A repository for data regarding membrane channels, receptor and neurotransmitters that are expressed in specific types of cells. The database is presently focused on neurons but will eventually include other cell types, such as glia, muscle, and gland cells. This resource is intended to: * Serve as a repository for data on gene products expressed in different brain regions * Support research on cellular properties in the nervous system * Provide a gateway for entering data into the cannonical neuron forms in NeuronDB * Identify receptors across neuron types to aid in drug development * Serve as a first step toward a functional genomics of nerve cells * Serve as a teaching aid

A Dye-sensitized Solar-Cell Device Database Auto-generated Using ChemDataExtractor

This dataset provides a curated Excel-based database of metamaterial unit cells intended to support the marine energy research community in the design and analysis of innovative marine energy systems. The database compiles geometric and mechanical information for a wide range of unit cell topologies, enabling rapid visual assessment, geometric reconstruction, and systematic classification based on functional behavior. Each entry includes a visual figure, bibliographic reference with DOI, coupling mode, nonlinear or buckling behavior classification, and both demonstrated and potential applications in the context of marine energy.

The dataset also includes detailed data required to reconstruct each unit cell geometry, such as coordinate matrices (nodal coordinates and indices), connectivity matrices (element connections), and schematic skeleton diagrams with node numbering. These data formats are compatible with MATLAB and other finite element preprocessing tools. While the coordinate and connectivity data have been regenerated for consistency, they may not exactly replicate those from the original publications.

Subcellular methods

The subcellular resource of the Human Protein Atlas provides high-resolution insights into the expression and spatiotemporal distribution of proteins encoded by 13603 genes (67% of the human protein-coding genes), as well as predictions for an additional 3459 secreted- or membrane proteins, covering a total of 17062 genes (85% of the human protein-coding genes). For each gene, the subcellular distribution of the protein has been investigated by immunofluorescence (ICC-IF) and confocal microscopy in up to three different standard cell lines, selected from a panel of 42 cell lines used in the subcellular resource. For some genes, the protein has also been stained in up to three ciliated cell lines, induced pluripotent stem cells (iPSCs) and/or in human sperm cells. Upon image analysis, the subcellular localization of the protein has been classified into one or more of 49 different organelles and subcellular structures. In addition, the resource includes an annotation of genes that display single-cell variation in protein expression levels and/or subcellular distribution, as well as an extended analysis of cell cycle dependency of such variations. 

The subcellular resource offers a database for detailed exploration of individual genes and proteins of interest, as well as for systematic analysis of proteomes in a broader context. More information about the content of the resouce, as well as the generation and analysis of the data, can be found in the Methods summary. Learn about:

The subcellular distribution of proteins in standard human cell lines, including ciliated cells and iPSCs. The subcellular distribution of proteins in human sperm. The proteomes of different organelles and subcellular structures. Single-cell variability in the expression levels and/or localizations of proteins.

THIS RESOURCE IS NO LONGER IN SERVICE, documented June 5, 2017. It has been merged with Cell Image Library. Database for sharing and mining cellular and subcellular high resolution 2D, 3D and 4D data from light and electron microscopy, including correlated imaging that makes unique and valuable datasets available to the scientific community for visualization, reuse and reanalysis. Techniques range from wide field mosaics taken with multiphoton microscopy to 3D reconstructions of cellular ultrastructure using electron tomography. Contributions from the community are welcome. The CCDB was designed around the process of reconstruction from 2D micrographs, capturing key steps in the process from experiment to analysis. The CCDB refers to the set of images taken from microscope the as the Microscopy Product. The microscopy product refers to a set of related 2D images taken by light (epifluorescence, transmitted light, confocal or multiphoton) or electron microscopy (conventional or high voltage transmission electron microscopy). These image sets may comprise a tilt series, optical section series, through focus series, serial sections, mosaics, time series or a set of survey sections taken in a single microscopy session that are not related in any systematic way. A given set of data may be more than one product, for example, it is possible for a set of images to be both a mosaic and a tilt series. The Microscopy Product ID serves as the accession number for the CCDB. All microscopy products must belong to a project and be stored along with key specimen preparation details. Each project receives a unique Project ID that groups together related microscopy products. Many of the datasets come from published literature, but publication is not a prerequisite for inclusion in the CCDB. Any datasets that are of high quality and interest to the scientific community can be included in the CCDB.

