cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.20046191.v1
title: Acclimation to water stress improves tolerance to heat and freezing in a common alpine grass

description: Heat tolerance, freezing tolerance, water potential, biomass data collected from Poa hothamensis (Poaceae) plants subjected to glasshouse heatwaves and simultaneous water stress.
DOI: 10.6084/m9.figshare.20045783.v1
title: PSY-COVID-2 raw

description: This is the raw dataset from the second wave of the PSY-COVID study. The data were collected in 2020 in Spain from 2730 participants. The dataset contains the raw data obtained from the full questionnaire, which includes information regarding sociodemographic, contextual, dispositional and cognitive variables alongside with mental health outcomes during the COVID-19 pandemic and intention to geetting vaccinated against SARS-CoV-2.
DOI: 10.6084/m9.figshare.19522255.v1
title: Data scientist search behaviour

description: The repo contains artifacts of survey study and interviews with data scientists on understanding their search behaviour in online resources.
DOI: 10.5281/zenodo.6630128
title: Sample FastQ file for sm-SNIPER workflow

description: Reference data for sm-SNIPER workflow.
DOI: 10.5281/zenodo.6571219
title: Sample FastQ file for sm-SNIPER workflow

description: Reference data for sm-SNIPER workflow.
DOI: 10.5281/zenodo.6630141
title: ama1 Benchmarking bam file

description: reference database for sm-SNIPER pipeline
DOI: 10.6084/m9.figshare.20032319
title: de Zwaan et al_2022_Ornithology_data

description: Data for: <br> de Zwaan, D.R., Huang, A., McCallum, Q., Owen, K., Lamont, M., and Easton, W. (2022). Mass gain and stopover dynamics among migrating songbirds are linked to seasonal, environmental, and life-history effects. Ornithology. <br> Includes three datasets necessary for running the associated R code: 1) Recapture data, 2) daily capture data of recaptured birds, and 3) mark-recapture data for all birds.
DOI: 10.6084/m9.figshare.20032319.v1
title: de Zwaan et al_2022_Ornithology_data

description: Data for: <br> de Zwaan, D.R., Huang, A., McCallum, Q., Owen, K., Lamont, M., and Easton, W. (2022). Mass gain and stopover dynamics among migrating songbirds are linked to seasonal, environmental, and life-history effects. Ornithology. <br> Includes three datasets necessary for running the associated R code: 1) Recapture data, 2) daily capture data of recaptured birds, and 3) mark-recapture data for all birds.
DOI: 10.6084/m9.figshare.14825767
title: Role of the Cadaver Lab in Lymphatic Microsurgery Education: Validation of a New Training Model

description: Microsurgical transplantation of vascularized lymph nodes (VLNT) or lymphatic vessels (VLVT) alongside derivative lymphaticovenous procedures are promising approaches for treatment of lymphedema. However, clinically relevant training models for mastering these techniques are still lacking. Here we describe a new training model in human cadaver and validate its use as training tool for microsurgical lymphatic reconstruction. 10 surgeons with previous exposure to microsurgery were trained in a controlled environment. Lymphatic vessel mapping and dissection in 4 relevant body regions, harvesting of five different VLNTs and one VLVT were performed in 5 fresh-frozen cadavers. The number of lymphatic vessels and lymph nodes for each VLNT were recorded. Finally, the efficacy of this model as training tool was validated using the Dundee Ready Education Environment Measure (DREEM). The average cumulative DREEM score over each category was 30,75 (max = 40) while individual scoring for each relevant category revealed highly positive ratings from the perspective of teaching (39,3), training 40,5 (max = 48) and self perception of the training 30,5 (max = 32) from all participants. The groin revealed the highest number of lymphatic vessels (3.2 ± 0.29<i>)</i> as all other regions on the upper extremity, while the gastroepiploic VLNT had the highest number of lymph nodes (4.2 ± 0.37). This human cadaver model represents a new, reproducible “all-in-one” tool for effective training in lymphatic microsurgery. Its unique diligence in accurately reproducing human lymphatic anatomy, should make this model worth considering for each microsurgeon willing to approach lymphatic reconstruction.
DOI: 10.6084/m9.figshare.14825767.v1
title: Role of the Cadaver Lab in Lymphatic Microsurgery Education: Validation of a New Training Model

