cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.21430/m3na6mqnx3
title: DNMT3A Haploinsufficiency Transforms FLT3 ITD Myeloproliferative Disease into AML

description: Cytogenetically normal acute myeloid leukemia (CN-AML) represents nearly 50% of human AML. Co-occurring mutations in the de novo DNA methyltransferase DNMT3A and the FMS related tyrosine kinase 3 (FLT3) are common in CN-AML and confer a poorer prognosis, but the molecular mechnism of the double-mutant is unknown. By using a rapid mouse model of FLT3/DNMT3A-Mutant AML and advanced global scRNAseq and methylation profiling techniques, the study demonstrates that DNMT3A haploinsufficiency results in reversible epigenetic alterations that transform FLT3 ITD -mutant myeloproliferative neoplasm into AML.
DOI: 10.21430/m3ni5jarf2
title: Natural Killer cells in resistance to infection with West Nile virus

description: Examine the response of primary NK cells from subjects with a history of asymptomatic or severe infection with West nile virus
DOI: 10.21430/m3nod39g06
title: Systems Biology Approach to Study Influenza Vaccine in Children with Autoimmunity (Juvenile Dermatomyositis JDM) 2012/2013 Cohort (see companion studies (SDY369, SDY376, 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/m3o8ldldtm
title: Zinc and tryptophan effects on immunology

description: WT mice fed either nourished or RBD-Zn diet for two weeks. +/- antibiotic pre-Rx then 042wt infected to determine effect of antibiotics in model.
DOI: 10.21430/m3oarggsy0
title: Characterization of maternal serum gene expression and microbiome

description: This study assessed several recent RNA-seq methods on cfRNA samples, analyzed the dynamic changes of both the human transcriptome and the microbiome of plasma during pregnancy, and monitored the immune response and microbial infections during pregnancy.
DOI: 10.21430/m3olbpjib1
title: Pathologically expanded peripheral B cell-helper T cells in Rheumatoid Arthritis

description: CD4+ T cells are central mediators of autoimmune pathology; however, defining their key effector functions in specific autoimmune diseases remains challenging. CD4+ T cells with high PD-1 expression are expanded in rheumatoid arthritis patients.
DOI: 10.21430/m3opjvgubk
title: Noninvasive Monitoring in Kidney Transplantation (CTOT-01)

description: This is a non randomized observational study to assess the sensitivity, specificity, and predictive value of a panel of noninvasive monitoring tests as correlates with acute rejection, graft loss, deterioration of renal function, and degree of graft fibrosis in renal allograft recipients receiving commonly used immunosuppressive regimens.
DOI: 10.21430/m3ov4wx72n
title: Immune response throughout human pregnancy

description: This study combined the high-parameter functional profiling of peripheral immune cells with a previously unknown cell signaling based Elastic Net (csEN) algorithm to infer a model of interrelated immune features accurately predicting the timing of immunological adaptations over the entire course of a term pregnancy.
DOI: 10.21430/m3pc2vftg8
title: Apc Restoration in Colorectal Cancer

description: The Adenomatous Polyposis Coli (APC) tumor suppressor is mutated in the vast majority of human colorectal cancers (CRC) and leads to deregulated Wnt signaling. To determine whether Apc disruption is required for tumor maintenance, we developed a mouse model of CRC whereby Apc can be conditionally suppressed using a doxycycline-regulated shRNA. Apc suppression produces adenomas in both the small intestine and colon that, in the presence of Kras and p53 mutations, can progress to invasive carcinoma. In established tumors, Apc restoration drives rapid and widespread tumor-cell differentiation and sustained regression without relapse. Tumor regression is accompanied by the re-establishment of normal crypt-villus homeostasis, such that once aberrantly proliferating cells reacquire self-renewal and multi-lineage differentiation capability. Our study reveals that CRC cells can revert to functioning normal cells given appropriate signals, and provide compelling in vivo validation of the Wnt pathway as a therapeutic target for treatment of CRC
DOI: 10.21430/m3pu4tfqbf
title: Diamond-Wofsy ITN002AI: Treating Systemic Lupus Erythematosus (SLE) Patients with CTLA4-IgG4m (RG2077)

description: The purpose of this study is to examine the safety of a single dose of RG2077 in patients with systemic lupus erythematosus (SLE) who are currently receiving cyclophosphamide. This study will also determine if RG2077 is effective in decreasing disease activity in these patients.
DOI: 10.21430/m3pujhyddz
title: Generation of Memory T cells In Young Healthy and Immunocompromised Populations