Perovskite Solar Cell Device Database Auto-generated Using ChemDataExtractor

Database characterizing and comparing pluripotent human stem cells. The growth and culture conditions of all 21 human embryonic stem cell lines approved under the August 2001 Presidential Executive Order have been analyzed. Available to the scientific community are the results of our rigorous characterization of these cell lines at a more advanced level.

Database of neuronal cell types based on multimodal characterization of single cells to enable data-driven approaches to classification. It includes data such as electrophysiology recordings, imaging data, morphological reconstructions, and RNA and DNA sequencing data.

hPSCreg is a global registry of human pluripotent stem cell (hPSC) lines containing manually validated information, including ethical provenance, procurement, derivation process, genetic and expression data, other biological and molecular characteristics, use, and quality of the line — Current status: 1119 hESC lines, 7521 hiPSC lines, and 205 clinical studies, and 2401 certificates

The SUM human breast cancer cell lines have been used by many labs around the world to develop extensive data sets derived from comparative genomic hybridization analysis, gene expression profiling, whole exome sequencing, and reverse phase protein array analysis. In a previous study, the authors of this paper performed genome-scale shRNA essentiality screens on the entire SUM line panel, as well as on MCF10A cells, MCF-7 cells, and MCF-7LTED cells. In this study, the authors have developed the SUM Breast Cancer Cell Line Knowledge Base, to make all of these omics data sets available to users of the SUM lines, and to allow users to mine the data and analyse them with respect to biological pathways enriched by the data in each cell line.Data access: All the datasets supporting the findings of this study are publicly available in the SLKBase platform here: https://sumlineknowledgebase.com/. RPPA data, drug sensitivity data, apelisib response data, and data on dose response, are also part of this figshare data record (https://doi.org/10.6084/m9.figshare.12497630).Study aims and methodology: This web-based knowledge base provides users with data and information on the derivation of each of the cell lines, provides narrative summaries of the genomics and cell biology of each breast cancer cell line, and provides protocols for the proper maintenance of the cells. The database includes a series of data mining tools that allow rapid identification of the functional oncogene signatures for each line, the enrichment of any KEGG pathway with screen hit and gene expression data for each of the lines, and a rapid analysis of protein and phospho-protein expression for the cell lines. A gene search tool that returns all of the functional genome and functional druggable data for any gene for the entire cell line panel, is included. Additionally, the authors have expanded the database to include functional genomic data for an additional 29 commonly used breast cancer cell lines. The three overarching goals in the original development of the SLKBase are: 1) to provide a rich source of information for anyone working with any of the SUM breast cancer cell lines, 2) to give researchers ready access to the large genomic data sets that have been developed with these cells, and 3) to allow researchers to perform orthogonal analyses of the various genomics data sets that we and others have obtained from the SUM lines. For more information on the development and contents of the database, please read the related article.Datasets supporting the paper:The data mining tools accessed the following datasets to generate the figures and tables, and these datasets are downloadable from the Data Download centre on the SLKBase: Exome sequencing data: SLKBase.exome_.seq_.sum_.xlsxGene amplification and expression data for the SUM cell lines: SUM44amplificationdata.xlsSUM52.xlsSUM149.xlsSUM159.xlsSUM185.xlsSUM190.xlsSUM225.xlsSUM229.xlsSUM1315.xlsCellecta shRNA screen data for the SUM cell lines:SUM44Celectadata.csvSUM52Cellectadata.csvSUM102Cellectadata.csvSUM149Cellectadata.csvSUM159Cellectadata.csvSUM185Cellectadata.csvSUM190Cellectadata.csvSUM225Cellectadata.csvSUM229Cellectadata.csvSUM1315hits.hit.csvMCF10A.hits_.csvBreast cancer cell line data included in this data record (these datasets were used to generate figures 1, 2 and 7 in the article):Proteomics data from the Reverse Phase Protein Array (RPPA) assay analysis: Ethier.SUMline.RPPA.xlsxDrug sensitivity data: NAVITOCLAX.drugsensitivity.Zscores.xlsxApelisib response data: Apelisib all lines (2).xlsxDose response data: 092614 Dose Response CP 52s.11.15.xlsxAll the files are either in .xlsx or .csv file format.

