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FAIRplus D1.01 First 3 data sets from Pilots selected and available

Philip Gribbon, Wei Gu, Ferran Sanz, Vassilios Ioannidis, Manfred Kohler, Andrea Zaliani, David Henderson, Dorothy Reilly, Philippe Rocca-Serra
<span title="2019-07-09">2019</span> <i title="Zenodo"> Zenodo </i> &nbsp;
Candidate Pilot IMI projects (eTOX, ND4BB-TRANSLOCATION, ReSOLUTE, Aetionomy, OncoTrack and OPENPhacts) were initially identified based upon a long list highlighted in the DoA and through the FAIRplus partner network. Summaries of the activities and data sets available within these candidate Pilot IMI projects were collected via a survey tool, and further information was presented at the FAIRplus kick-off event by project owners. Following review, WP1 prioritized 4 IMI projects as Pilots,
more &raquo; ... ND4BB-TRANSLOCATION, ReSOLUTE and OncoTrack). The prioritized Pilots were ratified by the General Assembly and formally selected. Each project was then assigned a key FAIRplus contact person, who worked with the data owners to identify, prioritise and release suitable data sets to the FAIRplus consortium, Squads and WP2 / 3 members. As of 30.06.2019, data sets have been released from eTOX, ND4BB-TRANSLOCATION and ReSOLUTE. OncoTrack is on course to release data in July 2019.
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.5281/zenodo.3274229">doi:10.5281/zenodo.3274229</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/xuf4775p4jhqhi4z3b75pytu3i">fatcat:xuf4775p4jhqhi4z3b75pytu3i</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20201223055951/https://zenodo.org/record/3274230/files/FAIRplus%20D1.01%20Access_to_3_Pilot_Data_Sets_V1_4.docx-2.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/66/45/6645e008869d596c00f3f6195d916249a376000b.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.5281/zenodo.3274229"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> zenodo.org </button> </a>

FAIRplus: D3.3 Report on IMI projects for data types and current technical solutions

Tony Burdett, Mélanie Courtot, Fuqi Xu, Nick Juty, Jolanda Strubel, Wei Gu, Danielle Welter, Karsten Quast, Dorothy Reilly
<span title="2021-01-08">2021</span> <i title="Zenodo"> Zenodo </i> &nbsp;
type R Dissemination level PU Description of Work Version Date V1.0 08 Jan 2021 Version Date Description V0.1 01 Dec 2020 First Draft V0.2 09 Dec 2020 Circulated for expert review (Dorothy  ...  Reilly and Wei Gu) V0.3 18 Dec 2020 Comments from reviewers address V0.4 22 Dec 2020 Final review V1.0 08 Jan 2021 Final Version Data availability 19 Cost/value analysis 19 Future Developments  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.5281/zenodo.4428720">doi:10.5281/zenodo.4428720</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/s34gvhki2naulovkms7gyaqiru">fatcat:s34gvhki2naulovkms7gyaqiru</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20210114115236/https://zenodo.org/record/4428721/files/D3.3%20Report%20on%20IMI%20projects%20for%20data%20types%20and%20current%20technical%20solutions.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/fe/f8/fef8d493146ab81a6f08483f5c4e62527b49ad13.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.5281/zenodo.4428720"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> zenodo.org </button> </a>

Laboratory Policies and Practices for the Genetic Testing of Children: A Survey of the Helix Network