description: To expand our study of T cell memory repertoires to include healthy children who should still be in the process of generating memory repertoires. These studies will provide data about the age dynamics of memory repertoires. In addition to children, we will examine flu-specific memory repertoires in children with autoimmune diseases who are undergoing mild immunosuppression. This should describe the effects of immunosuppressive therapy on memory formation and function.
DOI: 10.21430/m3pzm1erd2
title: Evaluating differences between healthy placental microbiome and contamination control sample microbiomes

description: Control study was unable to distinguish between placental and contamination control sample bacterial species and abundance
DOI: 10.21430/m3qedb55a6
title: Treatment of MS with Copaxone and Albuterol (AMS01)

description: A randomized, double-masked, 2-arm pilot study of Copaxone and albuterol versus Copaxone and placebo for the treatment of multiple sclerosis. Twenty-four patients with MS who meet the inclusion/exclusion criteria will be enrolled per arm. Each patient will be randomized to receive either 20 mg SQ of Copaxone plus an oral dose of placebo daily or 20 mg SQ of Copaxone plus an oral dose of albuterol daily. Patients will be followed for two years.
DOI: 10.21430/m3r0uubc6k
title: Immune Profiles to Predict Response to Desensitization Therapy in Highly HLA-Sensitized Kidney Transplant Candidates

description: Immune profiles were performed retrospectively in highly sensitized kidney transplant candidates
DOI: 10.21430/m3res1fxtg
title: HLA and KIR Haplotype Sequencing

description: Assay development for HLA and KIR haplotype sequencing
DOI: 10.21430/m3rlfcf61c
title: Histone deacetylation critically determines T cell subset radiosensitivity.

description: Lymphocytes are sensitive to ionizing radiation and naive lymphocytes are more radiosensitive than their memory counterparts. Less is known about radiosensitivity of memory cell subsets. We examined the radiosensitivity of naive (TN), effector memory (TEM), and central memory (TCM) T cell subsets in C57BL/6 mice and found TEM to be more resistant to radiation-induced apoptosis than either TN or TCM. Surprisingly, we found no correlation between the extent of radiation-induced apoptosis in T cell subsets and 1) levels of pro- and antiapoptotic Bcl-2 family members or 2) the H2AX content and maximal gamma H2AX fold change. Rather, TEM cell survival correlated with higher levels of immediate gamma H2AX marking, immediate break binding and genome-wide open chromatin structure. T cells were able to mark DNA damage seemingly instantly (30 s), even if kept on ice. Relaxing chromatin with the histone deacetylase inhibitor valproic acid following radiation or etoposide treatment improved the survival of TCM and TN cells up to levels seen in the resistant TEM cells but did not improve survival from caspase-mediated apoptosis. We conclude that an open genome-wide chromatin state is the key determinant of efficient immediate repair of DNA damage in T cells, explaining the observed T cell subset radiosensitivity differences.
DOI: 10.21430/m3s1p8raii
title: Clonal B cell response to naturally occurring pathogens causing tissue specific immune responses in human

description: Elucidate the trafficking specificity, or diversity, of clonal B cell responses to mucosae-associated illnesses or infections in vivo.
DOI: 10.21430/m3s5mwvvtl
title: Analysis of STAT mediated dendritic cell activation mechanisms with different stimuli.

description: In vitro analysis of STAT mediated dendritic cell activation mechanisms.
DOI: 10.21430/m3s7uqfbvs
title: Immune Responses to Seasonal LAIV 2011-2012 Influenza Vaccination in Humans (see companion study SDY224,SDY564)

description: To use system biology approaches to compare differences in immune responses to vaccine
DOI: 10.21430/m3sb5vlqdv
title: HP47

description: WT and PPARgfl/fl:LysCre+ (R2+) mice were infected with 5x10e7 CFU of different Helicobacter pylori strains (26695, SS1 and PMSS1). A control uninfected group was included for each genotype. Tissues were collected at 9 months post-infection to determine bacterial loads (stomach) and to assess the expansion of CD4 and CD8 T cells, macrophages, dendritic cells and neutrophils by flow cytometry (blood, spleen and stomach).
DOI: 10.21430/m3sbi9fqpc
title: FACTOR ITN507ST: Study of Tolerant Kidney Transplant Recipients