description: Microsurgical transplantation of vascularized lymph nodes (VLNT) or lymphatic vessels (VLVT) alongside derivative lymphaticovenous procedures are promising approaches for treatment of lymphedema. However, clinically relevant training models for mastering these techniques are still lacking. Here we describe a new training model in human cadaver and validate its use as training tool for microsurgical lymphatic reconstruction. 10 surgeons with previous exposure to microsurgery were trained in a controlled environment. Lymphatic vessel mapping and dissection in 4 relevant body regions, harvesting of five different VLNTs and one VLVT were performed in 5 fresh-frozen cadavers. The number of lymphatic vessels and lymph nodes for each VLNT were recorded. Finally, the efficacy of this model as training tool was validated using the Dundee Ready Education Environment Measure (DREEM). The average cumulative DREEM score over each category was 30,75 (max = 40) while individual scoring for each relevant category revealed highly positive ratings from the perspective of teaching (39,3), training 40,5 (max = 48) and self perception of the training 30,5 (max = 32) from all participants. The groin revealed the highest number of lymphatic vessels (3.2 ± 0.29<i>)</i> as all other regions on the upper extremity, while the gastroepiploic VLNT had the highest number of lymph nodes (4.2 ± 0.37). This human cadaver model represents a new, reproducible “all-in-one” tool for effective training in lymphatic microsurgery. Its unique diligence in accurately reproducing human lymphatic anatomy, should make this model worth considering for each microsurgeon willing to approach lymphatic reconstruction.
DOI: 10.6084/m9.figshare.14680424.v1
title: Prognostic Value of the N1c in Stage III and IV Colorectal Cancer: A Propensity Score Matching Study Based on the Surveillance, Epidemiology, and End Results (SEER) Database

description: The prognostic role of the N1c remains unclear in colorectal cancer (CRC). Our study aimed to determine the prognostic value of N1c. Patients diagnosed in 2010-2015 were accessed from the Surveillance, Epidemiology, and End Results (SEER) database. COX univariate and multivariate regression analysis and the Kaplan-Meier method were used to assess the impact of the N1c stage on the cause-specific (CSS) and overall survival (OS). Propensity score matching (PSM) was used to construct a matched group with similar propensity scores. Kaplan-Meier analysis showed that the CSS and OS rates in N1a were significantly better than N1c in stage III and IV CRCs after reducing selection bias (CSS: P &lt; 0.001 in stage III, P = 0.041 in stage IV; OS: P &lt; 0.001 in stage III, P = 0.0079 in stage IV). There were no statistical differences in CSS and OS between N1b and N1c (CSS: P = 0.500 in stage III, P = 0.270 in stage IV; OS: P = 0.390 in stage III, P = 0.600 in stage IV). Further, the prognostic value of N1c with only one tumor deposit (TD) is equivalent to N1a based on the comparison of CSS and OS rates (CSS: P = 0.420; OS: P = 0.310). Whereas N1c with only one TD had significantly better CSS and OS than N1b (CSS: P = 0.039; OS: P = 0.037). The CSS and OS rates of N1c do not achieve a statistical difference with N1b in both stage III and IV CRCs. Significantly, higher CSS and OS rates were found in N1c with only one TD versus N1b stage in stage III CRC.
DOI: 10.6084/m9.figshare.14680424
title: Prognostic Value of the N1c in Stage III and IV Colorectal Cancer: A Propensity Score Matching Study Based on the Surveillance, Epidemiology, and End Results (SEER) Database

