cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.21430/m3vc8yzq9k
title: B-Cell depletion by anti-CD20 in renal allograft recipients who develop de novo anti-HLA alloantibodies (CCTPT-02/CTOT-02)

description: The purpose of this study is to determine whether treatment with rituximab (anti-CD20, Rituxan, MabThera) in individuals who develop new anti-HLA antibodies after renal (kidney) transplant will promote longer-term survival of the transplanted kidney. The pilot study compares the use of rituximab (Rituxan) + site-specific standard immunosuppression to placebo + site-specific standard immunosuppression in the treatment of circulating anti-HLA antibodies in subjects who develop de novo anti-HLA antibodies between 3-36 months after transplant.
DOI: 10.21430/m3vgbjc7tc
title: Serological Memory and Long-term Protection to Novel H1N1 Influenza Virus After Skin Vaccination

description: Investigating the long-lived immunity and improved protection after skin vaccination
DOI: 10.21430/m3wvucybw9
title: Humoral responses to West Nile virus

description: Integrate two high-throughput technologies namely, microengraving-based screening of primary B cells and next-generation sequencing to examine the relationship between the diversity and quality of humoral responses raised and the severity of disease.
DOI: 10.21430/m3wxzhc81n
title: Immune responses to Helicobacter pylori in a pig model

description: Helicobacter pylori infection is the leading cause for peptic ulcer disease and gastric adenocarcinoma. Mucosal T cell responses play an important role in mediating H. pylori-related gastric immunopathology. While induced regulatory T (iTreg) cells are required for chronic colonization without disease, Th1 effector responses are associated with lower bacterial load at the expense of gastric pathology. With the objective of developing a large animal model of H. pylori infection, pigs were inoculated with either H. pylori strain SS1 or J99. Changes in peripheral blood mononuclear cell populations were monitored weekly, and mucosal immune responses and bacterial loads were assessed at day 57 post-infection. Both H. pylori strains elicited a Th1 response with increased percentage of CD4+Tbet+ cells and elevated Tbet and IFN-. mRNA in PBMC. A subset of CD8beta+ T cells and B cells expressing Tbet increased due to infection. Moreover, a significant increase of NK cells was observed in infected pigs pointing towards a predominant cytotoxic immune response. Infiltration of cytotoxic cells was detected in the gastric lamina propria of both infected groups. Interestingly, strain J99 evoked a more dramatic acute response associated with lower bacterial loads, while strain SS1 showed longer-term colonization capacity. This novel pig model of infection closely mimics human gastric pathology and presents a suitable avenue for studying the cytotoxic and regulatory responses towards H. pylori described in humans.
DOI: 10.21430/m3wz7xk2gg
title: T cell responses to H1N1v and a longitudinal study of seasonal influenza vaccination (TIV) - 2008 (See companion studies SDY315 2012 / SDY312 2009 / SDY311 2010 / SDY112 2011)

description: Systems biology approach to examine effects of seasonal flu vaccination in adults of different ages on gene expression, cytokine stimulation and serum cytokines with parameters such as immune senescence to uncover new markers and mechanisms behind failure of immune function in many older people.
DOI: 10.21430/m3x9skf8rq
title: Systems Biology of 2010 trivalent Influenza vaccine (TIV) in young and elderly (see companion study SDY61 2007, SDY270 2009, SDY119 2011)

description: Single center, open label study in which adult healthy volunteers with no contraindications to immunization will be vaccinated with TIV. Blood samples will be collected on Days D0 (at enrollment) and D1, D3, D7, D14, D30, D180 post vaccination to study innate and/or adaptive immunity markers. Even though influenza vaccination is considered safe, volunteers will be asked to report any local or systemic AEs from Day 0 (vaccination) to Day 7 in memory aids. Reactogenicity events will also be evaluated by injection site examination on visits at D0, D1, D3 and D7. Volunteers will be also asked to report local and systemic AEs developing the day of a blood draw.
DOI: 10.21430/m3xudzgcyi
title: PPARG and microRNA-146 in mucosal immune responses to C. difficile

