cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.24606474
title: Supplementary Material for: HER2-Positive Metaplastic Breast Cancer with Resistance to Neoadjuvant Chemotherapy: Case Report

description: Introduction Metaplastic breast carcinoma (MBC) is a rare histologic subtype of breast carcinoma, which is usually negative for estrogen receptor, progesterone receptor and HER2. HER2-positive MBC is therefore extremely rare. Most MBCs have poor response to chemotherapy. HER2-targeted neoadjuvant chemotherapy (NAC) is widely performed and has high efficacy in treating HER2-positive breast cancer. We report an atypical case of HER2-positive breast cancer that had poor response to NAC and was diagnosed with MBC after the surgery. Case presentation A 73-year-old woman noticed a mass in her right breast and visited our hospital. The mass was diagnosed as hormone receptor-negative, HER2-positive invasive ductal carcinoma, T2N0M0 stage IIA. She received HER2-targeted NAC comprising trastuzumab + pertuzumab + docetaxel. Despite three courses, we observed disease progression. The next NAC regimen comprised of two courses of epirubicin + cyclophosphamide, but the cancer continued to grow. She stopped receiving NAC and underwent a unilateral mastectomy and sentinel lymph node biopsy. Although the preoperative pathological result of core needle biopsy specimen showed invasive ductal carcinoma, the postoperative pathological result of the surgical specimen was MBC. Conclusion In this case, when the patient had undergone three courses of trastuzumab + pertuzumab + docetaxel, it would have been appropriate to review the result of the core needle biopsy with pathologists or to perform vacuum-assisted breast biopsy. This case suggests the importance of considering the possibility of special histologic subtypes such as MBC when a tumor with the diagnosis of invasive ductal carcinoma is resistant to NAC.
DOI: 10.6084/m9.figshare.24606474.v1
title: Supplementary Material for: HER2-Positive Metaplastic Breast Cancer with Resistance to Neoadjuvant Chemotherapy: Case Report

description: Introduction Metaplastic breast carcinoma (MBC) is a rare histologic subtype of breast carcinoma, which is usually negative for estrogen receptor, progesterone receptor and HER2. HER2-positive MBC is therefore extremely rare. Most MBCs have poor response to chemotherapy. HER2-targeted neoadjuvant chemotherapy (NAC) is widely performed and has high efficacy in treating HER2-positive breast cancer. We report an atypical case of HER2-positive breast cancer that had poor response to NAC and was diagnosed with MBC after the surgery. Case presentation A 73-year-old woman noticed a mass in her right breast and visited our hospital. The mass was diagnosed as hormone receptor-negative, HER2-positive invasive ductal carcinoma, T2N0M0 stage IIA. She received HER2-targeted NAC comprising trastuzumab + pertuzumab + docetaxel. Despite three courses, we observed disease progression. The next NAC regimen comprised of two courses of epirubicin + cyclophosphamide, but the cancer continued to grow. She stopped receiving NAC and underwent a unilateral mastectomy and sentinel lymph node biopsy. Although the preoperative pathological result of core needle biopsy specimen showed invasive ductal carcinoma, the postoperative pathological result of the surgical specimen was MBC. Conclusion In this case, when the patient had undergone three courses of trastuzumab + pertuzumab + docetaxel, it would have been appropriate to review the result of the core needle biopsy with pathologists or to perform vacuum-assisted breast biopsy. This case suggests the importance of considering the possibility of special histologic subtypes such as MBC when a tumor with the diagnosis of invasive ductal carcinoma is resistant to NAC.
DOI: 10.5281/zenodo.10203886
title: Experimental determination of the hafnium L-subshell fundamental parameters using the holistic approach

description: This file contains the experimentally determined atomic fundamental parameters for the hafnium L-shells as described in "Experimental determination of the hafnium L-subshell fundamental parameters using the holistic approach" by N. Wauschkuhn, H. Gundlach and P. Hönicke.                                                                                             Fundamental parameters in this file: L-subshell fluorescence yields, L-shell Coster-Kronig factors, L-shell Auger yields,  L-subshell photo ionization cross sections up to 23 keV, L-subshell fluorescence prodution cross sections up to 23 keV
DOI: 10.5281/zenodo.10203887
title: Experimental determination of the hafnium L-subshell fundamental parameters using the holistic approach