description: The prognostic role of the N1c remains unclear in colorectal cancer (CRC). Our study aimed to determine the prognostic value of N1c. Patients diagnosed in 2010-2015 were accessed from the Surveillance, Epidemiology, and End Results (SEER) database. COX univariate and multivariate regression analysis and the Kaplan-Meier method were used to assess the impact of the N1c stage on the cause-specific (CSS) and overall survival (OS). Propensity score matching (PSM) was used to construct a matched group with similar propensity scores. Kaplan-Meier analysis showed that the CSS and OS rates in N1a were significantly better than N1c in stage III and IV CRCs after reducing selection bias (CSS: P &lt; 0.001 in stage III, P = 0.041 in stage IV; OS: P &lt; 0.001 in stage III, P = 0.0079 in stage IV). There were no statistical differences in CSS and OS between N1b and N1c (CSS: P = 0.500 in stage III, P = 0.270 in stage IV; OS: P = 0.390 in stage III, P = 0.600 in stage IV). Further, the prognostic value of N1c with only one tumor deposit (TD) is equivalent to N1a based on the comparison of CSS and OS rates (CSS: P = 0.420; OS: P = 0.310). Whereas N1c with only one TD had significantly better CSS and OS than N1b (CSS: P = 0.039; OS: P = 0.037). The CSS and OS rates of N1c do not achieve a statistical difference with N1b in both stage III and IV CRCs. Significantly, higher CSS and OS rates were found in N1c with only one TD versus N1b stage in stage III CRC.
DOI: 10.6084/m9.figshare.20046821.v1
title: Supplementary Material for: Initial eGFR Changes with Ertugliflozin and Associations with Clinical Parameters: Analyses from the VERTIS CV Trial

description: <b><i>Introduction:</i></b> Using data from the ertugliflozin cardiovascular outcomes trial in patients with type 2 diabetes mellitus (VERTIS CV; NCT01986881), associations between the initial estimated glomerular filtration rate (eGFR) “dip” with eGFR slope, glucosuria/natriuresis-related measures, and safety were investigated. <b><i>Methods:</i></b> Patients were categorized into tertiles based on change in eGFR at week 6: &gt;+1.00 mL/min/1.73 m<sup>2</sup> (tertile 1), &gt;−5.99 and ≤+1.00 (tertile 2), and ≤−6.00 (tertile 3). eGFR slope after week 6 and week 18 was assessed by tertile. Glucosuria/natriuresis-related measures were also determined. Adverse events (AEs) were analyzed in the acute (baseline–week 6) and chronic periods (week 6–30 days after last dose of trial medication). <b><i>Results:</i></b> In the ertugliflozin group, chronic eGFR slopes (95% CI, mL/min/1.73 m<sup>2</sup>/year; weeks 6–156) were −0.76 (−1.03, −0.50), −0.29 (−0.51, −0.07), and −0.05 (−0.26, 0.17) in tertiles 1, 2, and 3, respectively (<i>p</i> value &lt;0.001), and approximately −1.5 mL/min/1.73 m<sup>2</sup>/year across tertiles in the placebo group (<i>p</i> value = 0.79). At week 18, least squares mean (LSM) changes from baseline in glycated hemoglobin (%) were −0.77, −0.71, and −0.67 in tertiles 1, 2, and 3, respectively, in the ertugliflozin group; a similar tertile-associated trend was observed for uric acid. At week 18, LSM changes from baseline in hematocrit (%) were 2.07, 2.33, and 2.55 in tertiles 1, 2, and 3, respectively, in the ertugliflozin group; similar tertile-associated trends were observed for blood pressure. All <i>p</i><sub>interaction</sub> values were &lt;0.0001 for glucosuria- and natriuresis-related measures. Kidney-related AEs were reported more frequently in tertiles 3 and 2 in the chronic period for both placebo- and ertugliflozin-treated groups. In both periods and in all tertiles, incidences of AEs did not differ between placebo- and ertugliflozin-treated groups. <b><i>Conclusion:</i></b> With ertugliflozin, the tertile with the largest initial dip in eGFR had a slower rate of chronic eGFR decline. Initial eGFR changes were associated with changes in both glucosuria- and natriuresis-related measures.
DOI: 10.6084/m9.figshare.20045855
title: The raw data for the analysis on the association between the pre-pregnancy vaginal microbiome and time-to-pregnancy

description: The raw sequencing data for the article 'The association between the pre-pregnancy vaginal microbiome and time-to-pregnancy: a Chinese pregnancy-planning cohort study'
DOI: 10.6084/m9.figshare.20045855.v1
title: The raw data for the analysis on the association between the pre-pregnancy vaginal microbiome and time-to-pregnancy

