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Single-cell analysis of signalling and transcriptional responses to type I interferons

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1. scibot 20 May 2026
  
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  DOI: 10.1038/s44319-026-00750-3
  
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pmc.ncbi.nlm.nih.gov/articles/PMC13172048/
Mar 2026
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High-fat diet causes rapid loss of intestinal group 3 innate lymphoid cells through microbiota-driven inflammation and mitochondrial stress

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1. scibot 31 Mar 2026
  
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  DOI: 10.1016/j.immuni.2026.02.014
  
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sciencedirect.com/science/article/pii/S1074761326000841
Jun 2025
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1-s2.0-S2589004225011794-main-html.html

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Jan 2025
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Systems-level immunomonitoring in children with solid tumors to enable precision medicine

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JAK inhibition decreases the autoimmune burden in Down syndrome

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  DOI: 10.7554/eLife.99323
  
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pmc.ncbi.nlm.nih.gov/articles/PMC11687933/
Aug 2024
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Interleukin-21 engineering enhances NK cell activity against glioblastoma via CEBPD

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sciencedirect.com/science/article/pii/S1535610824002721
Apr 2024
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Pharmacological inhibition of RAS overcomes FLT3 inhibitor resistance in FLT3-ITD+ AML through AP-1 and RUNX1

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52.53.155.43/43deb73e3f715bad3d2167b3c6b37658d9cd796b/1-s2.0-S2589004224007983-main-html.html
Mar 2024
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A multi-omics systems vaccinology resource to develop and test computational models of immunity

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2. scibot 15 Mar 2024
  
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sciencedirect.com/science/article/pii/S2667237524000560
Feb 2024
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Merkel cell polyomavirus-specific and CD39+CLA+ CD8 T cells as blood-based predictive biomarkers for PD-1 blockade in Merkel cell carcinoma

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1. scibot 14 Feb 2024
  
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  DOI: 10.1016/j.xcrm.2023.101390
  
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sciencedirect.com/science/article/pii/S2666379123006195
Sep 2023
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AXL-initiated paracrine activation of pSTAT3 enhances mesenchymal and vasculogenic supportive features of tumor-associated macrophages

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1. scibot 07 Sep 2023
  
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  DOI: 10.1016/j.celrep.2023.113067
  
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sciencedirect.com/science/article/pii/S2211124723010781
Aug 2023
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PIIS2666379123003026-html.html

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1. scibot 19 Aug 2023
  
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  DOI: 10.5281/zenodo.8140861
  
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52.53.155.43/44a69a0676f3928bc2507a6d1cfc08f399e25ade/PIIS2666379123003026-html.html
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mRNA vaccination boosts S-specific T cell memory and promotes expansion of CD45RAint TEMRA-like CD8+ T cells in COVID-19 recovered individuals

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1. scibot 12 Aug 2023
  
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  RRID:AB_2661851
  
  DOI: 10.1016/j.xcrm.2023.101149
  
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2. scibot 10 Aug 2023
  
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  DOI: 10.1016/j.xcrm.2023.101149
  
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52.53.155.43/1d749e9bf9b52555f229203df4889984f1025558/PIIS2666379123003026-html.html
May 2023
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Psoriatic and rheumatoid arthritis joints differ in the composition of CD8+ tissue-resident memory T cell subsets

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1. scibot 17 May 2023
  
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  DOI: 10.1016/j.celrep.2023.112514
  
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sciencedirect.com/science/article/pii/S2211124723005259
Apr 2023
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Early immune pressure initiated by tissue-resident memory T cells sculpts tumor evolution in non-small cell lung cancer

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1. scibot 26 Apr 2023
  
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  DOI: 10.1016/j.ccell.2023.03.019
  
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sciencedirect.com/science/article/pii/S1535610823000922
Feb 2023
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OX40 agonism enhances PD-L1 checkpoint blockade by shifting the cytotoxic T cell differentiation spectrum

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1. scibot 16 Feb 2023
  
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  DOI: 10.1016/j.xcrm.2023.100939
  
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sciencedirect.com/science/article/pii/S2666379123000319
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Human IRF1 governs macrophagic IFN-γ immunity to mycobacteria