description: This file contains the experimentally determined atomic fundamental parameters for the hafnium L-shells as described in "Experimental determination of the hafnium L-subshell fundamental parameters using the holistic approach" by N. Wauschkuhn, H. Gundlach and P. Hönicke.                                                                                             Fundamental parameters in this file: L-subshell fluorescence yields, L-shell Coster-Kronig factors, L-shell Auger yields,  L-subshell photo ionization cross sections up to 23 keV, L-subshell fluorescence prodution cross sections up to 23 keV
DOI: 10.5281/zenodo.10203983
title: TURKISTON VА TURKIYA JАDIDLАRI MUNOSABATLARI MOHIYATI
title: TURKISTON VА TURKIYA JАDIDLАRI MUNOSABATLARI MOHIYATI
DOI: 10.5281/zenodo.10203984
title: TURKISTON VА TURKIYA JАDIDLАRI MUNOSABATLARI MOHIYATI
title: TURKISTON VА TURKIYA JАDIDLАRI MUNOSABATLARI MOHIYATI
DOI: 10.5281/zenodo.10020939
title: Hybrid analytical surrogate-based process optimization via Bayesian symbolic regression

description: Dataset associated with the publication "Hybrid analytical surrogate-based process optimization via Bayesian symbolic regression" by Sachin Jog, Daniel Vázquez, Lucas F. Santos, José A. Caballero, and Gonzalo Guillén-Gosálbez. The dataset includes the parameters used in the DACE BB models of case studies 1 and 2, described in sections 5.1.3 and 5.2.3 of the supplementary material, respectively.
DOI: 10.5281/zenodo.10020938
title: Hybrid analytical surrogate-based process optimization via Bayesian symbolic regression

description: Dataset associated with the publication "Hybrid analytical surrogate-based process optimization via Bayesian symbolic regression" by Sachin Jog, Daniel Vázquez, Lucas F. Santos, José A. Caballero, and Gonzalo Guillén-Gosálbez. The dataset includes the parameters used in the DACE BB models of case studies 1 and 2, described in sections 5.1.3 and 5.2.3 of the supplementary material, respectively.
DOI: 10.5258/soton/d2860
title: Dataset supporting the University of Southampton Doctoral Thesis "Neural spike classification acceleration with RRAM technologies"

description: Dataset supporting the University of Southampton Doctoral Thesis "Neural spike classification acceleration with RRAM technologies". This dataset contains a mix of .vcsv and .mat files containing raw and processed data from experiments presented in the supported work. The dataset contain 2 main folders. The first folder (ArC TWO data) contains data collected during the testing and validation of the instrument developed during the project. The second folder (results) contains raw data obtained in simulation and physical testing of the circuit designed during this project. The data is accessible via CC-BY-NC-ND license.
DOI: 10.6084/m9.figshare.24631782
title: Tibetan Plateau in-situ precipitation, NDVI and soil moisture data.

description: Vegetation on the Tibetan Plateau (TP) plays a crucial role in continental energy, water and carbon budgets. Throughout the rest of the 21<sup>st</sup> century, TP vegetation faces two key pressures: First, the impact of climate change-induced atmospheric changes; and second, potential shifts imposed by direct land use. In this study we characterize rainfall-driven local vegetation changes using a combination of in-situ station data and satellite observations. We then project future vegetation changes using simulated precipitation characteristics from the latest state-of-the-art Earth System Models.
DOI: 10.6084/m9.figshare.24631782.v1
title: Tibetan Plateau in-situ precipitation, NDVI and soil moisture data.