description: The raw sequencing data for the article 'The association between the pre-pregnancy vaginal microbiome and time-to-pregnancy: a Chinese pregnancy-planning cohort study'
DOI: 10.34808/8aj4-vf78
title: LYMPH NODES, Iliac lymph node - Female, 70 - Tissue image [6100730023433701]

description: This is the histopathological image of LYMPH NODES tissue sample obtained in Medical University Gdańsk and deposited in ZMDL-GUMED. The sample image was taken using: Pannoramic 250 3DHistech slide scanner (20x magnification) and saved to DICOM format. The detailed information about the patient, sample, and diagnosis are as follows: Patient:Age: 70Clinical description: Tumor of the left adnexa.Gender: FemaleDiagnosis:Classification: HealthyClassification code: Diagnosis: Result of the histopathological examination: The lymph node is free of cancer metastasis.Sample:Material: FFPECollecting method: Surgical specimenTopography: LYMPH NODESOrgan: LYMPH NODESTissue: Iliac lymph nodeType of staining: positive/HEStaining: Not applicableAntibody: Not applicableTechnology:Equipment: Pannoramic 250 3DHistechLens: 20xOrganization:Source: Medical University Gdańsk
DOI: 10.34808/szcd-rs24
title: Dermatofibrosarcoma protuberans, fibrosarcomatous - Female, 65 - Tissue image [6100730023434691]

description: This is the histopathological image of BREAST tissue sample obtained in Medical University Gdańsk and deposited in ZMDL-GUMED. The sample image was taken using: Pannoramic 250 3DHistech slide scanner (20x magnification) and saved to DICOM format. The detailed information about the patient, sample, and diagnosis are as follows: Patient:Age: 65Clinical description: Breast tumor.Gender: FemaleDiagnosis:Classification: ICD-O_3.2Classification code: FIBROMATOUS NEOPLASMSDiagnosis: Dermatofibrosarcoma protuberans, fibrosarcomatousResult of the histopathological examination: Fibrosarcomatous DFSP (dermatofibrosarcoma protuberans). IHC: vimentin (+), CD 34 (+), CK AE1/3 (-), Cam 5.2 (-), CK 34beta E12 (-), CK 5.6 (-), CK 14 (-), CK 7 (-), CK 19 (-), p63 (-), EMA (-), SMA- focal weakly (+), desmin (-), caldesmon (-), CD 10 focal (+), rec. estrogen rec (-), progesterone rec (-), Her 2 (0), S100 (-), Sox 10 (-), WT1- positive membrane reaction, CD117 (-), STAT 6 (-), Ki 67 20%.Sample:Material: FFPECollecting method: Surgical specimenTopography: BREASTOrgan: BREASTTissue: Central portion of breastType of staining: positive/HEStaining: Not applicableAntibody: Not applicableTechnology:Equipment: Pannoramic 250 3DHistechLens: 20xOrganization:Source: Medical University Gdańsk
DOI: 10.34808/2dbf-h094
title: Seminoma, NOS - Male, 28 - Tissue image [6100730023447711]

description: This is the histopathological image of TESTIS tissue sample obtained in Medical University Gdańsk and deposited in ZMDL-GUMED. The sample image was taken using: Pannoramic 250 3DHistech slide scanner (20x magnification) and saved to DICOM format. The detailed information about the patient, sample, and diagnosis are as follows: Patient:Age: 28Clinical description: Testicular tumor.Gender: MaleDiagnosis:Classification: ICD-O_3.2Classification code: GERM CELL NEOPLASMSDiagnosis: Seminoma, NOSResult of the histopathological examination: Seminoma. IHC: PLAP(+), CD117(+), OCT3/4(+), Glypican3(-), CD30(-).Sample:Material: FFPECollecting method: Surgical specimenTopography: MALE GENITAL ORGANSOrgan: TESTISTissue: Descended testisType of staining: positive/HEStaining: Not applicableAntibody: Not applicableTechnology:Equipment: Pannoramic 250 3DHistechLens: 20xOrganization:Source: Medical University Gdańsk
DOI: 10.34808/4mbn-tn21
title: Dermatofibrosarcoma protuberans, fibrosarcomatous - Female, 65 - Tissue image [6100730023437871]