Dorothy C. Wertz, Philip R. Reilly
<span title="">1997</span> <i title="Elsevier BV"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/ho5llzhlhzhmrlusxzz4j2bery" style="color: black;">American Journal of Human Genetics</a> </i> &nbsp;
In order to discover whether laboratories have policies regarding the testing of unaffected children, we surveyed all laboratories registered with Helix, a national network of DNA diagnostic laboratories. Of 186 laboratories asked to respond anonymously to a fourpage questionnaire, 156 (84%) replied. A screening question removed 51 laboratories that provided no clinical services. Of the remaining 105, 92% said that their requisition forms asked the person's age. Substantial minorities had
more &raquo; ... es for the testing of minors for late-onset disorders (46%), for carrier status for recessive disorders (33%), or for disorders for which the test offers no medical benefit within 3 years (33%). Most laboratories are responsive to parental requests. For 12 of 13 late-onset disorders, the majority of laboratories that offered testing had had requests to test children. The majority had tested healthy children, !12 years of age, for eight disorders. Approximately 22% had tested children, !12 years of age, for Huntington disease. Majorities had received requests to test healthy children for carrier status for 10 of 15 recessive or Xlinked disorders and had tested children, !12 years of age, for 6 of these disorders, including cystic fibrosis, hemophilia A, fragile X syndrome, and Duchenne muscular dystrophy. Approximately 45% of the laboratories occasionally had provided tests directly to consumers. In view of the possibility that the harms of presymptomatic diagnoses of children sometimes may outweigh the benefits, our results suggest a need for consistent laboratory policies designed for the best interests of the child and the family.
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1086/301593">doi:10.1086/301593</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/9345088">pmid:9345088</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC1716052/">pmcid:PMC1716052</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/k27xezwul5do3c63xlqnfxfm4q">fatcat:k27xezwul5do3c63xlqnfxfm4q</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20190413222643/https://core.ac.uk/download/pdf/82077512.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/ba/44/ba44b7fc6472a159c037e3b12db70fb1f54512ce.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1086/301593"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> Publisher / doi.org </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1716052" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Terminological debate over language impairment in children: forward movement and sticking points

Sheena Reilly, Dorothy V. M. Bishop, Bruce Tomblin
<span title="">2014</span> <i title="Wiley"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/jsnikbfwgvbsxmrddozc4szxi4" style="color: black;">International journal of language and communication disorders</a> </i> &nbsp;
In this special issue Reilly et al. and Bishop review the history of the most widely used label, 'specific language impairment' (SLI), and discuss the pros and cons of various terms.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1111/1460-6984.12111">doi:10.1111/1460-6984.12111</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/25142092">pmid:25142092</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC4312775/">pmcid:PMC4312775</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/7gwboon4jvcqjguykec6zwu7da">fatcat:7gwboon4jvcqjguykec6zwu7da</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20210718005859/https://minerva-access.unimelb.edu.au/bitstream/handle/11343/263609/PMC4312775.pdf;jsessionid=A01715B1EDC4CA13DF8B803ABBBA546D?sequence=1" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/ba/6c/ba6ce2b1b786d437ca08d5846ade1bd246d30fc6.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1111/1460-6984.12111"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> Publisher / doi.org </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4312775" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

FAIRplus: D1.3 The first 15 IMI data sets selected and available for inclusion in WP 2 - 4 processes

Ola Engkvist, Philip Gribbon, Vassilios Ioannidis, Manfred Kohler, David Henderson, Andrea Zaliani, Gesa Witt, Dorothy Reilly
<span title="2021-01-08">2021</span> <i title="Zenodo"> Zenodo </i> &nbsp;
The FAIRplus Work Package 1 team has continued to engage with the IMI projects in order to identify, qualify and secure mutually beneficial collaborations with FAIRplus. The procedure for evaluating projects has been iteratively refined to provide increased clarity on the FAIR status of incoming projects, the competencies of the data sets and thereby ensuring optimal alignment between external project and FAIRplus goals. A total of 15 projects have been identified and will be ready to engage
more &raquo; ... work with internal FAIRplus teams through the next phase of the project.
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.5281/zenodo.4428746">doi:10.5281/zenodo.4428746</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/vcthi5bazjb5hcvc5nmcqykn7q">fatcat:vcthi5bazjb5hcvc5nmcqykn7q</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20210114130513/https://zenodo.org/record/4428746/files/FAIRplus%20D1.3.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/6d/0d/6d0dfc32e7778b7c195e54249f8e026c7575b68e.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.5281/zenodo.4428746"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> zenodo.org </button> </a>