description: Vegetation on the Tibetan Plateau (TP) plays a crucial role in continental energy, water and carbon budgets. Throughout the rest of the 21<sup>st</sup> century, TP vegetation faces two key pressures: First, the impact of climate change-induced atmospheric changes; and second, potential shifts imposed by direct land use. In this study we characterize rainfall-driven local vegetation changes using a combination of in-situ station data and satellite observations. We then project future vegetation changes using simulated precipitation characteristics from the latest state-of-the-art Earth System Models.
DOI: 10.5519/qd.z9m5rjoz
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (539 records)
DOI: 10.5281/zenodo.8244954
title: Binding of Cholesterol to the N-terminal Domain of the NPC1L1 Transporter: Analysis of the Epimerisation-Related Binding Selectivity and Loop Mutations

description: Input files, topologies and trajectories of the work "Binding of Cholesterol to the N-terminal Domain of the NPC1L1 Transporter: Analysis of the Epimerisation-Related Binding Selectivity and Loop Mutations".
DOI: 10.5281/zenodo.8244955
title: Distinct Binding Modes Dictate the Epimerization-Related Selectivity in the Binding of Cholesterol to the N-terminal Domain of the NPC1L1 Transporter

description: Input files, topologies and trajectories of the work "<em>Distinct Binding Modes Dictate the Epimerization-Related Selectivity in the Binding of Cholesterol to the N-terminal Domain of the NPC1L1 Transporter</em>".
DOI: 10.5281/zenodo.8420601
title: Binding of Cholesterol to the N-terminal Domain of the NPC1L1 Transporter: Analysis of the Epimerisation-Related Binding Selectivity and Loop Mutations

description: Input files, topologies and trajectories of the work "Binding of Cholesterol to the N-terminal Domain of the NPC1L1 Transporter: Analysis of the Epimerisation-Related Binding Selectivity and Loop Mutations".
DOI: 10.25345/c5kk94p6k
title: MassIVE MSV000093479 - optimize of fermentation method of Co-culture Penicillium sp. 34 and Staphylococcus aureus
title: optimize of fermentation method of Co-culture Penicillium sp. 34 and Staphylococcus aureus non shaker PA
DOI: 10.5281/zenodo.10161923
title: Characterization of cefiderocol resistant spontaneous mutant variants of Klebsiella pneumoniae producing NDM-5 with single mutation in cirA

description: Cefiderocol (CFDC) is a siderophore-cephalosporin antibiotic designed to combat highly resistant Gram-negative bacterial infections. Its mechanism involves a strong affinity for iron and active transport into bacterial cells, providing an alternative against strains resistant to common antibiotics. However, the emergence of CFDC resistance in Klebsiella is a growing concern. Recent reports highlight increasing CFDC resistance in K. pneumoniae, particularly associated with mutations in the cirA gene, responsible for encoding a siderophore receptor. Co-localization of blaNDM-like gene and cirA mutations correlates with higher CFDC resistance. The study focuses on a carbapenem-resistant K. pneumoniae strain (Kp-1) with carbapenemases blaNDM-5 and blaOXA-181, recovered from a post-surgery patient. The strain exhibited resistance to all tested antibiotics but susceptibility to CFDC. Heteroresistant populations with the halo on inhibition of CFDC were observed. Genomic analysis identified a novel mutation (W123*) in the cirA gene associated with CFDC resistance. Additionally, increased blaNDM-5 expression in Kp-1 IHC (intra-halo colony) compared to Kp-1 was noted. The coexistence of blaNDM-like and cirA variants, along with high blaNDM-5 expression, explains the observed 21-fold increase in Minimum Inhibition Concentration (MIC) in Kp-1 IHC. The study contributes to understanding the molecular mechanisms driving the emergence of cefiderocol resistance, emphasizing the significance of coexisting mutations in cirA and blaNDM-like genes.
DOI: 10.5281/zenodo.10161924
title: Characterization of cefiderocol resistant spontaneous mutant variants of Klebsiella pneumoniae producing NDM-5 with single mutation in cirA