description: Clostridium difficile is typically a harmless anaerobic bacterium but recently it has re-emerged as a facultative pathogen that can cause nosocomial diarrhea, colitis and even death. Peroxisome proliferator-activated receptor (PPAR) gamma has been implicated in the prevention of inflammation in autoimmune and infectious diseases; however, its role in the immunoregulatory mechanisms modulating host responses to C. difficile remains largely unknown. To characterize the role of PPAR gamma in C. difficile-associated disease (CDAD), immunity and gut pathology, we used a mouse model of C. difficile infection in wild-type and T cell-specific PPAR gamma null mice. The loss of PPAR gamma in T cells increased disease activity and colonic inflammatory lesions following C. difficile infection. Colonic expression of IL-17 was upregulated and IL-10 downregulated in colons of T cell-specific PPAR gamma null mice. Also, both the loss of PPAR gamma in T cells and C. difficile infection favored Th17 responses in spleen and colonic lamina propria of mice with CDAD. MicroRNA (miRNA)-sequencing analysis and RT-PCR validation indicated that miR-146b was significantly overexpressed in colons of C. difficile-infected mice. We next developed a computational model that predicts the upregulation of miR-146b, downregulation of the PPAR gamma co-activator NCOA4, and PPAR gamma, leading to upregulation of IL-17. Treatment of C. difficile-infected mice with the PPAR gamma agonist pioglitazone ameliorated colitis and suppressed pro-inflammatory gene expression. In conclusion, our data indicates that miRNA-146b and PPAR gamma may be implicated in the regulation of Th17 responses and colitis in C. difficile-infected mice.
DOI: 10.21430/m3xv14b6a4
title: CD107 CTL assay

description: CD107A/B assay against influenza infected lung epithelium.
DOI: 10.21430/m3ybosjzij
title: Replication and pathogenesis associated with H5N1 H5N2 and H5N3 low-pathogenic avian influenza virus infection in chickens and ducks

description: A comparative cohort study examining replication and disease pathogenesis associated with low-pathogenic H5N1, H5N2, or H5N3 avian influenza virus (AIV) infection of chickens and ducks was performed.
DOI: 10.21430/m3yum4w1n9
title: Gene Expression Study of TLR Responses on Dendritic Cells

description: Microarray and Luminex assays.
DOI: 10.21430/m3zobvgdw6
title: Tacrolimus with Steroids and Standard Daclizumab Versus Steroid-Free Tacrolimus with Extended Daclizumab in Pediatric Renal Transplantation (SNS01)

description: Over the last 40 years, corticosteroids have been an important part of drug regimens used to prevent organ rejection and maintain the immune health of people who have received organ transplants. Unfortunately, the negative physical effects of corticosteroids can be severe, especially in children. The purpose of this study is to determine the safety and effectiveness of a corticosteroid-free treatment regimen for children and adolescents who have received kidney transplants.
DOI: 10.21430/m3zr6ih181
title: Responses to Influenza Vaccination in Systemic Lupus Year 5 2009-2010

description: Compare the major components of the normal immune response to flu vaccination in SLE patients and control subjects in order to identify abnormalities in SLE group of immunocompromised individuals.
DOI: 10.21430/m30ffhbv3w
title: An Evaluation of IV Gamma Globulin As a Method to Improve Kidney Transplant Survival in Patients With End-Stage Renal Disease Who Are Highly Sensitized to Transplant Antigens (IG02)

description: This study is designed to test the clinical and laboratory observations that suggest IVIG given before and after kidney transplant to patients who are sensitized (highly sensitive) to certain transplant antigens could result in reduced sensitization and reduced rates of kidney rejection. Some ESRD patients are highly sensitive to certain transplant antigens (foreign substances that activate the immune system) and must wait for a long time before a well-matched kidney becomes available. Transplant rejection is more likely among highly sensitized patients than in patients who are not highly sensitized. There is no proven method to improve a highly-sensitized patient's chances of receiving and keeping a transplanted kidney.
DOI: 10.21430/m30lvxyfb2
title: Repeated In Vivo Stimulation of T and B Cell Responses

description: Older adults exhibit higher morbidity and mortality from infectious diseases compared with those of the general population.
DOI: 10.21430/m30t59mpbu
title: Vitamin D3 in Systemic Lupus Erythematosus (ALE02)

description: This is a double-blind, multi-center, placebo controlled, Phase II study designed to assess biologic effects of 12 weeks of vitamin D3 supplementation on patients with well-controlled stable systemic lupus erythematosus who have low serum levels of 25-OH vitamin D and an IFN alpha signature.
DOI: 10.21430/m310w5kamb
title: Contrasting effects of chronic, systemic treatment with mTOR inhibitors rapamycin and metformin on adult neural progenitors in mice

