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{"title"=>"ProteINSIDE to easily investigate proteomics data from ruminants: Application to mine proteome of adipose and muscle tissues in bovine foetuses", "type"=>"journal", "authors"=>[{"first_name"=>"Nicolas", "last_name"=>"Kaspric", "scopus_author_id"=>"56674674000"}, {"first_name"=>"Brigitte", "last_name"=>"Picard", "scopus_author_id"=>"7103409531"}, {"first_name"=>"Matthieu", "last_name"=>"Reichstadt", "scopus_author_id"=>"15061769800"}, {"first_name"=>"Jérémy", "last_name"=>"Tournayre", "scopus_author_id"=>"56134949100"}, {"first_name"=>"Muriel", "last_name"=>"Bonnet", "scopus_author_id"=>"57191950474"}], "year"=>2015, "source"=>"PLoS ONE", "identifiers"=>{"sgr"=>"84930672352", "doi"=>"10.1371/journal.pone.0128086", "pui"=>"604612271", "pmid"=>"26000831", "scopus"=>"2-s2.0-84930672352", "issn"=>"19326203"}, "id"=>"74401bab-9e8e-3b56-bfdb-165c4dfe742f", "abstract"=>"Genomics experiments are widely acknowledged to produce a huge amount of data to be analysed. The challenge is to extract meaningful biological context for proteins or genes which is currently difficult because of the lack of an integrative workflow that hinders the efficiency and the robustness of data mining performed by biologists working on ruminants. Thus, we designed ProteINSIDE, a free web service (www.proteinside.org) that (I) provides an overview of the biological information stored in public databases or provided by annotations according to the Gene Ontology, (II) predicts proteins that are secreted to search for proteins that mediate signalisation between cells or tissues, and (III) analyses protein-protein interactions to identify proteins contributing to a process or to visualize functional pathways. Using lists of proteins or genes as a unique input, ProteINSIDE is an original all-in-one tool that merges data from these searches to present a fast overview and integrative analysis of genomic and proteomic data from Bovine, Ovine, Caprine, Human, Rat, and Murine species. ProteINSIDE was bench tested with 1000 proteins identifiers from each species by comparison with DAVID, BioMyn, AgBase, PrediSi, and Phobius. Compared to DAVID or BioMyn, identifications and annotations provided by ProteINSIDE were similar from monogastric proteins but more numerous and relevant for ruminants proteins. ProteINSIDE, thanks to SignalP, listed less proteins potentially secreted with a signal peptide than PrediSi and Phobius, in agreement with the low false positive rate of SignalP. In addition ProteINSIDE is the only resource that predicts proteins secreted by cellular processes that do not involve a signal peptide. Lastly, we reported the usefulness of ProteINSIDE to bring new biological hypotheses of research from proteomics data: the biological meaning of the uptake of adiponectin by the foetal muscle and a role for autophagy during ontogenesis of adipose and muscle tissues.", "link"=>"http://www.mendeley.com/research/proteinside-easily-investigate-proteomics-data-ruminants-application-mine-proteome-adipose-muscle-ti", "reader_count"=>13, "reader_count_by_academic_status"=>{"Professor > Associate Professor"=>1, "Researcher"=>2, "Student > Doctoral Student"=>2, "Student > Ph. D. Student"=>5, "Student > Master"=>2, "Student > Bachelor"=>1}, "reader_count_by_user_role"=>{"Professor > Associate Professor"=>1, "Researcher"=>2, "Student > Doctoral Student"=>2, "Student > Ph. D. Student"=>5, "Student > Master"=>2, "Student > Bachelor"=>1}, "reader_count_by_subject_area"=>{"Engineering"=>1, "Biochemistry, Genetics and Molecular Biology"=>2, "Agricultural and Biological Sciences"=>7, "Medicine and Dentistry"=>1, "Psychology"=>1, "Computer Science"=>1}, "reader_count_by_subdiscipline"=>{"Engineering"=>{"Engineering"=>1}, "Medicine and Dentistry"=>{"Medicine and Dentistry"=>1}, "Psychology"=>{"Psychology"=>1}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>7}, "Computer Science"=>{"Computer Science"=>1}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>2}}, "group_count"=>3}

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• http://doi.org/10.1152/physiolgenomics.00020.2020
• http://doi.org/10.1002/ejlt.201700039
• http://doi.org/10.3389/fonc.2020.00237
• http://doi.org/10.1021/acs.jafc.0c02086
• http://doi.org/10.1016/j.foodres.2019.108739
• http://doi.org/10.3390/ijms21020664
• http://doi.org/10.3390/proteomes4020017
• http://doi.org/10.1161/ATVBAHA.119.312826
• http://doi.org/10.1016/j.jprot.2020.103685
• http://doi.org/10.3390/ncrna5020033
• http://doi.org/10.3390/ijms21124375
• http://doi.org/10.1039/C6MB00224B
• http://doi.org/10.1016/j.meatsci.2018.06.041
• http://doi.org/10.1016/j.dib.2019.105105
• http://doi.org/10.18632/oncotarget.9740
• http://doi.org/10.1155/2016/2185323