description: Cefiderocol (CFDC) is a siderophore-cephalosporin antibiotic designed to combat highly resistant Gram-negative bacterial infections. Its mechanism involves a strong affinity for iron and active transport into bacterial cells, providing an alternative against strains resistant to common antibiotics. However, the emergence of CFDC resistance in Klebsiella is a growing concern. Recent reports highlight increasing CFDC resistance in K. pneumoniae, particularly associated with mutations in the cirA gene, responsible for encoding a siderophore receptor. Co-localization of blaNDM-like gene and cirA mutations correlates with higher CFDC resistance. The study focuses on a carbapenem-resistant K. pneumoniae strain (Kp-1) with carbapenemases blaNDM-5 and blaOXA-181, recovered from a post-surgery patient. The strain exhibited resistance to all tested antibiotics but susceptibility to CFDC. Heteroresistant populations with the halo on inhibition of CFDC were observed. Genomic analysis identified a novel mutation (W123*) in the cirA gene associated with CFDC resistance. Additionally, increased blaNDM-5 expression in Kp-1 IHC (intra-halo colony) compared to Kp-1 was noted. The coexistence of blaNDM-like and cirA variants, along with high blaNDM-5 expression, explains the observed 21-fold increase in Minimum Inhibition Concentration (MIC) in Kp-1 IHC. The study contributes to understanding the molecular mechanisms driving the emergence of cefiderocol resistance, emphasizing the significance of coexisting mutations in cirA and blaNDM-like genes.
DOI: 10.6084/m9.figshare.22026753
title: Interpersonal violence experienced by people with communication disabilities in Iraq: Sustainable Development Goals 16 and 5

description: This paper presents an analysis of interpersonal identity-based violence experienced by persons with communication disabilities in Iraq and the barriers reported to accessing supports. The use of communication accessible data collection tools is discussed as a means of enabling an inclusive response for multiple marginalised groups in relation to Sustainable Development Goals (SDGs) 16 and 5. People with communication disabilities reported similar levels of interpersonal violence to those with disabilities of other types, characterised by high rates of deprivation and physical violence. Many participants did not seek support, but those that did were most likely to speak to a family member or friend, followed by consulting legal services. Barriers to accessing support were varied, with lack of transport being the most commonly reported. Satisfaction with research communication supports was high for all participants, including those with no communication difficulties, suggesting that the resources invested in communication access have benefits beyond those with communication disabilities. Iraqi persons with communication disabilities, like those with other disabilities, face high levels of interpersonal violence. The use of communication supports in research addressing disability is likely to increase the representation of persons with communication disability in study samples and can benefit participants with other disabilities. This commentary paper, available in Arabic as a supplemental file, focusses on SDG 16 and also addresses SDG 5.
DOI: 10.6084/m9.figshare.22026753.v1
title: Interpersonal violence experienced by people with communication disabilities in Iraq: Sustainable Development Goals 16 and 5

description: This paper presents an analysis of interpersonal identity-based violence experienced by persons with communication disabilities in Iraq and the barriers reported to accessing supports. The use of communication accessible data collection tools is discussed as a means of enabling an inclusive response for multiple marginalised groups in relation to Sustainable Development Goals (SDGs) 16 and 5. People with communication disabilities reported similar levels of interpersonal violence to those with disabilities of other types, characterised by high rates of deprivation and physical violence. Many participants did not seek support, but those that did were most likely to speak to a family member or friend, followed by consulting legal services. Barriers to accessing support were varied, with lack of transport being the most commonly reported. Satisfaction with research communication supports was high for all participants, including those with no communication difficulties, suggesting that the resources invested in communication access have benefits beyond those with communication disabilities. Iraqi persons with communication disabilities, like those with other disabilities, face high levels of interpersonal violence. The use of communication supports in research addressing disability is likely to increase the representation of persons with communication disability in study samples and can benefit participants with other disabilities. This commentary paper, available in Arabic as a supplemental file, focusses on SDG 16 and also addresses SDG 5.
DOI: 10.6084/m9.figshare.24631410.v1
title: <b>Flight behaviour diverge more between seasonal forms than between species in </b><b><i>Pieris</i></b><b> </b><b>butterflies</b>

description: Data accompanying the following publication:Kleckova I., Linke D., De Moraes Rezende F., Rauscher L., Le Roy C., Matos-Maraví P. (submitted) Flight behaviour diverge more between seasonal forms than between species in Pieris butterflies
DOI: 10.25919/xfnc-tt13
title: Parkes observations for project P1238 semester 2023OCTS_03