description: The purpose of this multi-center (observational) registry study is to establish a database of clinical and laboratory information that may help to identify any unique characteristics of tolerant participants that differ from participants who reject their kidney after discontinuing immunosuppressive drugs.
DOI: 10.21430/m3sxdbhqts
title: The Role of Epigenetics in Inner City Asthma (ICAC-15)

description: The study is designed to determine the relation between methylation of CpG motifs and asthma in children residing in the inner city.
DOI: 10.21430/m3t1g3yfsx
title: Cdiff32

description: 20 to 25-week old WT mice will be infected with 10^7 cfu/mouse of C. difficile by orogastric gavage. A control uninfected group will be included. The C difficile strain to use is VPI10463 (ATCC 43255).
DOI: 10.21430/m3t9x2tdbk
title: Humoral responses to Influenza vaccination in aged populations - Year 1 2011 (See companion studies SDY622 2012, SDY648 2013, SDY739 2014, SDY819 2015)

description: The purpose of this study was to measure the antibody responses to the Trivalent Inactivated influenza Vaccine(TIV) in young and aged subjects
DOI: 10.21430/m3th57s6x3
title: IG03 Improving Transplant Options of Highly Sensitized Recipients Using IGIV-C 10%

description: The purpose of this study is to determine if IGIV-C, 10% will be effective in converting a donor-recipient crossmatch status from positive to negative. The crossmatch test is used to determine if the donor tissue and recipient tissue are compatible. The study will also evaluate if IGIV-C, 10% will allow successful kidney transplantation in a patient who otherwise would not be able to receive a transplant. Three dose levels of IGIV-C, 10% will be evaluated to determine what dose level is most effective.
DOI: 10.21430/m3ti6pgh9q
title: Monozygotic and Dizygotic Twin Pair T-Cell Responses to Influenza Vaccination 2011

description: Evaluate the variation in immune response between individuals and assess whether it changes as a function of age and similarity in genetic and environmental background (by comparing differences between monozygotic and dizygotic twin pairs of different ages).
DOI: 10.21430/m3tld5bc4s
title: Measuring the Activation Kinetics of Signaling Pathways in virus infected or cytokine treated dendritic cells.

description: Analysis of the activation kinetics of signaling pathways involved with dendritic cell maturation. Analysis of activation measured by the analysis of cells treated with cytokines, cytokine or receptor antagonists or viral infection.
DOI: 10.21430/m3u11klqff
title: Systems Biology Approach to Study Influenza Vaccine 2012-13 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/m3u4sdfnwn
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/m3u7gdofit
title: Immunologic and genomic signatures of influenza vaccine response - 2012 (see companion studies SDY63, SDY404, SDY520)

description: Project 1: Immunologic and genomic signatures of influenza vaccine response - year3 2012
DOI: 10.21430/m3ujnpphfy
title: Peptide display hierarchy protocol

description: Peptide display hierarchy
DOI: 10.21430/m3ut5m218g
title: Atopic Dermatitis Research Network (ADRN) Influenza Vaccine Study (ADRN-05)

description: Atopic dermatitis, also called eczema, is a disease in which the skin is dry and scaly with severe itching. People who have atopic dermatitis often have complications from skin infections; these can include eczema herpeticum after herpes simplex virus infection or eczema vaccinatum after smallpox vaccination. People with atopic dermatitis may suffer from skin infections and may therefore respond differently to vaccinations.
DOI: 10.21430/m3v0rg6s52
title: Shapiro ITN005CT: Islet Transplantation in Type 1 Diabetic Patients

description: Phase 1,single-arm study testing whether islet transplantation procedures and results from a previous study conducted in Edmonton, Canada, can be repeated.
DOI: 10.21430/m3vuylmjsr
title: Systems Biology Approach to Study Influenza Vaccine 2013-14 in Healthy Children (see companion studies SDY364, SDY144, SDY387)

description: To characterize the cellular and transcriptional signatures of response to Flu vaccine in healthy children.
DOI: 10.21430/m3w336pe8d
title: Vincenti ITN023ST: Belatacept to Prevent Organ Rejection in Kidney Transplant Patients

description: This study evaluates whether belatacept and a combination of anti-rejection drugs prevents non-human leukocyte antigen identical renal transplant rejection allowing safe anti-rejection therapy withdrawal one year post-transplant
DOI: 10.21430/m3wgk6k01j
title: Herold II ITN007AI: Treatment with hOKT3-gamma-1 (Ala-Ala) in Type 1 Diabetes Mellitus