description: This is the histopathological image of BREAST tissue sample obtained in Medical University Gdańsk and deposited in ZMDL-GUMED. The sample image was taken using: Pannoramic 250 3DHistech slide scanner (20x magnification) and saved to DICOM format. The detailed information about the patient, sample, and diagnosis are as follows: Patient:Age: 65Clinical description: Breast tumor.Gender: FemaleDiagnosis:Classification: ICD-O_3.2Classification code: FIBROMATOUS NEOPLASMSDiagnosis: Dermatofibrosarcoma protuberans, fibrosarcomatousResult of the histopathological examination: Fibrosarcomatous DFSP (dermatofibrosarcoma protuberans). IHC: vimentin (+), CD 34 (+), CK AE1/3 (-), Cam 5.2 (-), CK 34beta E12 (-), CK 5.6 (-), CK 14 (-), CK 7 (-), CK 19 (-), p63 (-), EMA (-), SMA- focal weakly (+), desmin (-), caldesmon (-), CD 10 focal (+), rec. estrogen rec (-), progesterone rec (-), Her 2 (0), S100 (-), Sox 10 (-), WT1- positive membrane reaction, CD117 (-), STAT 6 (-), Ki 67 20%.Sample:Material: FFPECollecting method: Surgical specimenTopography: BREASTOrgan: BREASTTissue: Central portion of breastType of staining: positive/IHCStaining: Not applicableAntibody: DesminTechnology:Equipment: Pannoramic 250 3DHistechLens: 20xOrganization:Source: Medical University Gdańsk
DOI: 10.34808/rpjb-e990
title: Seminoma, NOS - Male, 28 - Tissue image [6100730023443711]

description: This is the histopathological image of TESTIS tissue sample obtained in Medical University Gdańsk and deposited in ZMDL-GUMED. The sample image was taken using: Pannoramic 250 3DHistech slide scanner (20x magnification) and saved to DICOM format. The detailed information about the patient, sample, and diagnosis are as follows: Patient:Age: 28Clinical description: Testicular tumor.Gender: MaleDiagnosis:Classification: ICD-O_3.2Classification code: GERM CELL NEOPLASMSDiagnosis: Seminoma, NOSResult of the histopathological examination: Seminoma. IHC: PLAP(+), CD117(+), OCT3/4(+), Glypican3(-), CD30(-).Sample:Material: FFPECollecting method: Surgical specimenTopography: MALE GENITAL ORGANSOrgan: TESTISTissue: Descended testisType of staining: positive/HEStaining: Not applicableAntibody: Not applicableTechnology:Equipment: Pannoramic 250 3DHistechLens: 20xOrganization:Source: Medical University Gdańsk
DOI: 10.34808/w6sb-pc03
title: OTHER AN UNSPECIFIED FEMALE GENITAL ORGANS, Mesovarium - Female, 70 - Tissue image [6100730023437091]

description: This is the histopathological image of OTHER AN UNSPECIFIED FEMALE GENITAL ORGANS tissue sample obtained in Medical University Gdańsk and deposited in ZMDL-GUMED. The sample image was taken using: Pannoramic 250 3DHistech slide scanner (20x magnification) and saved to DICOM format. The detailed information about the patient, sample, and diagnosis are as follows: Patient:Age: 70Clinical description: Tumor of the left adnexa.Gender: FemaleDiagnosis:Classification: HealthyClassification code: Diagnosis: Result of the histopathological examination: The ovarian blood vessels are free of cancer.Sample:Material: FFPECollecting method: Surgical specimenTopography: FEMALE GENITAL ORGANSOrgan: OTHER AN UNSPECIFIED FEMALE GENITAL ORGANSTissue: MesovariumType of staining: positive/HEStaining: Not applicableAntibody: Not applicableTechnology:Equipment: Pannoramic 250 3DHistechLens: 20xOrganization:Source: Medical University Gdańsk
DOI: 10.34808/fm5f-q407
title: Abnormal histological findings - Female, 52 - Tissue image [610073002344671]