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• {"url"=>"http%3A%2F%2Fjournals.plos.org%2Fplosone%2Farticle%3Fid%3D10.1371%252Fjournal.pone.0128086", "share_count"=>2, "like_count"=>5, "comment_count"=>3, "click_count"=>0, "total_count"=>10}

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• {"id"=>"601895497129820161", "text"=>"ProteINSIDE簡単反動物由来プロテミクスデタ調査:鉱山脂肪筋肉テシ牛胎児プロテム解析応用 http://t.co/mP8L4qBpoF 課題取組反芻動物生物学者実行デタマニグ堅牢効率妨、統合ワクフロ不足現在困難タパク質遺伝子意味生物学文脈抽出。公共デタベスProteINS", "created_at"=>"2015-05-22T23:40:43Z", "user"=>"abbrabot", "user_name"=>"ひらがなは各自補うこと", "user_profile_image"=>"http://pbs.twimg.com/profile_images/1210855216/omu-gai_normal.jpg"}
• {"id"=>"618721813045116928", "text"=>"Proteomic studies? Don't forget to lock at http://t.co/JsCqcuDT3v to improve your data http://t.co/tVEEhc6FQF #JOBIM2015", "created_at"=>"2015-07-08T10:02:30Z", "user"=>"Spaque57", "user_name"=>"NiKO", "user_profile_image"=>"http://pbs.twimg.com/profile_images/3160985022/0bdaeefbf1240cd343ec375f63781581_normal.png"}

