Dikshant Pradhan
Researcher at BioMIcro Center, Data Management and Analysis Core; Massachusetts Institute of Technology
SEEK ID: https://fairdomhub.org/people/1420
Location:
United States
ORCID: Not specified
Joined: 10th Sep 2019
Expertise: Not specified
Tools: Not specified
Roles
Programme administrator
Their tagsRelated items
Projects: MIT SRP, Hi-IMPAcTB, MetNet, Endometriosis, Cancer Systems Biology Consortium (CSBC), Shoulders Lab, NExtSEEK Independent Projects
Web page: https://nextseek.mit.edu/
Projects: Not specified
Web page: https://www.niaid.nih.gov/research/immune-mechanisms-protection-mycobacterium-tuberculosis
About
This project houses all the publicly available datasets generated by the Hi-IMPAcTB consortium over the course of its 7+ years.
What is Hi-IMPAcTB?
Hi-IMPAcTB is an ambitious endeavor bringing together a team of international, interdisciplinary researchers to improve our understanding of host-pathogen interactions in the context of tuberculosis (TB). Funded by a multi-center contract from the NIH, the long-term goal of the consortium is to enable principled vaccine design by improving ...
Programme: NExtSEEK
Public web page: https://grantome.com/grant/NIH/75N93019C00071-0-9999-1
The MIT Superfund Research Program was created in 2017 to be responsive to communities who live near Superfund Sites. In particular, the MIT team leverages scientific research, community engagement, and educational experiences to support people who are concerned about hazardous chemicals in their environment.
Carcinogenic contaminants threaten the health of people living in the Mystic River Watershed (near the Olin, Industriplex, and Wells G&H Superfund sites) and members of Native American ...
Programme: NExtSEEK
Public web page: Not specified
ROR ID: Not specified
Department: Not specified
Country: United States
City: Not specified
Web page: Not specified
Submitter: Dikshant Pradhan
Studies: Age and sex influence antibody profiles associated with tuberculosis pro..., Antibody-Fab and -Fc features promote Mycobacterium tuberculosis restric..., BCG vaccination elicits protection against Mtb infection mediated by two..., BCG vaccination induces antibacterial effector functions among Vδ1/3 T c..., CD4+ T cells re-wire granuloma cellularity and regulatory networks to pr..., CD8+ lymphocytes are critical for early control of tuberculosis in macaques, Comparable Non-canonical T cell responses are associated with protection..., Fc-engineered antibodies promote neutrophil-dependent control of Mycobac..., Fc-engineered monoclonal antibodies drive antibody-dependent enhancement..., Fc-engineered monoclonal antibodies drive antibody-dependent enhancement..., High-dose intravenous BCG vaccination induces enhanced immune signaling ..., Humoral correlates of protection against Mycobacterium tuberculosis foll..., IFN-γ- GranzymeB + Natural killer cells are induced by IV BCG vaccinatio..., Immune cells in bronchoalveolar lavage fluid of Ugandan adults who resis..., Intravenous BCG-mediated protection against tuberculosis requires CD4+ T..., Mike Chao Barcoding Placeholder, Multi-modal data integration using Markov Field graphical networks predi..., Multimodal profiling of lung granulomas in macaques reveals cellular cor..., Protection against reinfection with Mycobacterium tuberculosis extends a..., Robust IgM responses following intravenous vaccination with Bacille Calm..., Soloman placeholder, Specific CD4+ T cell phenotypes associate with bacterial control in peop..., Systematic deconstruction of myeloid cell signaling in tuberculosis gran..., Systems-level computational translation of mouse and human transcriptomi...