Phenotypic characterization of HIV-specific CD8 T cells during acute infant HIV infection

Jennifer Slyker, Tao Dong, Grace John-Stewart, Barbara Lohman-Payne, Marie Reilly, Ann Atzberger, Stephen Taylor, Elizabeth Maleche-Obimbo, Dorothy Mbori-Ngacha, Sarah Rowland-Jones
<span title="">2009</span> <i title="Springer Nature"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/rhihhtbynza5veezyszwayabia" style="color: black;">Retrovirology</a> </i> &nbsp;
Objective Infants infected with HIV-1 fail to contain viral replication as efficiently as adults. In the absence of antiretroviral therapy (ART), opportunistic infections are common and mortality rates range between 10-45% in HIV-infected infants. To understand better the factors underlying rapid infant HIV-1 progression, we examined HIV-specific CD8 T cells during the acute and chronic phases of infection. From 1999From -2003. Other than antenatal prophylaxis, neither women nor infants
more &raquo; ... ART. Serial blood specimens were obtained at delivery and months 1, 3, and quarterly thereafter until death or two years. IFN-gammaproducing CD8 T cells were quantified with ELISpot assays using HLA-matched HIV-1 peptides as antigens. In a subset of 7 infants, HIV-specific CD8 T cells were quantified using class I HLA tetramers. Cellular phenotype was described using multicolour flow cytometry; PBMC were stained with tetramers and antibodies to cellular proteins. Methods HIV-infected pregnant Kenyan women were recruited
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/1742-4690-6-s1-o7">doi:10.1186/1742-4690-6-s1-o7</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/icrbipypgzedlp5eywff7tkgbm">fatcat:icrbipypgzedlp5eywff7tkgbm</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20170809162106/https://retrovirology.biomedcentral.com/track/pdf/10.1186/1742-4690-6-S1-O7?site=retrovirology.biomedcentral.com" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/b0/99/b099ec9aa1e5f9cfd2552f8dc3e6f8198b643914.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/1742-4690-6-s1-o7"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> springer.com </button> </a>

FAIRplus: D1.2 Selection criteria and guidelines for data sources from IMI projects and EFPIA internal databases

Philip Gribbon, Wei Gu, Ferran Sanz, Vassilios Ioannidis, Ola Engkvist, David Henderson, Dorothy Reilly, Philippe Rocca-Serra, Andrea Zaliani, Gesa Witt, Manfred Kohler, Robert Giessmann
<span title="2019-12-31">2019</span> <i title="Zenodo"> Zenodo </i> &nbsp;
Creating selection criteria and guidelines, to aid identification of IMI datasets with the potential to generate high societal impact upon FAIRification, is an important goal of FAIRplus. This deliverable report describes the process put in place to identify, evaluate and select projects. Two thirds of projects to be addressed by FAIRplus will cover societal priorities of H2020, namely; 1) promoting healthy ageing[1]; 2) addressing chronic diseases; 3) neurodegenerative diseases and 4)
more &raquo; ... of antibiotic resistance. In addition, we have identified cross-cutting projects "Cross" which provide tools such as cell lines, biomarkers and animal models, which enable research progression in the primary priority areas. In the first period, some 25 projects have been identified based on the application of the criteria and discussions are ongoing with these consortia representatives in order to provide a steady flow of datasets into FAIRplus. [1] see http://ec.europa.eu/programmes/horizon2020/en/h2020-section/health-demographic-change-and-wellbeing
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.5281/zenodo.3596024">doi:10.5281/zenodo.3596024</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/6xaxc3btjnbdpoppff5wzc5mqy">fatcat:6xaxc3btjnbdpoppff5wzc5mqy</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20200122011700/https://zenodo.org/record/3596024/files/D1.2_FAIRplus_Selection%20criteria%20and%20guidelines%20for%20data%20from%20IMI%20projects%20and%20EFPIA.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/26/b1/26b121a44f22fdd8b4a491ad0b3aa272aec3e460.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.5281/zenodo.3596024"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> zenodo.org </button> </a>