description: The chronic and systemic administration of rapamycin extends life span in mammals. Rapamycin is a pharmacological inhibitor of mTOR. Metformin also inhibits mTOR signaling but by activating the upstream kinase AMPK. Here we report the effects of chronic and systemic administration of the two mTOR inhibitors, rapamycin and metformin, on adult neural stem cells of the subventricular region and the dendate gyrus of the mouse hippocampus. While rapamycin decreased the number of neural progenitors, metformin-mediated inhibition of mTOR had no such effect. Adult-born neurons are considered important for cognitive and behavioral health, and may contribute to improved health span. Our results demonstrate that distinct approaches of inhibiting mTOR signaling can have significantly different effects on organ function. These results underscore the importance of screening individual mTOR inhibitors on different organs and physiological processes for potential adverse effects that may compromise health span.
DOI: 10.21430/m31ubl340j
title: Monitoring of tissue-specific immune responses in man to naturally occurring pathogens using mass cytometric monitoring

description: Elucidate the trafficking specificity, or diversity, of clonal B cell responses to mucosae-associated illnesses or infections in vivo.
DOI: 10.21430/m32gw683zt
title: Innate Immune Pathways in Elderly and Immunosuppressed Populations 2011

description: Innate Immune Pathways in Elderly and Immunosuppressed Populations
DOI: 10.21430/m337h2fffj
title: Two separate defects affecting true naive or virtual memory T cell precursors combine to reduce naive T cell responses with aging.

description: Naive T cell responses are eroded with aging. We and others have recently shown that unimmunized old mice lose ? 70% of Ag-specific CD8 T cell precursors and that many of the remaining precursors acquire a virtual (central) memory (VM; CD44(hi)CD62L(hi)) phenotype. In this study, we demonstrate that unimmunized TCR transgenic (TCRTg) mice also undergo massive VM conversion with age, exhibiting rapid effector function upon both TCR and cytokine triggering. Age-related VM conversion in TCRTg mice directly depended on replacement of the original TCRTg specificity by endogenous TCR? rearrangements, indicating that TCR signals must be critical in VM conversion. Importantly, we found that VM conversion had adverse functional effects in both old wild-type and old TCRTg mice; that is, old VM, but not old true naive, T cells exhibited blunted TCR-mediated, but not IL-15-mediated, proliferation. This selective proliferative senescence correlated with increased apoptosis in old VM cells in response to peptide, but decreased apoptosis in response to homeostatic cytokines IL-7 and IL-15. Our results identify TCR as the key factor in differential maintenance and function of Ag-specific precursors in unimmunized mice with aging, and they demonstrate that two separate age-related defects--drastic reduction in true naive T cell precursors and impaired proliferative capacity of their VM cousins--combine to reduce naive T cell responses with aging.
DOI: 10.21430/m33e7tcyxt
title: Lifespan-extending caloric restriction or mTOR inhibition impair adaptive immunity of old mice by distinct mechanisms.

description: Aging of the world population and a concomitant increase in age-related diseases and disabilities mandates the search for strategies to increase healthspan, the length of time an individual lives healthy and productively. Due to the age-related decline of the immune system, infectious diseases remain among the top 5-10 causes of mortality and morbidity in the elderly, and improving immune function during aging remains an important aspect of healthspan extension. Calorie restriction (CR) and more recently rapamycin (rapa) feeding have both been used to extend lifespan in mice. Preciously few studies have actually investigated the impact of each of these interventions upon in vivo immune defense against relevant microbial challenge in old organisms. We tested how rapa and CR each impacted the immune system in adult and old mice. We report that each intervention differentially altered T-cell development in the thymus, peripheral T-cell maintenance, T-cell function and host survival after West Nile virus infection, inducing distinct but deleterious consequences to the aging immune system. We conclude that neither rapa feeding nor CR, in the current form/administration regimen, may be optimal strategies for extending healthy immune function and, with it, lifespan.
DOI: 10.21430/m33jmyflf1
title: Defective signaling in aging

description: In an effort to identify benchmarks of immunological health, influenza vaccination was used in 10 young (20 to 30 years) and 19 older subjects (60 to 89 years) as models for strong and weak immune responses, respectively.
DOI: 10.21430/m33ry4ixn7
title: Immune Responses to Influenza-Like Illness

description: To investigate the nasal transcriptional response and peripheral plasmablast response in acute influenza infection
DOI: 10.21430/m33z8qhokb
title: HLA Genetics in Pediatric Arthritis