48378 Global import shipment records of Lithium Ion Cell with prices, volume & current Buyer's suppliers relationships based on actual Global export trade database.

The C4 DatabaseThis is the official repository for the hdf5 datasets of the cerebellar cell-type classification collaboration (C4), published as a companion to the paper "A deep-learning strategy to identify cell types across species from high-density extracellular recordings" published in Cell (https://doi.org/10.1016/j.cell.2025.01.041).Instructions to use the cell-type classifier, links to download these datasets, and a data explorer can be found at https://www.c4-database.com.The specifications of the fields, data types and data formats stored in the hdf5 binary files can be found at https://www.tinyurl.com/c4database. Hdf5 files can be easily opened with Python, MATLAB and many other programming languages.Using and Citing the C4 DatabaseThe data and visualizations on this website are intended to be freely available for use by the scientific community. The C4 dataset is licensed under the Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International License, while our classifier is licensed under the GNU General Public License v3.0 as part of NeuroPyxels. If you download and use our data for a publication, and/or if you would like to refer to the database, please cite Beau et al., 2025, Cell together with the NeuroPyxels repository (Beau et al., 2021, Zenodo), and include the link to the C4 online portal https://www.c4-database.com in your methods section. Thank you!

The US Cell Phone Database: Consumer & Business Contacts is AmeriList’s premier mobile-first dataset, built for marketers, agencies, and enterprises that demand accurate, compliant, and scalable U.S. cell phone data. Covering millions of verified consumer and business mobile numbers, and refreshed weekly for accuracy, this file is one of the most reliable and frequently updated cell phone databases available today.

Why Choose This Database? Today’s marketing success depends on reaching your audience where they are, and that’s on their mobile devices. With this dataset, you gain:

• Nationwide coverage of U.S. consumer and business cell phone contacts.
• Verified mobile numbers that can be DNC-scrubbed to support compliance and responsible outreach.
• Multi-channel readiness with delivery via CSV, API, SFTP, or cloud integrations (AWS, GCP, Azure).

Key Features: - Millions of verified consumer and business mobile phone numbers. - Weekly update cycle to maintain accuracy and compliance.

Schema Preview: First_Name, Last_Name, Phone_Number, DNC_Flag

Use Cases This dataset powers a wide range of mobile-first and cross-channel marketing strategies:

• SMS Campaigns: Deliver time-sensitive promotions and personalized offers.
• Outbound Calling: Connect directly with decision-makers and consumers.
• Mobile-First Advertising: Enhance digital campaigns with compliant mobile targeting.

Industries That Benefit - Retail & E-commerce: Deliver SMS promotions, loyalty program updates, and flash sale alerts. - Healthcare: Share wellness updates, insurance enrollment opportunities, and educational campaigns. - Financial Services & Insurance: Connect with prospects for loan offers, credit card promotions, or new insurance plans. - Real Estate & Home Services: Reach potential buyers, renters, and homeowners with property alerts and service offers.

Why AmeriList? For over 20 years, AmeriList has been a trusted leader in direct marketing data solutions. Our expertise in consumer and business contact databases ensures not only the accuracy of the phone numbers we provide, but also the compliance and strategic value they deliver. With a strong focus on TCPA and CAN-SPAM regulations, data quality, and ROI, AmeriList empowers brands and agencies to unlock the full potential of mobile-first marketing campaigns.

HeLa and SiHa

Remark: for cell cycle analysis - see paper https://arxiv.org/abs/2208.05229 "Computational challenges of cell cycle analysis using single cell transcriptomics" Alexander Chervov, Andrei Zinovyev

Data and Context

Data - results of single cell RNA sequencing, i.e. rows - correspond to cells, columns to genes (or vice versa). value of the matrix shows how strong is "expression" of the corresponding gene in the corresponding cell. https://en.wikipedia.org/wiki/Single-cell_transcriptomics

