against wire fense".
DOI: 10.25549/examiner-c44-32945
title: Andre D. Skulski suicide, 1952

description: 18 images. Andre D. Skulski suicide, 13 March 1952. Attorney Carl Fetterly; Andre Skulski; Lieutenant Herman Leaf; Sergeant Chet Cash.; Caption slip reads: "Photographer; Ritter. Date: 1952-03-13. Reporter: Massard. Assignment: Skulski suicide. Attorney Carl Fetterly pleading thru door for Andre Skulski not to kill himself, & Lieutenant Herman Leaf; Sergeant Chet Cash & Sergeant Marty Wynn. Andre Skulski dying on bed. Attorney Carl Fetterly with Andre Skulski's suicide note".
DOI: 10.25549/examiner-c44-33644
title: Woman found murdered in Case parking lot at 11th Street and Broadway, 1952

description: 7 images. Woman found murdered in Case parking lot at 11th Street and Broadway, 21 March 1952. Mrs. Esther Huber (victim); Officer Jack Burke; William Diamond (Examiner employee who discovered victim); Sergeant Lloyd Baughn.