Morbidity and Mortality in Breastfed and Formula-Fed Infants of HIV-1–Infected Women

Dorothy Mbori-Ngacha, Ruth Nduati, Grace John, Marie Reilly, Barbra Richardson, Anthony Mwatha, Jeckoniah Ndinya-Achola, Job Bwayo, Joan Kreiss
<span title="2001-11-21">2001</span> <i title="American Medical Association (AMA)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/tlbcf4zay5agfmghpe7enspjla" style="color: black;">Journal of the American Medical Association (JAMA)</a> </i> &nbsp;
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1001/jama.286.19.2413">doi:10.1001/jama.286.19.2413</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/11712936">pmid:11712936</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC3358136/">pmcid:PMC3358136</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/xxtiw5nhpjantkbgz3q2n74eky">fatcat:xxtiw5nhpjantkbgz3q2n74eky</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20190501013330/https://jamanetwork.com/journals/jama/articlepdf/194386/JOC10358.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/f2/6c/f26ca106178ea836d90d75dd437506ffd47b6da1.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1001/jama.286.19.2413"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> Publisher / doi.org </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3358136" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Morbidity and Mortality in Breastfed and Formula-Fed Infants of HIV-1–Infected Women: A Randomized Clinical Trial

Dorothy Mbori-Ngacha, Ruth Nduati, Grace John, Marie Reilly, Barbra Richardson, Anthony Mwatha, Jeckoniah Ndinya-Achola, Job Bwayo, Joan Kreiss
<span title="">2002</span> <i title="Ovid Technologies (Wolters Kluwer Health)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/eab4gghxfvb2bgjadryo4lazbu" style="color: black;">Obstetrical and Gynecological Survey</a> </i> &nbsp;
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1097/00006254-200205000-00010">doi:10.1097/00006254-200205000-00010</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/u56goge3jjfdbe5loez757rdqi">fatcat:u56goge3jjfdbe5loez757rdqi</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20170819054208/http://jama.jamanetwork.com/data/journals/jama/4808/joc10358.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/a6/37/a6377026a7f7c229a08aa50a2639bc557d16ce0b.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1097/00006254-200205000-00010"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> Publisher / doi.org </button> </a>

Phenotypic Characterization of HIV-Specific CD8+ T Cells during Early and Chronic Infant HIV-1 Infection

Jennifer A. Slyker, Grace C. John-Stewart, Tao Dong, Barbara Lohman-Payne, Marie Reilly, Ann Atzberger, Stephen Taylor, Elizabeth Maleche-Obimbo, Dorothy Mbori-Ngacha, Sarah L. Rowland-Jones, Xu Yu
<span title="2011-05-31">2011</span> <i title="Public Library of Science (PLoS)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/s3gm7274mfe6fcs7e3jterqlri" style="color: black;">PLoS ONE</a> </i> &nbsp;
Although CD8 + T cells play an important role in the containment of adult HIV-1 replication, their role in infant HIV-1 infection is not as well understood. Impaired HIV-specific CD8 + T cell responses may underlie the persistently high viral loads observed in infants. We examined the frequency and phenotype of infant HIV-specific CD8 + T cells in 7 HIV-infected antiretroviral therapy-naïve infants during the first 2 years of life, using class I HLA tetramers and IFN-c-ELISPOT. The frequency
more &raquo; ... 088-3.9% of CD3 + CD8 + cells) and phenotype (CD27 + CD28 2 , CD45RA +/2 , CD57 +/2 , HLA-DR + , CD95 + ) of infant HIV-specific CD8 + T cells were similar to reports in adults undergoing early infection. Unlike adults, at 23-24 months postinfection a high frequency of HIV-specific CD8 + T cells expressed HLA-DR (mean 80%, range 68-85%) and CD95 (mean 88%, range 79-96%), suggesting sustained activation and vulnerability to apoptosis. Despite comparable expansion of HIVspecific CD8 +
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1371/journal.pone.0020375">doi:10.1371/journal.pone.0020375</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/21655252">pmid:21655252</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC3105047/">pmcid:PMC3105047</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/4vnz52vb3jatviuvqyarybgaoi">fatcat:4vnz52vb3jatviuvqyarybgaoi</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20170929092155/http://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0020375&amp;type=printable" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/c1/3f/c13f70dac22c0d9702ac477a5dc19679576fa5e5.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1371/journal.pone.0020375"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> plos.org </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3105047" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Modified vaccinia Ankara expressing HIVA antigen stimulates HIV-1-specific CD8 T cells in ELISpot assays of HIV-1 exposed infants