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1. scibot 03 Feb 2023
  
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  DOI: 10.1016/j.cell.2022.12.038
  
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sciencedirect.com/science/article/pii/S0092867422015811
Oct 2022
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IgA deficiency destabilizes immunological homeostasis towards intestinal microbiota and increases the risk of systemic immune dysregulation

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1. scibot 27 Oct 2022
  
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  DOI: 10.1101/2021.08.20.21261620
  
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52.53.155.43/62b31cea1ac090bac2ebe32e4dfd3474fee27f84/2021.08.20.21261620v1.full-html.html
Sep 2022
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NKG2A and HLA-E define an alternative immune checkpoint axis in bladder cancer

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  DOI: 10.1016/j.ccell.2022.08.005
  
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sciencedirect.com/science/article/pii/S1535610822003695
Aug 2022
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https://medrxiv.org/cgi/content/10.1101/2021.05.11.21256877

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  DOI: 10.1101/2021.05.11.21256877
  
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52.53.155.43/adc175c57d72a20de004e8b016eb3f647cbcbf2f/2021.05.11.21256877.full-html.html
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Multiregional single-cell proteogenomic analysis of ccRCC reveals cytokine drivers of intratumor spatial heterogeneity

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  DOI: 10.1016/j.celrep.2022.111180
  
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sciencedirect.com/science/article/pii/S2211124722009937
Jun 2022
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Development of an HIV reporter virus that identifies latently infected CD4+ T cells

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1. scibot 15 Jun 2022
  
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  DOI: 10.1016/j.crmeth.2022.100238
  
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Measuring trogocytosis between ovarian tumor and natural killer cells

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1. scibot 09 Jun 2022
  
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  DOI: 10.1016/j.xpro.2022.101425
  
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sciencedirect.com/science/article/pii/S2666166722003057
May 2022
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A human breast atlas integrating single-cell proteomics and transcriptomics

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1. scibot 26 May 2022
  
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  DOI: 10.1016/j.devcel.2022.05.003
  
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A cytotoxic-skewed immune set point predicts low neutralizing antibody levels after Zika virus infection

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  DOI: 10.1016/j.celrep.2022.110815
  
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sciencedirect.com/science/article/pii/S2211124722005861
Apr 2022
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Integrating transcription-factor abundance with chromatin accessibility in human erythroid lineage commitment

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  DOI: 10.1016/j.crmeth.2022.100188
  
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ncbi.nlm.nih.gov/pmc/articles/PMC9017139/
Mar 2022
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Tissue-resident FOLR2+ macrophages associate with CD8+ T cell infiltration in human breast cancer

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  DOI: 10.1016/j.cell.2022.02.021
  
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A genome-scale gain-of-function CRISPR screen in CD8 T cells identifies proline metabolism as a means to enhance CAR-T therapy

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  DOI: 10.1016/j.cmet.2022.02.009
  
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sciencedirect.com/science/article/pii/S1550413122000535
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Limited Extent and Consequences of Pancreatic SARS-CoV-2 Infection

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  DOI: 10.1016/j.celrep.2022.110508
  
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ncbi.nlm.nih.gov/pmc/articles/PMC8858708/
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A blood atlas of COVID-19 defines hallmarks of disease severity and specificity

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  DOI: 10.1016/j.cell.2022.01.012
  
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sciencedirect.com/science/article/pii/S0092867422000708
Jan 2022
www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov

Naive and memory CD4+ T cell subsets can contribute to the generation of human Tfh cells

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  DOI: 10.1016/j.isci.2021.103566
  
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ncbi.nlm.nih.gov/pmc/articles/PMC8693005/
Dec 2021
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Peripheral immunophenotyping of AITD subjects reveals alterations in immune cells in pediatric vs adult-onset AITD

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1. scibot 29 Dec 2021
  
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  DOI: 10.1016/j.isci.2021.103626
  
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sciencedirect.com/science/article/pii/S2589004221015960
Nov 2021
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Single-cell analysis of human non-small cell lung cancer lesions refines tumor classification and patient stratification

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1. scibot 12 Nov 2021
  
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  DOI: 10.1016/j.ccell.2021.10.009
  