description: This is the histopathological image of CERVIX UTERI tissue sample obtained in Medical University Gdańsk and deposited in ZMDL-GUMED. The sample image was taken using: Pannoramic 250 3DHistech slide scanner (20x magnification) and saved to DICOM format. The detailed information about the patient, sample, and diagnosis are as follows: Patient:Age: 52Clinical description: ASC-H in cytologyGender: FemaleDiagnosis:Classification: ICD-10_10-20Classification code: Chapter XVIII - Symptoms, signs and abnormal clinical and laboratory findings, not elsewhere classifiedDiagnosis: Abnormal histological findingsResult of the histopathological examination: Exocervix fragments with slight chronic inflammation and LSIL (CIN1) foci. The cutting margins are normotypic.Sample:Material: FFPECollecting method: Surgical specimenTopography: FEMALE GENITAL ORGANSOrgan: CERVIX UTERITissue: ExocervixType of staining: positive/HEStaining: Not applicableAntibody: Not applicableTechnology:Equipment: Pannoramic 250 3DHistechLens: 20xOrganization:Source: Medical University Gdańsk
DOI: 10.34808/dbbg-km73
title: Dermatofibrosarcoma protuberans, fibrosarcomatous - Female, 65 - Tissue image [6100730023433181]

description: This is the histopathological image of BREAST tissue sample obtained in Medical University Gdańsk and deposited in ZMDL-GUMED. The sample image was taken using: Pannoramic 250 3DHistech slide scanner (20x magnification) and saved to DICOM format. The detailed information about the patient, sample, and diagnosis are as follows: Patient:Age: 65Clinical description: Breast tumor.Gender: FemaleDiagnosis:Classification: ICD-O_3.2Classification code: FIBROMATOUS NEOPLASMSDiagnosis: Dermatofibrosarcoma protuberans, fibrosarcomatousResult of the histopathological examination: Fibrosarcomatous DFSP (dermatofibrosarcoma protuberans). IHC: vimentin (+), CD 34 (+), CK AE1/3 (-), Cam 5.2 (-), CK 34beta E12 (-), CK 5.6 (-), CK 14 (-), CK 7 (-), CK 19 (-), p63 (-), EMA (-), SMA- focal weakly (+), desmin (-), caldesmon (-), CD 10 focal (+), rec. estrogen rec (-), progesterone rec (-), Her 2 (0), S100 (-), Sox 10 (-), WT1- positive membrane reaction, CD117 (-), STAT 6 (-), Ki 67 20%.Sample:Material: FFPECollecting method: Surgical specimenTopography: BREASTOrgan: BREASTTissue: Central portion of breastType of staining: positive/HEStaining: Not applicableAntibody: Not applicableTechnology:Equipment: Pannoramic 250 3DHistechLens: 20xOrganization:Source: Medical University Gdańsk
DOI: 10.34808/ka16-1182
title: Abnormal histological findings - Female, 52 - Tissue image [6100730023447781]

description: This is the histopathological image of CERVIX UTERI tissue sample obtained in Medical University Gdańsk and deposited in ZMDL-GUMED. The sample image was taken using: Pannoramic 250 3DHistech slide scanner (20x magnification) and saved to DICOM format. The detailed information about the patient, sample, and diagnosis are as follows: Patient:Age: 52Clinical description: ASC-H in cytologyGender: FemaleDiagnosis:Classification: ICD-10_10-20Classification code: Chapter XVIII - Symptoms, signs and abnormal clinical and laboratory findings, not elsewhere classifiedDiagnosis: Abnormal histological findingsResult of the histopathological examination: Exocervix fragments with slight chronic inflammation and LSIL (CIN1) foci. The cutting margins are normotypic.Sample:Material: FFPECollecting method: Surgical specimenTopography: FEMALE GENITAL ORGANSOrgan: CERVIX UTERITissue: ExocervixType of staining: positive/HEStaining: Not applicableAntibody: Not applicableTechnology:Equipment: Pannoramic 250 3DHistechLens: 20xOrganization:Source: Medical University Gdańsk