Assays: ADCD Analysis - Data Linked, ADFP Analysis - Data Linked, All Metadata, All Metadata, All Metadata, All Metadata, All Metadata, All Metadata, All Metadata, All Metadata, All Metadata, All Metadata, All Metadata, All Metadata, Anti-Microbial Assay – Metadata, Antibody Challenge - Metadata, Antibody Dependent Complement Deposition - Data Linked, Antibody Dependent Functional Profiling - Data Linked, Antibody Titer - Data Linked, Antibody Titer Analysis - Data Linked, Antibody-Dependent Cellular Phagocytosis - Data Linked, Antibody-Dependent Cellular Phagocytosis - Data Linked, Antibody-Dependent Cellular Phagocytosis Analysis - Data Linked, Antibody-Dependent NK Cell Activation - Data Linked, Antibody-Dependent NK Cell Activation Analysis - Data Linked, Antibody-Dependent Neutrophil Phagocytosis - Data Linked, Antibody-Dependent Neutrophil Phagocytosis - Data Linked, Antibody-Dependent Neutrophil Phagocytosis Analysis - Data Linked, Antibody-dependent Cellular Phagocytosis - Data Linked, Antibody-dependent Complement Deposition - Data Linked, Antibody-dependent NK Cell Activation - Data Linked, Antibody-dependent Neutrophil Phagocytosis - Data Linked, Bacterial Challenge - Metadata, Bacterial Extraction - Metadata, Bacterial Extraction - Metadata, Bacterial Extraction - Metadata, Bacterial Extraction - Metadata, Bacterial Survivability Restriction Assay - Data Linked, Bacterial Survivability Restriction Assay - Data Linked, Bacterial Survivability Restriction Assay: Validation Data - Data Attached, CITESEQ Analysis - Data Linked, Cell Extraction - Metadata, Cell Extraction: Validation Data - Metadata, Cell Isolation - Metadata, Cell Isolation - Metadata, Cell Sorting – Data Linked, DNA Extraction - Metadata, Digitally Barcoded Mtb Matrix Analysis - Data Attached, Digitally Barcoded Mtb Matrix Analysis - Data Attached, Digitally Barcoded Mtb Matrix Analysis - Data Attached, Digitally Barcoded Mtb Matrix Analysis - Data Linked, ELISA - Data Linked, ELISA Assay - Data Linked, FC Receptor Binding - Data Linked, FC Receptor Binding Analysis - Data Linked, FC Receptor Binding Assay - Data Linked, FC-Receptor Binding Assay - Data Linked, FCS Analysis - Data Linked, Flow Cytometry - Data Linked, Flow Cytometry - Data Linked, Flow Cytometry - Data Linked, Flow Cytometry - Data Linked, Flow Cytometry - Data Linked, Flow Cytometry - Data Linked, Flow Cytometry - Data Linked, Flow Cytometry - Data Linked, Flow Cytometry - Data Linked, Flow Cytometry - Data Linked, Flow Cytometry Analysis - Data Attached, Flow Cytometry Analysis - Data Linked, Flow Cytometry Analysis - Data Linked, Flow Cytometry Analysis - Data Linked, Flow Cytometry Analysis - Data Linked, Flow Cytometry Analysis - Data Linked, Flow Cytometry Analysis - Data Linked, Flow Cytometry Analysis - Data Linked, Flow Cytometry Analysis - Data Linked, Flow Cytometry Processing – Data Attached, Flow Cytometry – Data Linked, Functional Assay – Metadata, Gene Expression Analysis - Data Linked, Gene Expression Analysis: Training Data - Data Linked, Gene Expression Analysis: Validation Data - Data Linked, Glycosylation Assay - Data Linked, Histology - Data Linked, Immunohistochemistry - Data Linked, Immunohistochemistry - Data Linked, Immunohistochemistry – Data Linked, Library Creation - Metadata, Library Creation - Metadata, Library Creation - Metadata, Library Creation – Metadata, Library Prep - Metadata, Library Prep - Metadata, Library Prep - Metadata, Library Prep - Metadata, Library Prep - Metadata, Library Prep: Training Data - Metadata, Library Prep: Validation Data - Metadata, Linear Mixed Model - Data Linked, Luminex - Data Linked, Luminex Assay – Metadata, Luminex Data Processing – Data Attached, Mass Cytometry - Data Linked, Mass Cytometry - Data Linked, Mass Cytometry Analysis - Data Linked, Model Validation, Model Validation - Data Linked, Mouse Challenge – Metadata, NHP Necropsy – Metadata, NHP Tissue Collection – Metadata, PCR: Validation Data - Data Attached, PET-CT Scan - Data Linked, PET-CT Scan - Data Linked, PET-CT Scan - Data Linked, PET-CT Scan Analysis – Data Linked, PET-CT Scan – Data Linked, PET/CT Scan - Data Linked, PET/CT Scan - Data Linked, Pathogen Challenge and Antibody Depletion - Metadata, Patient Visit - Metadata, Patient Visit - Metadata, Patient Visit - Metadata, Patient Visit - Metadata, Patient Visit - Metadata, Patient Visit - Metadata, Patient Visit - Metadata, Patient Visit - Metadata, Patient Visit - Metadata, Patient Visit - Metadata, Patient Visit - Metadata, Patient Visit - Metadata, Patient Visit - Metadata, Patient Visit – Metadata, Patient Visit – Metadata, RNA Extraction: Validation Data - Metadata, Short Read Sequencing - Data Linked, Short Read Sequencing - Data Linked, Short Read Sequencing - Data Linked, Short Read Sequencing - Data Linked, Short Read Sequencing - Data Linked, Short Read Sequencing - Data Linked, Short Read Sequencing - Data Linked, Short Read Sequencing - Data Linked, Short Read Sequencing - Data Linked, Short Read Sequencing: Training Data - Data Linked, Short Read Sequencing: Validation Data - Data Linked, Single Cell Clustering - Data Linked, Single Cell Clustering Analysis - Data Linked, Single Cell Clustering Analysis – Data Linked, Single Cell Expression Analysis - Data Linked, Single Cell Expression Analysis - Data Linked, Single Cell Expression Analysis - Data Linked, Single Cell Expression Analysis - Data Linked, Single Cell Expression Analysis - Data Linked, Single Cell Expression Analysis - Data Linked, Single Cell Expression Analysis - Data Linked, Single Cell Expression Matrix Analysis – Data Linked, Single Cell Sequencing – Data Linked, Tissue Collection - Metadata, Tissue Collection - Metadata, Tissue Collection - Metadata, Tissue Collection - Metadata, Tissue Collection - Metadata, Tissue Collection - Metadata, Tissue Collection - Metadata, Tissue Collection - Metadata, Tissue Collection - Metadata, Tissue Collection - Metadata, Tissue Collection - Metadata, Tissue Collection - Metadata, Tissue Collection - Metadata, Tissue Collection - Metadata, Tissue Collection – Metadata, Tissue Collection: Training Data - Metadata, Tissue Extraction - Metadata, Titer Assay - Data Linked, Titer Assay - Data Linked, Titer Assay Analysis - Data Linked, TransCompR Cross Species Modeling - Data Linked, Western Blot - Data Linked
Submitter: Dikshant Pradhan
Studies: Benthic fluxes of fluorescent dissolved organic material, salt and heat ..., Colorimetric Detection of Aqueous N-Nitrosodimethylamine via Photonitros..., CometChip Enables Parallel Analysis of Multiple DNA Repair Activities, DNA adduct and mutational profiles reveal the saturation point of cellul..., Early life exposure to N-nitrosamine drives genotoxicity, mutagenesis, a..., Excision of mutagenic replication-blocking lesions suppresses cancer but..., Interaction of N-Nitroamines with Bincuelar Copper Complexs for Luminsec..., Low-level N-nitrosamine occurrence in disinfected drinking water and rel..., Molecular origins of mutational spectra produced by the environmental ca..., Novel In Vivo CometChip Reveals NDMA-Induced DNA Damage and Repair in Mu..., Optical Detection of Interleukin-6 using Liquid Janus Emulsions using Hy..., Partitioning parameters of N-nitrosamines: An intercomparison of determi..., Persistent interferon signaling and clonal expansion mark early events i..., Reversible Electrochemical Sensor for NDMA: Leveraging Molecularly Impri...
Assays: Absorption and Emission Spectroscopy - Data Linked, Absorption and Emission Spectroscopy Analysis - Data Linked, Agglutination Assay - Data Linked, All Metadata, All Metadata, All Metadata, All Metadata, All Metadata, All Metadata, All Metadata, Atomic Force Microscopy - Data Linked, Chemical Challenge - Metadata, Chemical Challenge - Metadata, Chemical Simulations - Data Linked, Chemical Simulations - Data Linked, Chemical Synthesis - Metadata, Chemical Synthesis - Metadata, Chemical Synthesis - Metadata, Chemical Synthesis - Metadata, Comet Chip - Data Linked, Comet Chip Analysis - Data Attached, Comet Chip Analysis - Data Attached, Crystallography - Data Linked, DNA Adduct Analysis - Data Linked, DNA Extraction - Metadata, DNA Extraction - Metadata, ELISA - Data Linked, Electrochemical Sensor Testing - Data Linked, Electron Paramagnetic Resonance - Data Linked, Experimental Physiochemical Measurement - Data Linked, Experimental Physiochemical Measurement Analysis - Data Linked, Extraction and Library Creation - Metadata, Field