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ncbi.nlm.nih.gov/pmc/articles/PMC8728963/
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Myeloid antigen-presenting cell niches sustain antitumor T cells and license PD-1 blockade via CD28 costimulation

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1. scibot 05 Nov 2021
  
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  DOI: 10.1016/j.ccell.2021.10.008
  
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cell.com/cancer-cell/fulltext/S1535-6108(21)00559-6
Oct 2021
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Early IFN-α signatures and persistent dysfunction are distinguishing features of NK cells in severe COVID-19

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1. scibot 06 Oct 2021
  
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Tumor-derived exosomes drive immunosuppressive macrophages in a pre-metastatic niche through glycolytic dominant metabolic reprogramming

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Human TBK1 deficiency leads to autoinflammation driven by TNF-induced cell death

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Untitled document

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The COVIDome Explorer researcher portal

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Untitled document

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Mass Cytometry Reveals Global Immune Remodeling with Multi-lineage Hypersensitivity to Type I Interferon in Down Syndrome

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Structural Remodeling of the Human Colonic Mesenchyme in Inflammatory Bowel Disease

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Single-Cell Map of Diverse Immune Phenotypes in the Breast Tumor Microenvironment

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  RRID:AB_2261851
  
  DOI: 10.1016/j.cell.2018.05.060
  
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Bifidobacteria-mediated immune system imprinting early in life

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Microbial exposure during early human development primes fetal immune cells

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Comparative immune profiling of acute respiratory distress syndrome patients with or without SARS-CoV2 infection

1
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Coexpression of CD71 and CD117 Identifies an Early Unipotent Neutrophil Progenitor Population in Human Bone Marrow

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Human T-bet Governs Innate and Innate-like Adaptive IFN-γ Immunity against Mycobacteria

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Single-Cell Mapping of Human Brain Cancer Reveals Tumor-Specific Instruction of Tissue-Invading Leukocytes

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High-dimensional profiling clusters asthma severity by lymphoid and non-lymphoid status

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Seroconversion stages COVID19 into distinct pathophysiological states

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  DOI: 10.7554/eLife.65508
  
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Feb 2021
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Mapping Systemic Inflammation and Antibody Responses in Multisystem Inflammatory Syndrome in Children (MIS-C)

1
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  DOI: 10.1016/j.cell.2020.09.034
  
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Inflammation-driven senescence-associated secretory phenotype in cancer-associated fibroblasts enhances peritoneal dissemination

1
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  DOI: 10.1016/j.celrep.2021.108779
  
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A Systemic Protein Deviation Score Linked to PD-1+ CD8+ T Cell Expansion That Predicts Overall Survival in Diffuse Large B Cell Lymphoma

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cell.com/med/abstract/S2666-6340(20)30023-4
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Developing Human Skin Contains Lymphocytes Demonstrating a Memory Signature

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  DOI: 10.1016/j.xcrm.2020.100132
  
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PAI-1-Dependent Inactivation of SMAD4-Modulated Junction and Adhesion Complex in Obese Endometrial Cancer

1
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Sep 2020
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Chromatin Landscape Underpinning Human Dendritic Cell Heterogeneity

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Structural Remodeling of the Human Colonic Mesenchyme in Inflammatory Bowel Disease

1
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  DOI: 10.1016/j.cell.2018.08.067
  
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Single-Cell Analyses Identify Dysfunctional CD16+ CD8 T Cells in Smokers

1
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Clonal Deletion of Tumor-Specific T Cells by Interferon-γ Confers Therapeutic Resistance to Combination Immune Checkpoint Blockade

1
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Severe COVID-19 Is Marked by a Dysregulated Myeloid Cell Compartment

1
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  DOI: 10.1016/j.cell.2020.08.001
  
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Human Tumor-Infiltrating MAIT Cells Display Hallmarks of Bacterial Antigen Recognition in Colorectal Cancer

1
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  DOI: 10.1016/j.xcrm.2020.100039
  
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Systems-Level Immunomonitoring from Acute to Recovery Phase of Severe COVID-19

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Immune Profiling of Human Gut-Associated Lymphoid Tissue Identifies a Role for Isolated Lymphoid Follicles in Priming of Region-Specific Immunity

1
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Human Immune System Variation during 1 Year

