The Digital Rosetta Stone Project

Presentation of the project «Digital Rosetta Stone», a pilot project to align languages (in this case: Middle Egyptian, Demotic, and Ancient Greek) on the base of a new 3D image of the Rosetta Stone in the British Museum. Furthermore, syntax and morphology of the three texts of the decree have been annotated to visualize the languages in a treebanking model, for the first time for Ancient Egyptian

Depth map of the Rosetta Stone

The Digital Rosetta Stone is a project developed at Leipzig University by the Chair of Digital Humanities and the Egyptological Institute/Egyptian Museum Georg Steindorff in collaboration with the British Museum and the Digital Epigraphy and Archaeology Project of the University of Florida. The aims of the project are to produce a collaborative digital edition of the Rosetta Stone, address standardization and customization issues for the scholarly community, create data that can be used by students to understand the document in terms of language and content, and produce a high-resolution 3D model of the inscription. The three versions of the text were transcribed and outputted in XML, according to the EpiDoc guidelines. Next, the versions were aligned with the Ugarit iAligner tool that supports the alignment of ancient texts with modern languages, such as English and German. All three texts were then parsed syntactically and morphologically through Treebank annotation. Finally, the project explored new 3D-digitization methodologies of the Rosetta Stone in the British Museum that enhances traditional archaeological methods and facilitates the study of the artifact. The results of this work were used in different courses in Digital Humanities, Digital Philology, and Egyptology

Microbiome alteration Via Fecal Microbiota Transplantation Is Effective For Refractory Immune Checkpoint inhibitor-induced Colitis

Immune checkpoint inhibitors (ICIs) target advanced malignancies with high efficacy but also predispose patients to immune-related adverse events like immune-mediated colitis (IMC). Given the association between gut bacteria with response to ICI therapy and subsequent IMC, fecal microbiota transplantation (FMT) represents a feasible way to manipulate microbial composition in patients, with a potential benefit for IMC. Here, we present a large case series of 12 patients with refractory IMC who underwent FMT from healthy donors as salvage therapy. All 12 patients had grade 3 or 4 ICI-related diarrhea or colitis that failed to respond to standard first-line (corticosteroids) and second-line immunosuppression (infliximab or vedolizumab). Ten patients (83%) achieved symptom improvement after FMT, and three patients (25%) required repeat FMT, two of whom had no subsequent response. At the end of the study, 92% achieved IMC clinical remission. 1

Identification of Potential Sites for Tryptophan Oxidation in Recombinant Antibodies Using tert-Butylhydroperoxide and Quantitative LC-MS

Amino acid oxidation is known to affect the structure, activity, and rate of degradation of proteins. Methionine oxidation is one of the several chemical degradation pathways for recombinant antibodies. In this study, we have identified for the first time a solvent accessible tryptophan residue (Trp-32) in the complementary-determining region (CDR) of a recombinant IgG1 antibody susceptible to oxidation under real-time storage and elevated temperature conditions. The degree of light chain Trp-32 oxidation was found to be higher than the oxidation level of the conserved heavy chain Met-429 and the heavy chain Met-107 of the recombinant IgG1 antibody HER2, which have already been identified as being solvent accessible and sensitive to chemical oxidation. In order to reduce the time for simultaneous identification and functional evaluation of potential methionine and tryptophan oxidation sites, a test system employing tert-butylhydroperoxide (TBHP) and quantitative LC-MS was developed. The optimized oxidizing conditions allowed us to specifically oxidize the solvent accessible methionine and tryptophan residues that displayed significant oxidation in the real-time stability and elevated temperature study. The achieved degree of tryptophan oxidation was adequate to identify the functional consequence of the tryptophan oxidation by binding studies. In summary, the here presented approach of employing TBHP as oxidizing reagent combined with quantitative LC-MS and binding studies greatly facilitates the efficient identification and functional evaluation of methionine and tryptophan oxidation sites in the CDR of recombinant antibodies

HIV Drug Resistance (HIVDR) in Antiretroviral Therapy-Naïve Patients in Tanzania Not Eligible for WHO Threshold HIVDR Survey Is Dramatically High

The World Health Organization (WHO) has recommended guidelines for a HIV drug resistance (HIVDR) survey for resource-limited countries. Eligibility criteria for patients include age below 25 years in order to focus on the prevalence of transmitted HIVDR (tHIVDR) in newly-infected individuals. Most of the participating sites across Africa have so far reported tHIVDR prevalences of below 5%. In this study we investigated whether the rate of HIVDR in patients <25 years is representative for HIVDR in the rest of the therapy-naïve population. HIVDR was determined in 88 sequentially enrolled ART-naïve patients from Mwanza, Tanzania (mean age 35.4 years). Twenty patients were aged <25 years and 68 patients were aged 25-63 years. The frequency of HIVDR in the study population was 14.8% (95%; CI 0.072-0.223) and independent of NVP-resistance induced by prevention of mother-to-child transmission programs. Patients >25 years had a significantly higher HIVDR frequency than younger patients (19.1%; 95% CI 0.095-0.28) versus 0%, P = 0.0344). In 2 out of the 16 patients with HIVDR we found traces of antiretrovirals (ARVs) in plasma. ART-naïve patients aged over 25 years exhibited significantly higher HIVDR than younger patients. Detection of traces of ARVs in individuals with HIVDR suggests that besides transmission, undisclosed misuse of ARVs may constitute a significant factor in the generation of the observed high HIVDR rate. The current WHO tHIVDR survey that is solely focused on the transmission of HIVDR and that excludes patients over 25 years of age may therefore result in substantial underestimation of the prevalence of HIVDR in the therapy-naïve population. Similar studies should be performed also in other areas to test whether the so far reported optimistic picture of low HIVDR prevalence in young individuals is really representative for the rest of the ART-naïve HIV-infected population