Water Sensor Run, Flow Cytometry - Data Linked, Flow Cytometry Analysis - Data Linked, Fourier Transform Infrared Spectroscopy - Data Linked, GPT Assay - Data Attached, GPT Assay - Data Linked, GPT Assay - Data Linked, GPT Assay – Data Attached, Gel Permeation Chromatography - Data Linked, Gene Expression Analysis - Data Linked, Genome Alignment - Data Linked, Genome Alignment - Data Linked, High Resolution Mass Spectra - Data Linked, High Resolution Mass Spectra Analysis - Data Linked, Illumina Sequencing - Data Linked, Imaging - Data Linked, Imaging - Data Linked, Imaging Analysis - Data Linked, Imaging Analysis - Data Linked, Library Creation - Metadata, Library Prep - Metadata, Library Prep - Metadata, Mass Spectrometry - Data Linked, Mass Spectrometry - Data Linked, Mass Spectrometry - Data Linked, Mass Spectrometry Analysis - Data Linked, Mass Spectrometry Processing – Data Linked, Mass Spectrometry – Data Linked, Mouse Challenge - Metadata, Mouse Necropsy – Metadata, Mutational Spectra Analysis - Data Linked, Mutational Spectra Analysis - Data Linked, Mutational Spectral Analysis - Data Attached, Necropsy - Metadata, Nuclear Magnetic Resonance - Data Linked, Nuclear Magnetic Resonance Analysis - Data Linked, Nuclear Magnetic Resonance Spectroscopy - Data Linked, Nuclear Magnetic Resonance Spectroscopy - Data Linked, Nuclear Magnetic Resonance Spectroscopy Analysis - Data Linked, Nuclear Magnetic Resonance Spectroscopy Analysis - Data Linked, PCR - Data Linked, Pendant Drop Tensiometry - Data Linked, Phosphoproteomics Analysis - Data Linked, Predictive Modeling - Data Linked, Protein Extraction - Metadata, RNA Extraction - Metadata, RNA Isolation - Metadata, RaDR - Data Linked, RaDR Image Machine Learning Analysis – Data Attached, Sample Collection - Metadata, Sensor Creation - Metadata, Short Read Sequencing - Data Linked, Short Read Sequencing - Data Linked, Short Read Sequencing - Data Linked, Single-crystal X-ray Crystallography - Data Linked, Solid Phase Extraction - Metadata, Spatial Transcriptomics - Data Linked, Spatial Transcriptomics Analysis - Data Linked, Tissue Collection - Metadata, Tissue Collection - Metadata, Tissue Collection - Metadata, Tissue Collection - Metadata, Tissue Imaging - Data Linked, Tissue Imaging – Metadata, Tissue Lysis – Metadata, Tissue Sectioning - Metadata, UV-Vis Spectroscopy - Data Linked, UV-Vis Spectroscopy Analysis - Data Linked, Water Quality Detection - Data Linked, Western Blot - Data Linked, Western Blot - Data Linked, Western Blot Analysis - Data Linked, Western Blot Analysis - Data Linked, X-ray Photoelectron Spectroscopy - Data Linked
Patricia S. Grace, Joshua M. Peters, Jaimie Sixsmith, Richard Lu, Corinne Luedeman, Brooke A. Fenderson, Andrew Vickers, Matthew D. Slein, Edward B. Irvine, Tanya McKitrick, Mo-Hui Wei, Richard D. Cummings, Aaron Wallace, Lisa A. Cavacini, Alok Choudhary, Megan K. Proulx, Christopher Sundling, Gunilla Källenius, Rajko Reljic, Joel D. Ernst, Arturo Casadevall, Camille Locht, Abraham Pinter, Christopher M. Sasseti, Bryan D. Bryson, Sarah M. Fortune, Galit Alter
...
Submitter: Dikshant Pradhan
Investigation: IMPAcTB
Assays: ADCD Analysis - Data Linked, ADFP Analysis - Data Linked, All Metadata, Antibody Dependent Complement Deposition - Data Linked, Antibody Dependent Functional Profiling - Data Linked, Bacterial Survivability Restriction Assay - Data Linked, Cell Extraction - Metadata, Cell Sorting – Data Linked, ELISA Assay - Data Linked, FC-Receptor Binding Assay - Data Linked, Flow Cytometry - Data Linked, Flow Cytometry Analysis - Data Linked, Mouse Challenge – Metadata, Short Read Sequencing - Data Linked, Single Cell Clustering - Data Linked, Single Cell Expression Analysis - Data Linked, Tissue Collection – Metadata, Western Blot - Data Linked
Hannah P.Gideon, Travis K.Hughes, Constantine N.Tzouanas, Marc H.WadsworthII, Ang AndyTu, Todd M.Gierahn, Joshua M.Peters, Forrest F.Hopkins, Jun-RongWei, Conner Kummerlowe, Nicole L.Grant, Kievershen Nargan, Jia YaoPhuah, H. JacobBorish, Pauline Maiello, Alexander G.White, Caylin G.Winchell, Sarah K.Nyquist, Sharie Keanne C.Ganchua, Amy Myers, Kush V.Patel, Cassaundra L.Ameel, Catherine T.Cochran, Samira Ibrahim, Jaime A.Tomko, Lonnie JamesFrye, Jacob ...