Jennifer A. Slyker, Barbara L. Lohman, Dorothy A. Mbori-Ngacha, Marie Reilly, Edmund G.-T. Wee, Tao Dong, Andrew J. McMichael, Sarah L. Rowland-Jones, Tomas Hanke, Grace John-Stewart
<span title="">2005</span> <i title="Elsevier BV"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/wqdavxmwkrh4ndbs3jgtlylvmq" style="color: black;">Vaccine</a> </i> &nbsp;
Recombinant modified vaccinia virus Ankara expressing HIV-1 antigens (MVA.HIVA) was used in ELISpot assays to monitor HIV-1-specific T cell responses in infants. Responses to MVA.HIVA and HIV-1 peptides were examined in 13 infected and 81 exposed uninfected infants in Nairobi, Kenya. Responses to MVA.HIVA (38%) and peptide stimulation (38%) were similar in frequency (p = 1.0) and magnitude (mean 176 versus 385 HIVSFU/10 6 , p = 0.96) in HIV-1 infected infants. In exposed uninfected infants,
more &raquo; ... HIVA detected more positive responses and higher magnitude responses as compared to peptide. MVA.HIVA ELISpot is a sensitive method for quantification of HIV-1-specific CD8+ T cell responses in HIV-1 exposed infants. These results demonstrate the relevance of HIV-1 clade A consensus-derived immunogen HIVA for the viruses currently circulating in Nairobi.
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1016/j.vaccine.2005.01.145">doi:10.1016/j.vaccine.2005.01.145</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/16043269">pmid:16043269</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC3382083/">pmcid:PMC3382083</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/gyobwdaddfhshctw2gd53a4zym">fatcat:gyobwdaddfhshctw2gd53a4zym</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20200209110632/http://europepmc.org/backend/ptpmcrender.fcgi?accid=PMC3382083&amp;blobtype=pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/29/3a/293a9a7121b435ad928353d4a8a00261921823a2.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1016/j.vaccine.2005.01.145"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> elsevier.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3382083" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Effect of organic, conventional and mixed cultivation practices on soil microbial community structure and nematode abundance in a cultivated onion crop