Particular data: From the paper: A single-cell analysis of breast cancer cell lines to study tumour heterogeneity and drug response https://www.nature.com/articles/s41467-022-29358-6 G. Gambardella, G. Viscido, B. Tumaini, A. Isacchi, R. Bosotti & D. di Bernardo Nature Communications volume 13, Article number: 1714 (2022)

Data taken from: https://figshare.com/articles/dataset/Single_Cell_Breast_Cancer_cell-line_Atlas/15022698 see also GEO: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE173634 Github: https://github.com/dibbelab/gficf

Inspiration

Single cell RNA sequencing is important technology in modern biology, see e.g. "Eleven grand challenges in single-cell data science" https://genomebiology.biomedcentral.com/articles/10.1186/s13059-020-1926-6

Also see review : Nature. P. Kharchenko: "The triumphs and limitations of computational methods for scRNA-seq" https://www.nature.com/articles/s41592-021-01171-x

Search scholar.google "challenges in single cell rna sequencing" https://scholar.google.fr/scholar?q=challenges+in+single+cell+rna+sequencing&hl=en&as_sdt=0&as_vis=1&oi=scholart gives many interesting and highly cited articles

(Cited 968) Computational and analytical challenges in single-cell transcriptomics Oliver Stegle, Sarah A. Teichmann, John C. Marioni Nat. Rev. Genet., 16 (3) (2015), pp. 133-145 https://www.nature.com/articles/nrg3833

Challenges in unsupervised clustering of single-cell RNA-seq data https://www.nature.com/articles/s41576-018-0088-9 Review Article Published: 07 January 2019 Vladimir Yu Kiselev, Tallulah S. Andrews & Martin Hemberg Nature Reviews Genetics volume 20, pages273–282 (2019)

Challenges and emerging directions in single-cell analysis https://link.springer.com/article/10.1186/s13059-017-1218-y Published: 08 May 2017 Guo-Cheng Yuan, Long Cai, Michael Elowitz, Tariq Enver, Guoping Fan, Guoji Guo, Rafael Irizarry, Peter Kharchenko, Junhyong Kim, Stuart Orkin, John Quackenbush, Assieh Saadatpour, Timm Schroeder, Ramesh Shivdasani & Itay Tirosh Genome Biology volume 18, Article number: 84 (2017)

Single-Cell RNA Sequencing in Cancer: Lessons Learned and Emerging Challenges https://www.sciencedirect.com/science/article/pii/S1097276519303569 Molecular Cell Volume 75, Issue 1, 11 July 2019, Pages 7-12 Journal home page for Molecular Cell

All of the datasets and the below description are quoted from Project - Data-driven prediction of battery cycle life before capacity degradation.

Objective

This dataset, used in our publication “Data-driven prediction of battery cycle life before capacity degradation”, consists of 124 commercial lithium-ion batteries cycled to failure under fast-charging conditions. These lithium-ion phosphate (LFP)/graphite cells, manufactured by A123 Systems (APR18650M1A), were cycled in horizontal cylindrical fixtures on a 48-channel Arbin LBT potentiostat in a forced convection temperature chamber set to 30°C. The cells have a nominal capacity of 1.1 Ah and a nominal voltage of 3.3 V.

The objective of this work is to optimize fast charging for lithium-ion batteries. As such, all cells in this dataset are charged with a one-step or two-step fast-charging policy. This policy has the format “C1(Q1)-C2”, in which C1 and C2 are the first and second constant-current steps, respectively, and Q1 is the state-of-charge (SOC, %) at which the currents switch. The second current step ends at 80% SOC, after which the cells charge at 1C CC-CV. The upper and lower cutoff potentials are 3.6 V and 2.0 V, respectively, which are consistent with the manufacturer’s specifications. These cutoff potentials are fixed for all current steps, including fast charging; after some cycling, the cells may hit the upper cutoff potential during fast charging, leading to significant constant-voltage charging. All cells discharge at 4C.

The dataset is divided into three “batches”, representing approximately 48 cells each. Each batch is defined by a “batch date”, or the date the tests were started. Each batch has a few irregularities, as detailed on the page for each batch.