Submitter: Dikshant Pradhan
Investigation: IMPAcTB
Assays: Immunohistochemistry – Data Linked, Library Creation – Metadata, NHP Necropsy – Metadata, PET-CT Scan Analysis – Data Linked, PET-CT Scan – Data Linked, Patient Visit – Metadata, Single Cell Clustering Analysis – Data Linked, Single Cell Expression Matrix Analysis – Data Linked, Single Cell Sequencing – Data Linked
Jennifer E. Kay, Joshua J. Corrigan, Amanda L. Armijo, Ilana S. Nazari, Ishwar N. Kohale, Dorothea K. Torous, Svetlana L. Avlasevich, Robert G. Croy, Dushan N. Wadduwage, Sebastian E. Carrasco, Stephen D. Dertinger, Forest M. White, John M. Essigmann, Leona D. Samson, Bevin P. Engelward
doi: https://doi.org/10.1101/2021.01.12.426356
Link to all of the Imaging done in this study: https://omero.mit.edu/webclient/?show=project-153 ...
Thiel BA, Worodria W, Nalukwago S, Nsereko M, Sanyu I, Rejani L, Zawedde J, Canaday DH, Stein CM, Chervenak KA, Malone LL, Kiyemba R, Silver RF, Johnson JL, Mayanja-Kizza H, Boom WH. Immune cells in bronchoalveolar lavage fluid of Ugandan adults who resist versus those who develop latent Mycobacterium tuberculosis infection. PLoS One. 2021 Apr 9;16(4):e0249477. doi: 10.1371/journal.pone.0249477. PMID: 33836031; PMCID: PMC8034721.
Abstract: ...
Submitter: Dikshant Pradhan
Investigation: IMPAcTB
Assays: Flow Cytometry Processing – Data Attached, Flow Cytometry – Data Linked, Patient Visit – Metadata, Tissue Collection - Metadata
Development of an effective tuberculosis (TB) vaccine has suffered from an incomplete understanding of the correlates of protection against Mycobacterium tuberculosis (Mtb). Intravenous (i.v.) vaccination with Bacille Calmette–Guérin (BCG) provides nearly complete protection against TB in rhesus macaques, but the antibody response it elicits remains incompletely defined. Here we show that i.v. BCG drives superior antibody responses in the plasma and the lungs of rhesus macaques compared to ...
Submitter: Dikshant Pradhan
Investigation: IMPAcTB
Assays: Anti-Microbial Assay – Metadata, Functional Assay – Metadata, Luminex Assay – Metadata, Luminex Data Processing – Data Attached, NHP Tissue Collection – Metadata
Submitter: Dikshant Pradhan
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: MIT SRP
Submitter: Dikshant Pradhan
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: MIT SRP
Submitter: Dikshant Pradhan
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: MIT SRP
Submitter: Dikshant Pradhan
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: MIT SRP
Submitter: Dikshant Pradhan
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: MIT SRP
Submitter: Dikshant Pradhan
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: MIT SRP
Submitter: Dikshant Pradhan
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: MIT SRP
Submitter: Dikshant Pradhan
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: IMPAcTB
Submitter: Dikshant Pradhan
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: IMPAcTB
Submitter: Dikshant Pradhan
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: IMPAcTB
Submitter: Dikshant Pradhan
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: IMPAcTB
Submitter: Dikshant Pradhan
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: IMPAcTB
This assay captures administrative and clinical metadata associated with patient study visits, serving as a structured data collection framework rather than a biological measurement assay. It records visit-level contextual information such as visit dates, timepoints, subject identifiers, clinical site details, and protocol-relevant annotations that are essential for linking experimental samples and assay results to their proper clinical context. This metadata layer ensures traceability and data ...
Submitter: Dikshant Pradhan
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: IMPAcTB
A mouse challenge assay introduces a defined treatment, infection, or condition to experimental mice. It assesses physiological, immunological, or pathological responses to controlled exposures. Input: Experimental mouse model Output: Treated or exposed mouse sample for downstream analysis.
Submitter: Dikshant Pradhan
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: IMPAcTB
This assay captures metadata associated with tissue collection procedures, documenting critical provenance and contextual information for biological specimens obtained from study subjects. It records standardized parameters such as tissue type, anatomical source, collection method, preservation conditions, and relevant donor or sample identifiers to ensure traceability and reproducibility across downstream experimental workflows. This metadata serves as a foundational record linking collected ...