description: Juvenile rheumatoid arthritis (JRA) (also known as Juvenile idiopathic arthritis (JIA)) includes the commonest chronic autoimmune arthropathies of childhood. The MHC is involved with respect to risk, either susceptibility or protection in a subtype specific manner with strong gender bias and differences between ethnicities. Multiple MHC effects have been shown, especially in the commonest subtype, so called early onset pauciarticular JRA (Persistent Oligo in the JIA terminology) with three or more MHC regions believed to interact in generating susceptibility. An additional feature of the disease, unlike some other forms of autoimmunity, is the relative absence of common extended or ancestral haplotypes, especially those carrying HLA-DR4 and HLA-DR7 both of which are protective. The three regions include a class I region, or an area telomeric to it, and two class II regions those around HLA DR/DQ and HLA-DP. None of the regions involved are well defined nor were the specific genes involved identified. The alleles marking these regions (HLA-DR8, 11 and HLA-DPB1*0201) are atypical for autoimmunity. This is therefore an unusual MHC contribution to autoimmunity, the elucidation of which lends itself to high throughput technologies. The genetic features, although involving arthritis, are quite distinct from adult rheumatoid arthritis except for about 5% of older children. It is proposed to construct high throughput SNP maps in a family based study. Subtypes have different MHC profiles and in the rarest and most severe form of disease, systemic onset JRA, the MHC effect is rather minimal. In this form, preliminary data involving KIR gene haplotypes is available. Pursuing these KIR gene observations is proposed. The ability to leverage ongoing phenotyping and family based sample collection ensures a large and continuously growing pool of available DMAs for this project. Some of the patients will also have extensive gene expression studies allowing a comprehensive approach to the MHC and KIR genes in JRA and its subtypes.
DOI: 10.21430/m34i5yt3k9
title: RNA-Seq and miRNA-Seq of Human Placenta

description: RNA sequencing was performed with the primary goal of discovering key placental villous trophoblast(VT) and decidual basalis(DB) transcripts differentially expressed in intra-amniotic infection (IAI)-induced pretrem birth (PTB)
DOI: 10.21430/m34n2joqqm
title: Systems Biology Approach to Study Influenza Vaccine 2010-11 in Healthy Children (see companion studies SDY144, SDY368, SDY387)

description: To characterize the cellular and transcriptional signatures of response to Flu vaccine in healthy children.
DOI: 10.21430/m34nbavdgj
title: The immune signature of palmoplantar pustulosis

description: This study will compare adult patients with CPP(chronic plaque type psoriasis ), who are currently not undergoing topical, systemic or biologic treatment and matched healthy controls. Baseline demographics and psoriasis history will be recorded. All PPP patients will be comprehensively phenotyped and psoriasis severity assessed including the body surface area (BSA) involved, Psoriasis Area and Severity Index (PASI), Physicians Global assessment (PGA) and Dermatology Life Quality Index (DLQI).
DOI: 10.21430/m34oudcfo2
title: B and T Cell Determinants of Influenza Vaccine Responses in the Elderly 2008 (see companion study SDY773)

description: Application of high-throughput DNA sequencing of the IGH gene rearrangements to study the B cell repertoires over two successive years in 27 individuals ranging in age from 20 to 89 years old.
DOI: 10.21430/m34qi37ot9
title: Systems Biology Analysis of the response to Licensed Hepatitis B Vaccine (HEPLISAV) in Whole Blood (see companion studies SDY816 and SDY690)

description: This project will contribute to the overall vision and goals of this U19 by analyzing the role of adjuvants in the humoral response to hep B vaccination in healthy individuals.
DOI: 10.21430/m352vu0yny
title: Humoral responses to Influenza vaccination in aged populations - Year 4 2014 (See companion studies SDY272 2011, SDY622 2012, SDY648 2013, SDY819 2015)

description: The purpose of this study was to measure the B celland T cell responses to the Trivalent Inactivated influenza Vaccine(TIV) in young and aged subjects, and measure their different B cell subsets.
DOI: 10.21430/m354guqi65
title: DFCI HLA typing

description: HLA typing using a knowledge base coupled with a high throughput oligonucleotide probe array analysis
DOI: 10.21430/m35hjn0h16
title: Early-life compartmentalization of human T cells

description: We present here an analysis of lymphoid and mucosal tissue T cells derived from pediatric organ donors in the first two years of life, as compared to adult organ donors, revealing early compartmentalization of T cell differentiation and regulation.
DOI: 10.21430/m35iwa4goq
title: Induction of maturation Marker after combinatorial TNFa and IFNb treatment

