https://researchdata.se/en/catalogue Search results en All individuals diagnosed with cancer from 2000 to 2007 were identified in the Cancer Register of Southern Sweden, but only individuals who were also identified in the Population Register of Scania were included in this cohort. Age- and gender-matched controls were identified in the Population Register of Scania. The controls were reconciled with the cancer registry in southern Sweden so that they had no prior diagnosis of cancer and with the Population Register of Scania that they were alive at time of diagnosis to the matched case. Also spouses to cancer patients were used as controls. For each individual, healthcare costs were monitored related to the date of diagnosis. Costs for outpatient care, inpatient care, number of days in hospital and medications were included. Costs were also calculated for the controls. Other information available about the individuals in the cohort are age, sex, domicile, type of tumor and medication. Purpose: To study the health cost per individual in relation to mortality and comorbidity. Thu, 28 Aug 2014 13:21:55 GMT https://researchdata.se/en/catalogue/dataset/ext0119-1 https://researchdata.se/en/catalogue/dataset/ext0119-1 Lund University Håkan Olsson The MDC was started in the early 1990s as a screening survey in the middle-aged population of Malmö, the third largest city of Sweden. 28000 subjects living in Malmö were during 1991-1996 invited by letter and through public advertisement to a clinical examination whitch included blood sampling and a questionnaire about nutrition. 62 % of the participants were women. Cardiovascular risk factors were measured in a random subsample (n= 6000). After 16 years, during 2007-2012, a new clinical examination and blood sampling was performed (n=3700). Morbidity and mortality have been followed up by national registers. Purpose: 1. To screen for dietary habits in order to predict incident cancers in the general population 2. To screen for cardiovascular risk factors and early atherosclerosis in a sub-sample. Sat, 01 Jan 2011 00:00:00 GMT https://researchdata.se/en/catalogue/dataset/ext0012-1 https://researchdata.se/en/catalogue/dataset/ext0012-1 Lund University Olle Melander Peter M Nilsson Jonas Manjer Bo Hedblad This dataset comprises digitized benign prostate hematoxilyn and eosin (H&E) biopsies from men with raised prostate-specific antigen (PSA) values. The biopsies were systematically taken from different locations in the prostate and were not guided by magnetic resonance imaging (MRI). The dataset includes paired samples from patients with comparable age and PSA levels, all initially diagnosed as benign but with different outcomes upon subsequent follow-ups and re-biopsies. While some patients remained cancer-free during eight years of follow-up, others were diagnosed with prostate cancer within the subsequent 30 months of follow-up. The final processed dataset includes 213 patients from northern Sweden, resulting in a total of 587 H&E prostate needle biopsies. Among these, 125 control patients with 333 biopsies exhibited no cancer development in eight years following the initial diagnosis. Conversely, 88 case patients with 254 biopsies were diagnosed with prostate cancer of various ISUP grades within the 30 months following the initial diagnosis. Each case patient is accompanied by one to three control patients, paired for similar age, PSA value and year of diagnosis. Patients were anonymized by assigning random case IDs and MRXS image files were anonymized by using the module in https://github.com/bgilbert/anonymize-slide. Mon, 17 Jun 2024 15:05:09 GMT https://researchdata.se/en/catalogue/dataset/2024-144 https://researchdata.se/en/catalogue/dataset/2024-144 Uppsala University Eduard Chelebian Carolina Wählby Anders Bergh Within the stroma of pancreatic ductal adenocarcinoma (PDAC), mesenchymal cells differentiate into cancer-associated fibroblast (CAF) subtypes that differentially mediate disease progression. Defining the regulatory mechanism and diversity of CAF subtypes could identify potential therapeutic strategies to harness the tumor suppressive activities of CAFs. To address this, we utilized single-cell RNA sequencing to profile fibroblast activation protein-alpha (FAP) expressing mesenchymal cells in human PDAC. The mesenchymal subpopulations in PDAC reflected mesenchymal cell heterogeneity found in the normal developing pancreas. In addition to characterizing inflammatory CAF (iCAF) and myofibroblastic CAF (myCAF) subpopulations in detail, the analysis uncovered a previously undescribed interferon-response CAF (ifCAF) subtype. Tumor-derived signals induced specific CAF subtypes from pancreatic stellate cells (PSCs) in an organoid-based co-culture model, and time-course experiments revealed regulatory mechanisms that govern subtype formation. STING agonists promoted an ifCAF phenotype in vivo and in vitro. Importantly, induction of an ifCAF phenotype suppressed tumor cell invasiveness and induced an anti-tumor phenotype in tumor-associated neutrophils. Together, this study resolves FAP+ stromal cell heterogeneity in PDAC and identifies an ifCAF subtype that can be induced to suppress pro-tumorigenic features of PDAC (Cumming et al., 2025). This dataset contains the following data and metadata files: 1. Six pairs of fastq files that contain the actual sequencing data. The total size is 230 GB. Each pair represents a paired-end single-cell RNA sequencing from an individual patient sample. The fastq files are text files with genomic sequence and sequence quality metrics. They are stored as compressed gzip-ed files. 