Submitter: Dikshant Pradhan
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: IMPAcTB
Flow cytometry is a laser-based, high-throughput single-cell analysis technique used to simultaneously measure multiple physical and fluorescent characteristics of cells or particles in suspension. This assay quantifies cell populations based on parameters such as cell size (forward scatter), granularity (side scatter), and fluorescence intensity of labeled surface or intracellular markers, enabling immunophenotyping, cell cycle analysis, viability assessment, and functional studies. Samples are ...
Submitter: Dikshant Pradhan
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: IMPAcTB
This assay captures and standardizes the metadata associated with cell extraction procedures, documenting key experimental parameters such as cell type, passage number, extraction method, reagents used, and processing conditions applied during the preparation of cellular material for downstream analyses. It serves as a critical data governance step to ensure traceability, reproducibility, and quality control across experiments by recording provenance information for extracted cell samples. The ...
Submitter: Dikshant Pradhan
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: IMPAcTB
Submitter: Dikshant Pradhan
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: IMPAcTB
Cell sorting is a flow cytometry-based assay used to physically separate heterogeneous cell populations into distinct subpopulations based on specific cell surface or intracellular markers, enabling downstream functional, molecular, or phenotypic analyses. Cells are labeled with fluorescently conjugated antibodies or dyes, interrogated by laser excitation, and individually sorted into collection vessels using electrostatic deflection or microfluidic mechanisms according to predefined gating ...
Submitter: Dikshant Pradhan
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: IMPAcTB
Flow cytometry is a laser-based, high-throughput single-cell analysis technique used to simultaneously measure multiple physical and fluorescent characteristics of cells or particles in suspension. This assay quantifies cell populations based on parameters such as cell size (forward scatter), granularity (side scatter), and fluorescence intensity of labeled surface or intracellular markers, enabling immunophenotyping, cell cycle analysis, viability assessment, and functional studies. Samples are ...
Submitter: Dikshant Pradhan
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: IMPAcTB
Batch sample publishing
Creator: Dikshant Pradhan
Submitter: Dikshant Pradhan
DownloadBatch sample publishing
Creator: Dikshant Pradhan
Submitter: Dikshant Pradhan
Batch sample publishing
Creator: Dikshant Pradhan
Submitter: Dikshant Pradhan
Batch sample publishing
Creator: Dikshant Pradhan
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Batch sample publishing
Creator: Dikshant Pradhan
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Batch sample publishing
Creator: Dikshant Pradhan
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Creator: Dikshant Pradhan
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Batch sample publishing
Creator: Dikshant Pradhan
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Batch sample publishing
Creator: Dikshant Pradhan
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Batch sample publishing
Creator: Dikshant Pradhan
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Creator: Dikshant Pradhan
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Batch sample publishing
Creator: Dikshant Pradhan
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Batch sample publishing
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Creator: Dikshant Pradhan
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Creator: Dikshant Pradhan
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Creator: Dikshant Pradhan
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Creator: Dikshant Pradhan
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Next-Gen GPT Assay Protocol
Creator: Dikshant Pradhan
Submitter: Dikshant Pradhan
Collection of Tissues at Necropsy of Short-Term Animals
Creator: Dikshant Pradhan
Submitter: Dikshant Pradhan
Medium-Term Tissue Collection at Necropsy
Creator: Dikshant Pradhan
Submitter: Dikshant Pradhan
Abstract
Authors: Jennifer E. Kay, Joshua J. Corrigan, Amanda L. Armijo, Ilana S. Nazari, Ishwar N. Kohale, Dorothea K. Torous, Svetlana L. Avlasevich, Robert G. Croy, Dushan N. Wadduwage, Sebastian E. Carrasco, Stephen D. Dertinger, Forest M. White, John M. Essigmann, Leona D. Samson, Bevin P. Engelward
Date Published: 1st Mar 2021
Publication Type: Journal Article
This sample is used to upload data files in batch to SEEK. It is not used often and doesn't contain much useful metadata
UID (Text) *, File_PrimaryData (Text) , Link_PrimaryData (Text) , Checksum_PrimaryData (Text) , Scientist (Text) , SampleCreationDate (Date) , Parent (Text) , Protocol (Text) , Software (Text)
Not specified
A non-human primate sample originates from an organism closely related to humans within the primate order. These samples are collected to study biological processes that share genetic and physiological similarities with human systems. Each reflects controlled collection and handling specific to the species and study design.