Self-Assembly and Electrical Conductivity of a New [1]benzothieno[3,2-b][1]-benzothiophene (BTBT)-Peptide Hydrogel

The conjugation of small-molecule semiconductors with self-assembling peptides is a powerful tool for the fabrication of supramolecular soft materials for organic electronics and bioelectronics. Herein, we introduced the benchmark organic semiconductor [1]benzothieno[3,2-b][1]-benzothiophene (BTBT) within the structure of a self-assembling amphipathic peptide. The molecular structure of the conjugate was rationally designed to favour π-π stacking between BTBT cores and π-delocalization within the self-assembled architectures. Hydrogels with fibrillar structure were obtained upon self-assembly. Spectroscopic studies confirmed that both hydrogen bonding between peptide segments and π-π stacking between BTBT chromophores are responsible for the formation of the 3D fibrillar network observed by transmission electron microscopy. The hydrogel was successfully deposited on gold interdigitated electrodes and a conductivity up to 1.6 (±0.1) × 10−5 S cm−1 was measured

Depth map of the Rosetta Stone

The Digital Rosetta Stone is a project developed at Leipzig University by the Chair of Digital Humanities and the Egyptological Institute/Egyptian Museum Georg Steindorff in collaboration with the British Museum and the Digital Epigraphy and Archaeology Project of the University of Florida. The aims of the project are to produce a collaborative digital edition of the Rosetta Stone, address standardization and customization issues for the scholarly community, create data that can be used by students to understand the document in terms of language and content, and produce a high-resolution 3D model of the inscription. The three versions of the text were transcribed and outputted in XML, according to the EpiDoc guidelines. Next, the versions were aligned with the Ugarit iAligner tool that supports the alignment of ancient texts with modern languages, such as English and German. All three texts were then parsed syntactically and morphologically through Treebank annotation. Finally, the project explored new 3D-digitization methodologies of the Rosetta Stone in the British Museum that enhances traditional archaeological methods and facilitates the study of the artifact. The results of this work were used in different courses in Digital Humanities, Digital Philology, and Egyptology

Depth map of the Rosetta Stone

The Digital Rosetta Stone is a project developed at Leipzig University by the Chair of Digital Humanities and the Egyptological Institute/Egyptian Museum Georg Steindorff in collaboration with the British Museum and the Digital Epigraphy and Archaeology Project of the University of Florida. The aims of the project are to produce a collaborative digital edition of the Rosetta Stone, address standardization and customization issues for the scholarly community, create data that can be used by students to understand the document in terms of language and content, and produce a high-resolution 3D model of the inscription. The three versions of the text were transcribed and outputted in XML, according to the EpiDoc guidelines. Next, the versions were aligned with the Ugarit iAligner tool that supports the alignment of ancient texts with modern languages, such as English and German. All three texts were then parsed syntactically and morphologically through Treebank annotation. Finally, the project explored new 3D-digitization methodologies of the Rosetta Stone in the British Museum that enhances traditional archaeological methods and facilitates the study of the artifact. The results of this work were used in different courses in Digital Humanities, Digital Philology, and Egyptology

Depth map of the Rosetta Stone

This artifact depicts the depth map of the Rosetta stone, which was algorithmically generated in 2018 as part of the Digital Rosetta Stone project. The Digital Rosetta Stone is a project developed at Leipzig University by the Chair of Digital Humanities and the Egyptological Institute/Egyptian Museum Georg Steindorff in collaboration with the British Museum and the Digital Epigraphy and Archaeology Project of the University of Florida. The aims of the project are to produce a collaborative digital edition of the Rosetta Stone, address standardization and customization issues for the scholarly community, create data that can be used by students to understand the document in terms of language and content, and produce a high-resolution 3D model of the inscription. The three versions of the text were transcribed and outputted in XML, according to the EpiDoc guidelines. Next, the versions were aligned with the Ugarit iAligner tool that supports the alignment of ancient texts with modern languages, such as English and German. All three texts were then parsed syntactically and morphologically through Treebank annotation. Finally, the project explored new 3D-digitization methodologies of the Rosetta Stone in the British Museum that enhances traditional archaeological methods and facilitates the study of the artifact. The results of this work were used in different courses in Digital Humanities, Digital Philology, and Egyptology

LC-separation UV-profiles of the real-time stability sample (9 months at 4°C) and the corresponding reference material (RS, stored at −70°C) after tryptic cleavage.

<p>The <i>m/z</i>-values of Met-253 and Trp-32 containing tryptic antibody peptides, obtained by LC-ESI-MS, are listed in the inset along with their corresponding LC fraction number. Peak identification and quantification performed by LC-MS. Chromatographic conditions are described in the <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0017708#s4" target="_blank">materials and methods</a>.</p