description: Explore combinatorial TNFa and IFNb treatment of DCs
DOI: 10.21430/m365br5lw8
title: A Retrospective Multicenter Study to Determine 5-Year Clinical Outcomes in Subjects Previously Enrolled in the CTOT-01 Study (CTOT-17)

description: This study is a multicenter, non-randomized, retrospective study to collect long term (5 years posttransplant +/- 6 months) clinical outcome data on subjects previously enrolled in the CTOT-01 study.
DOI: 10.21430/m36ygdv91n
title: CD4+ T cell differentiation studies

description: Th17 cells mediate inflammatory and effector responses during infectious and immune-mediated diseases. The mechanisms of action modulating the plasticity between Th17 and Treg cells are incompletely understood. To gain a better understanding of the differentiation process we have constructed a computational model in COPASI that mimics CD4+ T cell differentiation and contemplates the plasticity between effector Th17 and Treg. Our computer simulations predicted that activation of peroxisome proliferator activated receptor gamma (PPARg) induces a switch from already differentiated Th17 into Treg. Experimental validation approaches support this in silico prediction. The conclusion of this project is that PPARg promotes differentiation of naive CD4+ T cells into Treg, downregulates Th17 differentiation and favors phenotype switch from Th17 into Treg cells.
DOI: 10.21430/m37imdd0ro
title: Systems Biology Approach to Study Influenza Vaccine in Children with Autoimmunity (Juvenile Dermatomyositis JDM) 2013/2014 Cohort (see companion studies SDY369, SDY372, SDY645)

description: Transcriptional profiling of peripheral blood of pediatric patients with juvenile dermatomyositis (JDM) before/after vaccination with seasonal influenza vaccine (Fluzone)
DOI: 10.21430/m37qdd1eqf
title: Lovastatin Therapy in Rheumatoid Arthritis (ARA02)

description: Eighty adults will be enrolled in this study to evaluate lovastatin therapy in Rheumatoid Arthritis. Participants will receive 80 mg lovastatin po qd or 80 mg placebo po qd for twelve weeks.
DOI: 10.21430/m37tu3lvtu
title: Effect of age on 2008/2009 trivalent influenza vaccine response

description: To comprehensively compare the humoral immune response of young (20-31 years old) to older human subjects (60 to &gt;90 years old) following vaccination with seasonal flu vaccine. We generated a peptide microarray featuring tiled peptides with sequences derived from the hemagglutinin proteins of multiple influenza strains. We probed the microarrays with pre- and post-vaccination serum from each age group. Serum antibody reactivity to the microarray peptides was quantified using fluorescently labeled anti-human secondary antibodies and a fluorescent microarray scanner.
DOI: 10.21430/m37w3869ah
title: Vaginal microbial signature for preterm birth

description: Conflicting results in recent years have raised doubt about whether maternal vaginal microbiota contributes to the pathophysiology of preterm birth (PTB). This study compared vaginal microbiota diversity through pregnancy in two cohorts at low and high risk for PTB to elucidate associations between PTB and vaginal microbiota composition.
DOI: 10.21430/m38bb6xtx9
title: Knechtle ITN013ST: Combination Immunosuppressive Therapy to Prevent Kidney Transplant Rejection in Adults

description: The purpose of this study is to test the safety and effectiveness of alemtuzumab in combination with sirolimus and tacrolimus, to prevent organ rejection after kidney transplantation. This study will test whether the medications allow patients to withdraw from antirejection medications
DOI: 10.21430/m38s6pgg9z
title: Study responses of Adult and neonatal APCs to TLR ligands

description: The overall goal of the study is to define comprehensively and in molecular and cellular detail, differences in recognition and response to microbes between adults and neonates and how these, in turn, contribute to differences in innate immunity and the induction of antigen-specific (adaptive) immunity.
DOI: 10.21430/m38siw861c
title: Systems Biology Approach to Study Influenza Vaccine in Children with Autoimmunity (Juvenile Dermatomyositis JDM) 2011/2012 Cohort (see companion studies SDY376, SDY372, SDY645)

description: Transcriptional profiling of peripheral blood of pediatric patients with juvenile dermatomyositis (JDM) before/after vaccination with seasonal influenza vaccine (Fluzone)
DOI: 10.21430/m392skida9
title: Optimization FACS panels

description: Optimization of ICS and phenotyping panels for the Mal067 study using cryopreserved PBMC samples from the SAC cohort