UID (Text) *, Name (Text) *, ID (Text) , DateOfBirth (Date) , Sex (Text) , Species (Text) , Origin (Text) , SourceFacility (Text) , Notes (Text) , Contact (Text) , Scientist (Text) , CoScientist (Text) , Publish_uri (Text) , Treatment1 (Text) , Treatment1Type (Text) , Treatment1Route (Text) , Treatment1Date (Date) , Treatment1Dose (Real number) , Treatment1DoseUnits (Text) , Treatment2 (Text) , Treatment2Type (Text) , Treatment2Route (Text) , Treatment2Date (Date) , Treatment2Dose (Real number) , Treatment2DoseUnits (Text) , NecropsyDate (Date) , Cohort (Text)
Not specified
A cell extract sample contains the soluble contents or fractions derived from lysed cells. It provides material for studying protein expression, enzymatic activity, or molecular interactions.
UID (Text) *, Name (Text) *, Scientist (Text) , StorageLocation (Text) , StorageSite (Text) , SampleCreationDate (Date) , Protocol (Text) , Parent (Text) , Type (Text) , TreatmentType (Text) , Treatment (Text) , TreatmentDose (Real number) , TreatmentDoseUnits (Text) , TreatmentTime (Real number) , TreatmentTimeUnits (Text) , Volume (Real number) , VolumeUnits (Text) , Concentration (Real number) , ConcentrationUnits (Text) , Note (Text) , CollectionTime (Real number) , CollectionTimeUnits (Text)
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A Luminex data file contains multiplexed fluorescence intensity measurements generated by bead-based assays. It represents the digital output used to quantify multiple proteins, cytokines, or analytes simultaneously. Typical file types: .csv, .xlsx, .xml
UID (Text) *, File_PrimaryData (Text) *, Link_PrimaryData (Text) , Checksum (Text) , Scientist (Text) , SampleCreationDate (Date) , Protocol (Text) , Parent (Text) , Panel (Text) , Analyte (Text) , Instrument (Text)
Not specified
A Luminex analysis file contains processed results from multiplexed bead-based assays. It represents summarized analyte concentrations or normalized fluorescence values derived from raw Luminex data. Each file often aggregates multiple wells or samples into a unified dataset (many→1). Typical file types: .csv, .xlsx
UID (Text) *, Name (Text) *, File_PrimaryData (Text) *, Link_PrimaryData (Text) , Checksum_PrimaryData (Text) , Scientist (Text) , SampleCreationDate (Date) , Parent (Text) , Protocol (Text) , Software (Text) , QC_notes (Text)
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A mouse sample represents an experimental animal used as a model system. Mice may be exposed to specific treatments or conditions, and tissues or cells are collected from them for downstream analysis.
UID (Text) *, Name (Text) *, Scientist (Text) *, Protocol (Text) , DateOfBirth (Date) , Sex (Text) , Strain (Text) , StrainReference (Text) , Genotype (Text) , Phenotype (Text) , StorageType (Text) , StorageLocation (Text) , StorageSite (Text) , Source (Text) , SourceFacility (Text) , ParentM (Text) , ParentF (Text) , Treatment1Type (Text) , Treatment1 (Text) , Treatment1Route (Text) , Protocol_Treatment1 (Text) , Treatment1Reference (Text) , Treatment1Dose (Real number) , Treatment1Units (Text) , Treatment1Time (Real number) , Treatment1TimeUnits (Text) , Treatment2Type (Text) , Treatment2 (Text) , Treatment2Route (Text) , Protocol_Treatment2 (Text) , Treatment2Reference (Text) , Treatment2Dose (Real number) , Treatment2Units (Text) , Treatment2Time (Real number) , Treatment2TimeUnits (Text) , SacrificeDate (Date) , Notes (Text) , Disease (Text) , DiseaseReference (Text) , DiseaseStage (Text)
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A tissue sample represents a portion of biological material collected from an organism. It serves as the source for downstream molecular, cellular, or histological analyses.