The data is provided in two formats. For each batch, a MATLAB struct is available. The struct provides a convenient data container in which the data for each cycle is easily accessible. This struct can be loaded in either MATLAB or python (via the h5py package). Pandas dataframes can be generated via the provided code. Additionally, the raw data for each cell is available as a CSV file. Note that the CSV files occasionally exhibit errors in both test time and step time in which the test time resets to zero mid-cycle; these errors are corrected for in the structs.

The temperature measurements are performed by attaching a Type T thermocouple with thermal epoxy (OMEGATHERM 201) and Kapton tape to the exposed cell can after stripping a small section of the plastic insulation. Note that the temperature measurements are not perfectly reliable; the thermal contact between the thermocouple and the cell can may vary substantially, and the thermocouple sometimes loses contact during cycling.

Internal resistance measurements were obtained during charging at 80% SOC by averaging 10 pulses of ±3.6C with a pulse width of 30 ms (2017-05-12 and 2017-06-30) or 33 ms (2018-04-12).

The following repository contains some starter code to load the datasets in either MATLAB or python:

https://github.com/rdbraatz/data-driven-prediction-of-battery-cycle-life-before-capacity-degradation

Low rate data used to generate figure 4:

• 2018-02-20_batchdata_updated_struct_errorcorrect.mat
• 2018-04-03_varcharge_batchdata_updated_struct_errorcorrect.mat

If using this dataset in a publication, please cite: Severson et al. Data-driven prediction of battery cycle life before capacity degradation. Nature Energy volume 4, pages 383–391 (2019).

**Batch - 2017-05-12**
Experimental design
- All cells were cycled with one-step or two-step charging policies. The charging time varies from ~8 to 13.3 minutes (0-80% SOC). There are generally two cells tested per policy, with the exception of 3.6C(80%).
- 1 minute and 1 second rests were placed after reaching 80% SOC during charging and after discharging, respectively.
-We cycle to 80% of nominal capacity (0.88 Ah).
- An initial C/10 cycle was performed in the beginning of each test.
- The cutoff currents for the constant-voltage steps were C/50 for both charge and discharge.
- The pulse width of the IR test is 30 ms.

Experimental notes
- The computer automatically restarted twice. As such, there are some time gaps in the data.
- The temperature control is somewhat inconsistent, leading to variability in the baseline chamber temperature.
- The tests in channels 4 and 8 did not successfully start and thus do not have data.
- The thermocouples for channels 15 and 16 were accidentally switched.

Data notes
- Cycle 1 data is not available in the struct. The sampling rate for this cycle was initially too high, so we excluded it from the data set to create more manageable file sizes.
- The cells in Channels 1, 2, 3, 5, and 6 (3.6C(80%) and 4C(80%) policies) were stopped at the end of this batch and resume...

As a first step towards building models that can recognise immune cells in WSIs, we introduce Immunocto, a high-resolution (40 x magnification) massive database of 2,282,818 immune cells distributed across 4 immune cell subtypes (CD4 T-cells, CD8+ T-cells, B-cells, and macrophages). To our knowledge, Immunocto is the largest available dataset of immune cells extracted from H\&E WSIs by an order of magnitude. All models trained with this database can be tried at www.octopath.ai

Additional file 2: Supplementary Table 2–3. This file contains the list of cell markers in each of scTyper.db (Table S2) and CellMarker DB (Table S3) and detailed information such as identifier, study name, species, cell type, gene symbol, and PMID.

Single-cell RNA-seq studies profile thousands of cells in developmental processes. Current databases for human single-cell expression atlas only provide search and visualize functions for a selected gene in specific cell types or subpopulations. These databases are limited to technical properties or visualization of single-cell RNA-seq data without considering the biological relations of their collected cell groups. Here, we developed a database to investigate single-cell gene expression profiling during different developmental pathways (SCDevDB). In this database, we collected 10 human single-cell RNA-seq datasets, split these datasets into 176 developmental cell groups, and constructed 24 different developmental pathways. SCDevDB allows users to search the expression profiles of the interested genes across different developmental pathways. It also provides lists of differentially expressed genes during each developmental pathway, T-distributed stochastic neighbor embedding maps showing the relationships between developmental stages based on these differentially expressed genes, Gene Ontology, and Kyoto Encyclopedia of Genes and Genomes analysis results of these differentially expressed genes. This database is freely available at https://scdevdb.deepomics.org.