1
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  DOI: 10.1016/j.celrep.2020.107923
  
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Dendritic Cell Paucity Leads to Dysfunctional Immune Surveillance in Pancreatic Cancer

1
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  anti-human CD45 (HI30)
  
  DOI: 10.1016/j.ccell.2020.02.008
  
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Systemic Type I IFN Inflammation in Human ISG15 Deficiency Leads to Necrotizing Skin Lesions

1
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  DOI: 10.1016/j.celrep.2020.107633
  
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Jan 2020
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Large-Scale HLA Tetramer Tracking of T Cells during Dengue Infection Reveals Broad Acute Activation and Differentiation into Two Memory Cell Fates

1
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Comprehensive Immune Monitoring of Clinical Trials to Advance Human Immunotherapy

1
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  DOI: 10.1016/j.celrep.2019.06.049
  
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sciencedirect.com/science/article/pii/S2211124719308228
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Single-Cell Analysis of Human Mononuclear Phagocytes Reveals Subset-Defining Markers and Identifies Circulating Inflammatory Dendritic Cells

1
1. scibot 13 Jan 2020
  
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  RRID:AB_2661851
  
  DOI: 10.1016/j.immuni.2019.08.008
  
  Resource: (Fluidigm Cat# 3089003, RRID:AB_2661851)
  
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Differences in Tumor Microenvironment Dictate T Helper Lineage Polarization and Response to Immune Checkpoint Therapy

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1. scibot 13 Jan 2020
  
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  RRID:AB_2661851
  
  DOI: 10.1016/j.cell.2019.10.029
  
  Resource: (Fluidigm Cat# 3089003, RRID:AB_2661851)
  
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Single-Cell Analysis of Crohn’s Disease Lesions Identifies a Pathogenic Cellular Module Associated with Resistance to Anti-TNF Therapy

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1. scibot 13 Jan 2020
  
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  RRID:AB_2661851
  
  DOI: 10.1016/j.cell.2019.08.008
  
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Mass Cytometry Reveals Global Immune Remodeling with Multi-lineage Hypersensitivity to Type I Interferon in Down Syndrome

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1. scibot 13 Jan 2020
  
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  RRID:AB_2661851
  
  DOI: 10.1016/j.celrep.2019.10.038
  
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Maturation of the Human Intestinal Immune System Occurs Early in Fetal Development

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1. scibot 13 Jan 2020
  
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  RRID:AB_2661851
  
  DOI: 10.1016/j.devcel.2019.09.008
  
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sciencedirect.com/science/article/pii/S1534580719307373
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Untitled document

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1. scibot 13 Jan 2020
  
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  RRID:AB_2661851
  
  DOI: 10.1016/j.immuni.2019.01.006
  
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sciencedirect.com/science/article/pii/S1074761319300299
Nov 2018
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Untitled document

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1. scibot 05 Nov 2018
  
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Stereotypic Immune System Development in Newborn Children

1
1. scibot 05 Nov 2018
  
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  RRID:2661851
  
  Curator: @bandrow
  
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ncbi.nlm.nih.gov/pmc/articles/PMC6108833/
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Epigenomic-Guided Mass Cytometry Profiling Reveals Disease-Specific Features of Exhausted CD8 T Cells

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1. scibot 05 Nov 2018
  
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Cellular Differentiation of Human Monocytes Is Regulated by Time-Dependent Interleukin-4 Signaling and the Transcriptional Regulator NCOR2

1
1. scibot 05 Nov 2018
  
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  RRID:AB_2661851
  
  Curator: @evieth
  
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Untitled document

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1. scibot 05 Nov 2018
  
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  RRID:AB_2661851
  
  Curator: @evieth
  
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  (Fluidigm Cat# 3089003, RRID:AB_2661851)
  
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ncbi.nlm.nih.gov/pmc/articles/PMC5772172/
Nov 2017
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Distinct Cellular Mechanisms Underlie Anti-CTLA-4 and Anti-PD-1 Checkpoint Blockade

1
1. scibot 08 Nov 2017
  
  in Public
  
  Anti-human CD45 (clone HI30)FluidigmCat# 3089003B
  
  Curator: @Jmenke
  
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