UID (Text) *, Name (Text) *, Scientist (Text) *, SampleCreationDate (Date) , Protocol (Text) , Parent (Text) , Type (Text) , CollectionTime (Real number) , CollectionTimeUnits (Text) , Mass (Real number) , MassUnits (Text) , Organ (Text) , OrganDetail (Text) , StorageSite (Text) , StorageLocation (Text) , StorageType (Text) , BALCollectedVolume (Real number) , BALCollectedVolumeUnits (Text) , BALInstilledVolume (Real number) , BALInstilledVolumeUnits (Text) , Volume (Real number) , VolumeUnits (Text) , CellCount (Real number) , Notes (Text) , StudyID (Text) , SampleCollectionDate (Date) , Contact (Text)
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A sequencing file contains raw nucleotide sequence reads and their quality scores. It represents the digital output from a DNA or RNA sequencing run and serves as the starting point for downstream analyses such as alignment or variant calling. Typical file type: .fastq or .fastq.gz
UID (Text) *, Name (Text) , File_PrimaryData (Text) , Scientist (Text) , SampleCreationDate (Date) , Protocol (Text) , Link_PrimaryData (Text) , Parent (Text) , DataType (Text) , SequencingType (Text) , QCPlatform (Text) , QCAssay (Text) , Sequencer (Text) , ClusterDate (Date) , AnalyzedDate (Date) , CompleteDate (Date) , F_bp (Real number) , R_bp (Real number) , IndexInlineStartNT (Real number) , IndexInlineLength (Real number) , NumReads (Real number) , MaxReads (Real number) , TotalReads (Real number) , NumAligned (Real number) , 20mers (Real number) , Primer (Text) , FlowLane (Text) , PrepUser (Text) , Contamination (Text) , Notes (Text) , ReagentManufacturer (Text) , ReagentCatalogNum (Text) , LibraryStrategy (Text) , LibrarySource (Text) , LibrarySelection (Text) , ExpressionKit (Text) , ExtractedMolecule (Text)
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UID (Text) *, Name (Text) *, File_PrimaryData (Text) *, Link_PrimaryData (Text) , SampleCreationDate (Date) , DataType (Text) , Protocol (Text) , Parent (Text) , Scientist (Text) , Lab (Text)
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UID (Text) *, Name (Text) *, File_PrimaryData (Text) , Link_PrimaryData (URI) , SampleCreationDate (Date) , Scientist (Text) , DataType (Text) , Barcodes (Text) , Genes (Text) , Metadata (Text) , Protocol (Text) , Parent (Text) , Lab (Text)
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UID (Text) *, File_PrimaryData (Text) *, Link_PrimaryData (Text) , ModelName (Text) , ModelType (Text) , ModelDescription (Text) , Domain (Text) , Lab (Text) , Scientist (Text) *, SourceCode (Text) , Parent (Text) , SampleCreationDate (Date) , Docker (Text) , Notes (Text)
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UID (Text) *, Name (Text) *, File_PrimaryData (Text) , Link_PrimaryData (Text) , SampleCreationDate (Date) , Scientist (Text) , CoScientist (Text) , Protocol (Text) , Lab (Text) , Phage (Text) , CellLine (Text) , Parent (Text) , PlaqueTiter (Text) , PlaqueTiterCount (Real number) , ColonyTiter (Text) , ColonyTiterCount (Real number) , TiterEfficiency (Real number) , Plate (Text) , MutationFreq (Real number)
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UID (Text) *, Name (Text) *, Scientist (Text) , Protocol (Text) , DateOfBirth (Date) , Sex (Text) , Genotype (Text) , StorageType (Text) , Treatment1Type (Text) , Treatment1 (Text) , Treatment1Route (Text) , Protocol_Treatment1 (Text) , Treatment2Type (Text) , Treatment2 (Text) , Treatment2Route (Text) , Protocol_Treatment2 (Text) , SacrificeDate (Date)
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UID (Text) *, Name (Text) *, Scientist (Text) , SampleCreationDate (Date) , Protocol (Text) , Parent (Text) , Concentration (Real number) , ConcentrationUnits (Text)
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UID (Text) *, File_PrimaryData (Text) *, Link_PrimaryData (Text) , SampleCreationDate (Date) , Protocol_Data (Text) , Parent (Text) , QuantificationMethod (Text) , File_SearchEngineOutput (Text) , Link_SearchEngineOutput (Text)
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UID (Text) *, File_PrimaryData (Text) *, Link_PrimaryData (Text) , SampleCreationDate (Date) , Protocol_Data (Text) , ExperimentType (Text) , ParentList (Text) , Instrument (Text) , Scientist (Text) , Labels (Text) , QCInstrument (Text) , QCUser (Text) , Calibration (Text) , ReagentManufacturer (Text) , ReagentCatalogNum (Text) , ProteinSeqFile (Text)
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UID (Text) *, File_PrimaryData (Text) *, Link_PrimaryData (Text) , Scientist (Text) , Protocol (Text) , CreationDate (Date) , Parent (Text) , SlideStain (Text) , SlideStain2 (Text) , SlideAntibody (Text) , SlideAntibodyConcentration (Text) , Foci (Text) , NumFoci (Real number) , Instrument (Text) , ImageArea (Real number) , ObjectArea (Real number) , AreaUnits (Text) , Contact (Text)
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UID (Text) *, Name (Text) *, Scientist (Text) , SampleCreationDate (Date) , Protocol (Text) , Parent (Text) , Organ (Text) , OrganDetail (Text) , StorageType (Text)
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