Kim Reilly, Eileen Cullen, Theodora Lola-Luz, Dorothy Stone, Juan Valverde, Michael Gaffney, Nigel Brunton, James Grant, Bryan S Griffiths
<span title="2013-06-07">2013</span> <i title="Wiley"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/lxhbat5bozazdncadrcxojlonq" style="color: black;">Journal of the Science of Food and Agriculture</a> </i> &nbsp;
2013), Effect of organic, conventional and mixed cultivation practices on soil microbial community structure and nematode abundance in a cultivated onion crop, J. Sci. Food Agric., 93: 3700-3709. Abstract BACKGROUND Responses of the soil microbial and nematode community to organic and conventional agricultural practices were studied using the Teagasc Kinsealy Systems Comparison trial as the experimental system. The trial is a long term field experiment which divides conventional and organic
more &raquo; ... culture into component pest-control and soil treatment practices. We hypothesised that management practices would affect soil ecology and used community level physiological profiles (CLPP), microbial and nematode counts, and denaturing gradient gel electrophoresis (DGGE) to characterise soil microbial communities in plots used for onion (Allium cepa L.) cultivation. RESULTS Microbial activity and culturable bacterial counts were significantly higher under fully organic management. Culturable fungi, actinomycete and nematode counts showed a consistent trend towards higher numbers under fully organic management but these data were not statistically significant. No differences were found in the fungal/bacterial ratio. DGGE banding patterns and sequencing of excised bands showed clear differences between treatments. Putative onion fungal pathogens were predominantly sequenced under conventional soil treatment practices whilst putative soil suppressive bacterial species were predominantly sequenced from the organic pest-control treatment plots.
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1002/jsfa.6206">doi:10.1002/jsfa.6206</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/23633428">pmid:23633428</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/6rzm3hahpjazdknk3klsdnvwya">fatcat:6rzm3hahpjazdknk3klsdnvwya</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20171114074701/https://core.ac.uk/download/pdf/19488314.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/59/c1/59c1b8fc9ea6f292231edcf4db74d14e635c1b46.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1002/jsfa.6206"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> wiley.com </button> </a>

Higher Transplacental Pathogen-Specific Antibody Transfer Among Pregnant Women Randomized to Triple Antiretroviral Treatment Versus Short Course Zidovudine

Rose Bosire, Carey Farquhar, Ruth Nduati, Kristina Broliden, Stanley Luchters, Philippe Van de Perre, Isabelle De Vincenzi, Michele Merkel, Veronicah Wachuka, Dorothy Mbori-Ngacha, Grace John-Stewart, Barbara Lohman-Payne (+1 others)
<span title="">2018</span> <i title="Ovid Technologies (Wolters Kluwer Health)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/4l7cr5vru5gdtklarna2x2mvs4" style="color: black;">The Pediatric Infectious Disease Journal</a> </i> &nbsp;
Background-HIV-1 infection may impair transplacental antibody transfer to infants. The impact of highly active antiretroviral treatment (ART) given during pregnancy on transplacental antibody transport is unknown. Methods-HIV-1 infected pregnant women with CD4 counts between 200 -500 were randomized to short-course zidovudine (ZDV) or triple ART at 32 weeks gestation for prevention of mother-to-child HIV-1 transmission. Levels of maternal antibody against measles, pneumococcus and rotavirus at
more &raquo; ... elivery, and antibody transfer to the baby through cord blood, were compared between trial arms. Results-Overall, 141 and 148 women were randomized to triple ART and ZDV respectively; cord blood was available for a subset (n=20 in triple ART and n=22 in ZDV). Maternal antibody levels to all pathogens during pregnancy and at delivery were not significantly different between arms. Within each arm antibody levels at delivery were lower than at enrolment. For all antibodies, a woman's levels prior to delivery were an important predictor of amount transferred to her infant. Women on triple ART transferred higher levels of pathogen-specific antibodies when compared to women on short course zidovudine. Conclusions-Women on triple ART transferred higher levels of pathogen-specific antibodies compared to women on zidovudine alone. Bosire et al.
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1097/inf.0000000000001749">doi:10.1097/inf.0000000000001749</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/28834955">pmid:28834955</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC5807132/">pmcid:PMC5807132</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/z3ds3yexwnbydln6myxxddhu5i">fatcat:z3ds3yexwnbydln6myxxddhu5i</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20191020021043/http://europepmc.org/backend/ptpmcrender.fcgi?accid=PMC5807132&amp;blobtype=pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/e1/8f/e18f8027672309f656401cd0d7ca0ca7235228f6.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1097/inf.0000000000001749"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> Publisher / doi.org </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5807132" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Primary care and youth mental health in Ireland: qualitative study in deprived urban areas