description: This is a phase II study examining clinical and immunological effects of humanized FcR non-binding anti-CD3 mAb in participants with Type 1 diabetes mellitus (T1DM), and to develop this therapy to prevent immune destruction leading to beta cell loss.
DOI: 10.21430/m3whm08qlc
title: Immunobiology of Aging

description: A comprehensive database of immune phenotyping and functional profiling of healthy adults can serve as a universal control (denominator) for studies on diseases (numerator) while accounting for age, gender and chronic infection.
DOI: 10.21430/m3wmffh6sy
title: siRNA knock down of RIG-I and TBK1 in DCs

description: DCs were transfected with RIG-I or TBK1 targeting siRNA and infected with NDV 24h post-transfectio
DOI: 10.21430/m3x7k6t1m6
title: WNV induces pro-apoptotic miRNA

description: Profiles of cellular miRNA expression in WNV infected cells were analyzed. Expression of one miRNA Hs_154 (miR-6124) was highly induced in infected cells. This miRNA was shown to target several anti-apoptotic proteins (CTCF and ECOP/ VOPP1), potentially modulating WNV-induced apoptosis.
DOI: 10.21430/m3xe9nap4k
title: HP45

description: Eight to thirteen-weeks-old wild-type and LysMcre mice were infected with two doses (days 0 and 2) of 5x10e7 CFU of either H. pylori strain SS1 or mutant ChePep resuspended in 1X PBS. An uninfected group receiving 1X PBS was included.
DOI: 10.21430/m3xj80w9fk
title: Subcutaneous Immunotherapy for Cockroach (SCITCO/ICAC-18)

description: This is an open label single site trial of German cockroach allergenic extract administered by subcutaneous injection in 10 adults ages 18 to 55 years with perennial allergic rhinitis, asthma, or both. It is designed to study biomarkers of the immune response to allergen immunotherapy as well as the safety of this therapy.
DOI: 10.21430/m3xm74faok
title: SRL1 A Study to Compare Treatment With Sirolimus Versus Standard Treatment in Patients Who Have Received a Kidney Transplant

description: The purpose of this study is to compare treatment with the new drug sirolimus (SRL) versus the standard treatment with cyclosporine (CsA) or tacrolimus in children who have received kidney transplants. SRL is a new medication that may prevent the body's immune system from rejecting organ transplants. After receiving a kidney transplant, the body recognizes the donated kidney as a foreign invader and triggers the immune system to attack the kidney. This can lead to rejection of the new kidney and a failed transplant. To help reduce the risk of kidney rejection, transplant patients are given immunosuppressant drugs, which reduce the body's normal immune response and allow the transplanted organ to function. CsA or tacrolimus are two drugs that are often given to transplant patients. However, these are powerful drugs, and it can cause serious side effects and put a patient at increased risk for infections. SRL is a new drug that has been shown to reduce a transplant patient's chance of rejecting a new kidney, without serious side effects. This study is necessary to test the safety and effectiveness of SRL in children.
DOI: 10.21430/m3xmyvqi9x
title: Heritable influence on the B and T cell receptor repertoire

description: Determing the individual heritable differences result in unique B and T cell receptor repertoires of naive and antigen-experienced cells through next gerneration sequencing.
DOI: 10.21430/m3xwlpc8a2
title: Measles Immunity

description: Specific Aim 1 (Discover) Genome-Wide Association Study [GWAS];Specific Aim 2 (Replicate) Targeted Association Studies;Specific Aim 3: (Validate) Functional Studies
DOI: 10.21430/m3xzma3xl4
title: Differences in Antibody Responses Between Trivalent Inactivated Influenza Vaccine and Live Attenuated Influenza Vaccine (2011-12) Correlate With the Kinetics and Magnitude of Interferon Signaling in Children (see companion studies SDY144, SDY360)

description: To characterize the cellular and transcriptional signatures of response to Flu vaccine in healthy children.
DOI: 10.21430/m3yejtss29
title: T cell responses to H1N1v and a longitudinal study of seasonal influenza vaccination - 2013