2. A metadata file with sample information. The variables included are: Sample name, sequencing library ID, sequencing depth, sequencing index, number of cells, barcode set, patient pseudo ID (P1-P5), pathologic diagnosis, gender, age, surgical procedure, pathological classification, tumour location, histological status (desmoplasia). This is an Excel file (xlsx). 3. A metadata file with sample information according to the Federated European Genome-Phenome Archive Sweden (FEGA-sweden) template format. This is an Excel file (xlsx). 4. Twelve processed data tables with raw read (UMI) count; Six files for quality filtered cells, and six files with all cells. Each table corresponds to a separate sample. This corresponds to gene expression levels after mapping to the reference genome. The data is stored in MEX format, i.e. three tab-delimited text files in sparse matrix format. The files are compressed with gzip. 5. Two cell annotation tables for the single-cell data. The tables describe read count, gene count, cluster number, and cell type annotation for 30786/26733 single cells from the 6 samples described in the sample information metadata file. The tables are submitted as tab-delimited text files. 6. Two binary files written in R programming language containing an object readable by the Seurat package. The files contain processed data in the form of read count (i.e. gene expression levels) and also as transformed (normalized and scaled) data and analysis results. The files are in RDS format and can be loaded in R. For more information about the data files, please read the documentation files that accompany this data description. If you would like to submit a request to access data of this dataset, please read the document Readme_before_submission_of_an_access_request. Thu, 20 Nov 2025 07:49:45 GMT https://researchdata.se/en/catalogue/dataset/2025-64 https://researchdata.se/en/catalogue/dataset/2025-64 Umeå University Joshua Cumming Parniyan Maneshi Mitesh Dongre Tala Alsaed Mohammad Javad Dehghan Nayeri Agnes Ling Kristian Pietras Cedric Patthey Daniel Öhlund The cohort consists of 900 individuals with prostate cancer who came to an oncology center in southern Sweden for therapy. The collection of this study started in 2007 and is ongoing. A control group of 1,000 men recruited among accompanying spouses of female cancer patients also belong to this study. The participants have donated blood and answered questions relating to previous medications, height, weight, alcohol consumption, and smoking. Purpose: To study risk factors for prostate cancer Thu, 11 Dec 2014 12:46:35 GMT https://researchdata.se/en/catalogue/dataset/ext0138-1 https://researchdata.se/en/catalogue/dataset/ext0138-1 Lund University Håkan Olsson The samples in the dataset are connected to a study focusing on studying breast cancer intratumoral heterogeneity using spatial transcriptomic data and computational pathology. The dataset contains 14 samples from 3 patients (one triple negative breast cancer and two HER2-positive breast cancer). Multiple regions of the tumor were collected for analysis. Each sample is one tumor region from one of the patients. Libraries for spatial transcriptomics were prepared using Visium spatial gene expression kits (10x genomics). Sequencing was performed using the Illumina NovaSeq 6000 platform at the National Genomics Infrastructure, SciLifeLab in Solna, Sweden. The dataset contains 28 fastq files, compressed with GNUzip (gzip), from paired-end RNA sequencing (10X Visium spatial transcriptomics). The meta data is described in SND_metadata.xlsx file. The md5sum.txt file is provided for validation of data integrity. The total size of the dataset is approximately 300 GB. Mon, 01 Sep 2025 09:42:18 GMT https://researchdata.se/en/catalogue/dataset/2025-97 https://researchdata.se/en/catalogue/dataset/2025-97 Karolinska Institutet Tianyi Li Qiao Yang Balazs Acs Emmanouil G. Sifakis Hosein Toosi Camilla Engblom Kim Thrane Qirong Lin Jeff E. Mold Wenwen Sun Ceren Boyaci Sanna Steen Jonas Frisén Jens Lagergren Joakim Lundeberg Xinsong Chen Johan Hartman This round of Eurobarometer surveys queried respondents on standard Eurobarometer