Dorothy Leahy, Elisabeth Schaffalitzky, Claire Armstrong, Gerard Bury, Paula Cussen-Murphy, Rachel Davis, Barbara Dooley, Blanaid Gavin, Rory Keane, Eamon Keenan, Linda Latham, David Meagher (+11 others)
<span title="">2013</span> <i title="Springer Nature"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/zkydxdwws5cqngcwaaz4j34tbe" style="color: black;">BMC Family Practice</a> </i> &nbsp;
Mental disorders account for six of the 20 leading causes of disability worldwide with a very high prevalence of psychiatric morbidity in youth aged 15-24 years. However, healthcare professionals are faced with many challenges in the identification and treatment of mental and substance use disorders in young people (e.g. young people's unwillingness to seek help from healthcare professionals, lack of training, limited resources etc.) The challenge of youth mental health for primary care is
more &raquo; ... ially evident in urban deprived areas, where rates of and risk factors for mental health problems are especially common. There is an emerging consensus that primary care is well placed to address mental and substance use disorders in young people especially in deprived urban areas. This study aims to describe healthcare professionals' experience and attitudes towards screening and early intervention for mental and substance use disorders among young people (16-25 years) in primary care in deprived urban settings in Ireland. Methods: The chosen method for this qualitative study was inductive thematic analysis which involved semistructured interviews with 37 healthcare professionals from primary care, secondary care and community agencies at two deprived urban centres. Results: We identified three themes in respect of interventions to increase screening and treatment: (1) Identification is optimised by a range of strategies, including raising awareness, training, more systematic and formalised assessment, and youth-friendly practices (e.g. communication skills, ensuring confidentiality); (2) Treatment is enhanced by closer inter-agency collaboration and training for all healthcare professionals working in primary care; (3) Ongoing engagement is enhanced by motivational work with young people, setting achievable treatment goals, supporting transition between child and adult mental health services and recognising primary care's longitudinal nature as a key asset in promoting treatment engagement. Conclusions: Especially in deprived areas, primary care is central to early intervention for youth mental health. Identification, treatment and continuing engagement are likely to be enhanced by a range of strategies with young people, healthcare professionals and systems. Further research on youth mental health and primary care, including qualitative accounts of young people's experience and developing complex interventions that promote early intervention are priorities. (350 words)
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/1471-2296-14-194">doi:10.1186/1471-2296-14-194</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/24341616">pmid:24341616</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC3880165/">pmcid:PMC3880165</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/eompn7xhdrgltmxpn37vjia6oa">fatcat:eompn7xhdrgltmxpn37vjia6oa</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20180720035046/https://bmcfampract.biomedcentral.com/track/pdf/10.1186/1471-2296-14-194?site=bmcfampract.biomedcentral.com" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/d6/25/d6250dcfdba4f54cc8a8002e7a18a56608191e60.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/1471-2296-14-194"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> springer.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3880165" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

The Stem Cell Discovery Engine: an integrated repository and analysis system for cancer stem cell comparisons

Shannan J. Ho Sui, Kimberly Begley, Dorothy Reilly, Brad Chapman, Ray McGovern, Philippe Rocca-Sera, Eamonn Maguire, Gabriel M. Altschuler, Terah A. A. Hansen, Ramakrishna Sompallae, Andrei Krivtsov, Ramesh A. Shivdasani (+6 others)
<span title="2011-11-24">2011</span> <i title="Oxford University Press (OUP)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/hfp6p6inqbdexbsu4r7usndpte" style="color: black;">Nucleic Acids Research</a> </i> &nbsp;
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/gkr1051">doi:10.1093/nar/gkr1051</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/22121217">pmid:22121217</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC3245064/">pmcid:PMC3245064</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/jf6rmgi74jfjxburc22niclt4y">fatcat:jf6rmgi74jfjxburc22niclt4y</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20190501181026/https://dash.harvard.edu/bitstream/handle/1/8646706/3245064.pdf;jsessionid=A49EF95FC91E8BB032175EBC861E17C7?sequence=1" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/a8/23/a8232aecd675398b0961c1233719aa37773528ce.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/gkr1051"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> oup.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3245064" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>
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