description: Young and energetic pulsars can power strong pulsar wind nebula (PWN), which can be observed from radio to X-ray and beyond. Thanks to the superior sensitivity of the ASKAP EMU survey, we are able to identify new PWNe in the Galactic plane, and use them to guide our search of radio pulsars. This strategy was demonstrated successful by the recent discovery of a high dispersion measure (DM) pulsar powering a bow-shocked PWN with one of the longest tail. Recently, we analysed several EMU fields covering the Galactic plane and identified another four new PWNe candidates. Here we propose to use the Parkes UWL receiver to carry out targeted search of radio pulsars powering these PWNe. Since these system are located in the Galactic plane and can be distant, we expect them to have large DMs. Such high DMs will lead to strong scattering and smearing and make pulsars undetectable in previous pulsar surveys. The wide frequency coverage of UWL, especially the high frequencies, will allow us to avoid these effects and therefore offer us a better chance to find these pulsars.
DOI: 10.5258/soton/d2872
title: Dataset supporting Doctoral Thesis "Design, fabrication and characterisation of a low-cost, acoustically focussed imaging flow cytometer for automated analysis of phytoplankton"

description: Dataset supporting Doctoral Thesis "Design, fabrication and characterisation of a low-cost, acoustically focussed imaging flow cytometer for automated analysis of phytoplankton". The dataset is in the form of model inputs/outputs and images used for training neural networks), models (in the form of a COMSOL finite element model and a trained convolutional neural network) and code (in the form of control code for the imaging flow cytometer) described in the above thesis, each contained in a .zip archive with a README file. This work was supported by the Natural Environmental Research Council [grant number NE/N012070/1
DOI: 10.5281/zenodo.10204064
title: lyDATA: 2021 USZ Oropharynx

description: Dataset:


We provide a dataset on lymph node level (LNL) involvement in 287 patients with newly diagnosed oropharyngeal squamous cell carcinoma (OPSCC). For each patient, ipsilateral and contralateral LNL involvement for levels I to VII is reported together with clinicopathological factors including TNM-stage, primary tumor subsite, tumor lateralization, HPV status, sex, age, smoking status, and primary treatment. LNL involvement was assessed individually based on available diagnostic modalities (PET, MRI, CT, fine needle aspiration) by reviewing pathology and radiology reports together with the radiological images. The data is shared as a CSV-table with rows of patients and columns of patient/tumor-specific information and the involvement of individual LNL based on the respective diagnostic modalities.


Reuse potential:


Patterns of lymphatic progression have never been reported on a patient-individual basis in as much detail as provided in this dataset. The data can be used to build quantitative models for lymphatic tumor progression to estimate the probability of occult metastases in LNLs. This may in turn allow for further personalization of the elective clinical target volume definition in radiotherapy and the extent of neck dissection for surgically treated patients. The data can be pooled with other data to build large multi-institutional datasets on lymphatic metastatic progression in the future.
description: This work was supported by the clinical research priority program (CRPP) "Artificial intelligence in oncological imaging" at the University of Zurich.
DOI: 10.5281/zenodo.5833836
title: rmnldwg/lydata: 2021-oropharynx

description: Dataset: We provide a dataset on lymphatic metastatic progression in head & neck squamous cell carcinoma (HNSCC). 287 patients with newly diagnosed oropharyngeal SCC treated at a single institution between 2013 and 2019 were retrospectively analyzed. For each patient, lymph node level (LNL) involvement for levels I to VII was recorded together with clinicopathological factors including TNM-stage, primary tumor subsite, tumor lateralization, HPV status, sex, age, smoking status, and primary treatment. Ipsilateral and contralateral LNL involvement was assessed individually based on available diagnostic modalities (PET, MRI, CT, FNA) by reviewing pathology and radiology reports together with the images. The data is shared as a large CSV-table with rows of patients and columns of patient/tumor-specific information and the involvement of individual LNL based on the respective diagnostic modalities. Reuse potential: While prevalence of LNL involvement has been reported previously, patterns of lymphatic progression have never been reported on a patient-individual basis in as much detail as provided in this dataset. The data can be used to build quantitative models for lymphatic tumor progression to estimate the probability of occult metastases in LNL, which may allow for further personalized elective clinical target volume definition in radiotherapy. The data can be pooled with other data to build large multi-institutional datasets on lymphatic metastatic progression in the future.
description: This work was supported by the clinical research priority program (CRPP) "Artificial intelligence in oncological imaging" at the University of Zurich.