measures such as public awareness of and attitudes toward the European Union (EU), and also focused on cross-border purchases, tobacco smoking habits, and risks of cancer. Respondents were queried about what consumer products they purchased from other member countries, their satisfaction with products purchased from member countries, and any complaints made in connection with cross-border purchases. The respondents were also asked about their attitudes and behavior toward smoking. Questions focused on the type of tobacco products used, the number of cigarettes consumed daily, the desire of smokers to limit their consumption, the attitudes of both smokers and nonsmokers toward the use of tobacco products in public, opinions regarding regulations prohibiting smoking in some public places, feelings about smoke in the workplace, and the advertising of tobacco products. A number of questions dealt with major diseases, the prevention of cancer, conditions causing increased risks of cancer, and knowledge of the ´European Code of Cancer´ (a set of elementary rules, developed by a committee of cancer experts, for the possible prevention of cancer). Demographic and other background information was gathered on the number of people residing in the home, size of locality, household income, and region of residence, as well as the respondent´s age, sex, marital status, age when completed education, occupation, previous occupation, and left-right political self-placement. Wed, 01 Jan 1997 00:00:00 GMT https://researchdata.se/en/catalogue/dataset/snd0507-1 https://researchdata.se/en/catalogue/dataset/snd0507-1 Commission of the European Communities Karlheinz Reif Eric Marlier The participants in this cohort are individuals with breast cancer and metastatic disease coming to the Department of Oncology in Lund for treatment since 2003. The data collection in the study is still ongoing. From all individuals, there is information about the status of the primary tumor, metastatic sites, tumor volume, and treatments. There are also paraffin-embedded tissue from primary tumor saved from all individuals, and for a subset of the cohort also frozen primary tumor tissue saved. There is DNA, plasma and serum saved from all individuals. Purpose: To find tumor markers or tumor cells in the blood from patients with metastatic breast cancer. Data collection was started in 2003 and is ongoing (in 2010 there were over 300 individuals included in the study). Fri, 05 Sep 2014 07:09:52 GMT https://researchdata.se/en/catalogue/dataset/ext0122-1 https://researchdata.se/en/catalogue/dataset/ext0122-1 Region Skåne Håkan Olsson This dataset provides detailed imaging data from various co-culture assays of ovarian cancer and fibroblast cell lines, treated with a wide range of drugs. The structured organization and comprehensive naming conventions allow for easy navigation and analysis of the data. The images are treated with 528 drugs from FIMM Oncology Library to study the drug effect on cancer cell morphology in presence of fibroblasts. The dataset comprises images from 2D coculture high-content screening data in .tiff format. The images were acquired using the Opera Phenix at a 10x magnification. It includes a total of 245,760 raw images (including 4 field of views), each with a resolution of 1080x1080 pixels. For initial analysis, the images were read directly into CellProfiler, a software platform designed for high-throughput image analysis. To facilitate neural network processing, each image was converted into a NumPy array using Python 3 and the Python Imaging Library (PIL). The data set is available for download in five separate ZIP archives, Kuramochi_BjhTERT.zip (93.68 GB), Kuramochi_WI38.zip (93.50 GB), MH_BjhTERT.zip (62.22 GB), OvCar3_BjhTERT.zip (84.98 GB), OvCar8_WI38.zip (91.89 GB). For a description on the file structure, see associated documentation file Dataset_Description.pdf. Thu, 16 Jan 2025 13:14:01 GMT https://researchdata.se/en/catalogue/dataset/2024-175 https://researchdata.se/en/catalogue/dataset/2024-175 Karolinska Institutet Osheen Sharma Brinton Seashore-Ludlow Supplementary information on the dissertation "CAR T cells for Immunotherapy of Cancer", with the following list of sub-papers: 1. Single-cell RNA analysis reveal subpopulations of CAR T cells correlating with response in lymphoma patients 2. Preclinical evaluation of CAR20(NAP)-T cells for B cell lymphoma 3. Complementary-determining region clustering causes CAR-T cell dysfunction 4. Armed CAR-T cells directed against IL13Rα2 show potent activity against glioblastoma Differentially expressed genes between responders and non-responders (Fc -1.2 ≤ or ≤ 1.2). The dataset was originally published in DiVA and moved to SND in 2024. Mon, 28 Feb 2022 00:00:00 GMT https://researchdata.se/en/catalogue/dataset/2024-352 https://researchdata.se/en/catalogue/dataset/2024-352 Uppsala University Tina Sarén