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/m3yp3robvt
title: Urinary cell mRNA profiles of rejection (CTOT-04)

description: This is an observational, uncontrolled and non-randomized study in which all deceased donor and living donor kidney allograft recipients at all participating centers are eligible for enrollment. The primary aims are : (1) To investigate whether the levels of mRNA encoding cytotoxic proteins perforin and granzyme B, and T cell marker CD3, are a sensitive and specific noninvasive diagnostic test for acute rejection in renal allografts; and (2) To determine whether mRNA profiles of sequential urine specimens predict the development of rejection. We will investigate whether mRNA profiles predict kidney graft function as assessed by estimated GFR at 12, 24 and 36 months after transplantation.
DOI: 10.21430/m3yq7o1cpl
title: AbATE ITN027AI: Autoimmunity-blocking Antibody for Tolerance in Recently Diagnosed Type 1 Diabetes

description: Anti-CD3 monoclonal antibody (a.k.a. hOKT3gamma1 [Ala-Ala],teplizumab, MGA031) is a humanized antibody that is commonly used to prevent organ rejection. The purpose of this study is determine whether anti-CD3 mAb treatment can halt the progression of newly diagnosed type 1 diabetes.
DOI: 10.21430/m3yyebxj0l
title: Khoury ITN006AI: NMS02 Safety of RG2007 (CTLA4-IgG4m) in Patients with Multiple Sclerosis

description: This study will test the safety of a new drug called RG2077 that is designed to treat MS. The study will not determine whether RG2077 is effective in treating MS, only whether it is safe.
DOI: 10.21430/m3zf1f6rno
title: HALT-MS ITN033AI: High-Dose Immunosuppression and Autologous Transplantation for Multiple Sclerosis

description: The purpose of this study is to determine the effectiveness of a new treatment for multiple sclerosis (MS), a serious disease in which the immune system attacks the brain and spinal cord. MS can be progressive and severe and lead to significant disability. The study treatment involves the use of high-dose chemotherapeutic drugs to suppress the immune system. The participant's own (autologous) blood-forming (hematopoietic, CD34+) stem cells are collected before the chemotherapy is given, and then transplanted back into the body following treatment. Transplantation of autologous hematopoietic stem cells is required to prevent very prolonged periods of low blood cell counts after the high-dose chemotherapy.
DOI: 10.21430/m3zlpc4wqz
title: Immune Responses to Seasonal TIV 2012-2013 Influenza Vaccination in Humans (see companion study SDY396,SDY224)

description: To use system biology approaches to compare differences in immune responses to vaccine
DOI: 10.21430/m3ztr9vq2u
title: Use of Infliximab for the Treatment of Pemphigus Vulgaris (APV01)

description: Pemphigus vulgaris (PV) is a rare skin disorder that causes blistering of the skin and mucous membranes. Infliximab is a man-made antibody used to treat certain types of immune system disorders, including rheumatoid arthritis and Crohn's disease. This study will determine if infliximab given in combination with prednisone is a safe and effective treatment for adults with PV.
DOI: 10.21430/m3zy0o1z91
title: VZV A Study of the Safety and Effectiveness of Varivax (the Chicken Pox Vaccine) in Children Who Have Received Kidney Transplants

description: The purpose of this study is to find out whether Varivax is safe for use in children with kidney transplants and whether it protects children from serious infection. Varivax is a vaccine against varicella zoster virus (VZV), the virus that causes chicken pox (varicella) and shingles (zoster). Healthy children are already receiving Varivax shots to protect them from chicken pox. Few children with kidney transplants have received Varivax because doctors have been concerned that Varivax might cause serious reactions in them. On the other hand, VZV infection can be a life-threatening disease in these children. For this reason, doctors want to learn whether Varivax might safely prevent VZV infections in children who have had kidney transplants.
DOI: 10.21430/m302l1ulgw
title: Multiomics modeling of the immunome, transcriptome, microbiome, proteome and metabolome adaptations during human pregnancy

description: Biological mechanisms produce immunologic, metabolomic, proteomic, genomic and microbiomic adaptations during the course of pregnancy.
DOI: 10.21430/m30e3b8h7h
title: 35th Multicenter Airway Research Collaboration (MARC-35)

description: In this secondary analysis of MARC-35 data, we detected an association between the microbiota profiles of nasal swabs (NS) and nasopharyngeal aspirates (NPA) collected from infants (age &lt;1 year) hospitalized for bronchiolitis. Study data is available by request.
DOI: 10.21430/m30ib1zzdj
title: B-cell Immunity to Influenza (SLVP017) 2010

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.