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Figshare

• {"files"=>["https://ndownloader.figshare.com/files/2079417"], "description"=>"<p>¹ confirmed by GO terms</p><p>² confirmed by TargetP</p><p>³ confirmed by Subcellular location provided by UniProt resource</p><p>Potentially secreted proteins with a signal peptide in bovine foetal AT, muscle or both tissues.</p>", "links"=>[], "tags"=>["ProteINSIDE", "Investigate Proteomics Data", "1000 proteins identifiers", "signal peptide", "Bovine Foetuses Genomics experiments", "iii", "ii", "data"], "article_id"=>1423611, "categories"=>["Biological Sciences"], "users"=>["Nicolas Kaspric", "Brigitte Picard", "Matthieu Reichstadt", "Jérémy Tournayre", "Muriel Bonnet"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0128086.t005", "stats"=>{"downloads"=>3, "page_views"=>4, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Potentially_secreted_proteins_with_a_signal_peptide_in_bovine_foetal_AT_muscle_or_both_tissues_/1423611", "title"=>"Potentially secreted proteins with a signal peptide in bovine foetal AT, muscle or both tissues.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2015-05-22 02:50:53"}
• {"files"=>["https://ndownloader.figshare.com/files/2079399"], "description"=>"<p>Network was built with Cytoscape web. Settings are available to sort the network according to Ontology groups, biological function, result of GO enrichment (p-value), numbers (Nb) of GO, or network layout. Go terms are sorted and colorized depending on the ontology group and the number of annotated proteins. (A) Dynamic network view of GO terms related to Molecular Function. (B) Clicking on a GO term provides the GO number, proteins from the sample list annotated by this GO, and links with public GO databases (AmiGO and QuickGO).</p>", "links"=>[], "tags"=>["ProteINSIDE", "Investigate Proteomics Data", "1000 proteins identifiers", "signal peptide", "Bovine Foetuses Genomics experiments", "iii", "ii", "data"], "article_id"=>1423593, "categories"=>["Biological Sciences"], "users"=>["Nicolas Kaspric", "Brigitte Picard", "Matthieu Reichstadt", "Jérémy Tournayre", "Muriel Bonnet"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0128086.g002", "stats"=>{"downloads"=>0, "page_views"=>2, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Dynamic_GO_tree_network_provided_by_ProteINSIDE_/1423593", "title"=>"Dynamic GO tree network provided by ProteINSIDE.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2015-05-22 02:50:53"}
• {"files"=>["https://ndownloader.figshare.com/files/2079416"], "description"=>"<p>ProteINSIDE had queried both 3 (BioGrid, Uniprot, and IntAct selected by default in the basic analysis) and 9 (BioGrid, IntAct, MINT, MatrixDB, STRING, Reactome, InnateDB-IMEx, UniProt, and I2D-IMEx chosen by the user) databases to record PPi that have been identified by experiments. Within a species, PPi were searched between proteins within (core network) and outside (extended network) the dataset. Bovine proteins ID were uploaded to search for known interactions with their orthologs in Human (EXT Human).</p><p>Number of PPi identified using ProteINSIDE.</p>", "links"=>[], "tags"=>["ProteINSIDE", "Investigate Proteomics Data", "1000 proteins identifiers", "signal peptide", "Bovine Foetuses Genomics experiments", "iii", "ii", "data"], "article_id"=>1423610, "categories"=>["Biological Sciences"], "users"=>["Nicolas Kaspric", "Brigitte Picard", "Matthieu Reichstadt", "Jérémy Tournayre", "Muriel Bonnet"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0128086.t004", "stats"=>{"downloads"=>1, "page_views"=>16, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Number_of_PPi_identified_using_ProteINSIDE_/1423610", "title"=>"Number of PPi identified using ProteINSIDE.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2015-05-22 02:50:53"}
• {"files"=>["https://ndownloader.figshare.com/files/2079384"], "description"=>"<p>The four modules to query the available biological information, annotate according to the GO, predict secreted proteins and visualize PPi, are either all run in the basic analysis or individually selected and run with specific settings in the custom analysis. The basic analysis runs ProteINSIDE with automatic settings. The custom analysis operates with the settings selected by the user: option to include GO Inferred from IEA codes (electronic annotation that are automatically unselected in the basic analysis), option to make GOTree chart networks with Cytoscape web, option to search PPi among the 31 databases proposed by ProteINSIDE, option to search PPi in other species using orthologous proteins, option to extend the PPi network with proteins that are not in the dataset, and option to choose the sensitivity to detect signal peptides with SignalP 4.1.</p>", "links"=>[], "tags"=>["ProteINSIDE", "Investigate Proteomics Data", "1000 proteins identifiers", "signal peptide", "Bovine Foetuses Genomics experiments", "iii", "ii", "data"], "article_id"=>1423591, "categories"=>["Biological Sciences"], "users"=>["Nicolas Kaspric", "Brigitte Picard", "Matthieu Reichstadt", "Jérémy Tournayre", "Muriel Bonnet"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0128086.g001", "stats"=>{"downloads"=>0, "page_views"=>7, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Flowchart_of_ProteINSIDE_structure_/1423591", "title"=>"Flowchart of ProteINSIDE structure.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2015-05-22 02:50:53"}
• {"files"=>["https://ndownloader.figshare.com/files/2079405"], "description"=>"<p>We highlighted the relationships among different proteins involved in a same process: (A) mitochondrial metabolism, (B) redox activity, (C) proteasome complex, (D) cell proliferation, and (E) differentiation and metabolism of AT. Squares indicate key proteins identified by sorting the network with algorithms of betweeness (an average of 400) and closeness centralities (an average of 0.3).</p>", "links"=>[], "tags"=>["ProteINSIDE", "Investigate Proteomics Data", "1000 proteins identifiers", "signal peptide", "Bovine Foetuses Genomics experiments", "iii", "ii", "data"], "article_id"=>1423599, "categories"=>["Biological Sciences"], "users"=>["Nicolas Kaspric", "Brigitte Picard", "Matthieu Reichstadt", "Jérémy Tournayre", "Muriel Bonnet"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0128086.g005", "stats"=>{"downloads"=>0, "page_views"=>5, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Interactions_network_between_proteins_of_the_bovine_foetal_AT_/1423599", "title"=>"Interactions network between proteins of the bovine foetal AT.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2015-05-22 02:50:53"}
• {"files"=>["https://ndownloader.figshare.com/files/2079419", "https://ndownloader.figshare.com/files/2079420"], "description"=>"<div><p>Genomics experiments are widely acknowledged to produce a huge amount of data to be analysed. The challenge is to extract meaningful biological context for proteins or genes which is currently difficult because of the lack of an integrative workflow that hinders the efficiency and the robustness of data mining performed by biologists working on ruminants. Thus, we designed ProteINSIDE, a free web service (<a href=\"http://www.proteinside.org\" target=\"_blank\">www.proteinside.org</a>) that (I) provides an overview of the biological information stored in public databases or provided by annotations according to the Gene Ontology, (II) predicts proteins that are secreted to search for proteins that mediate signalisation between cells or tissues, and (III) analyses protein-protein interactions to identify proteins contributing to a process or to visualize functional pathways. Using lists of proteins or genes as a unique input, ProteINSIDE is an original all-in-one tool that merges data from these searches to present a fast overview and integrative analysis of genomic and proteomic data from Bovine, Ovine, Caprine, Human, Rat, and Murine species. ProteINSIDE was bench tested with 1000 proteins identifiers from each species by comparison with DAVID, BioMyn, AgBase, PrediSi, and Phobius. Compared to DAVID or BioMyn, identifications and annotations provided by ProteINSIDE were similar from monogastric proteins but more numerous and relevant for ruminants proteins. ProteINSIDE, thanks to SignalP, listed less proteins potentially secreted with a signal peptide than PrediSi and Phobius, in agreement with the low false positive rate of SignalP. In addition ProteINSIDE is the only resource that predicts proteins secreted by cellular processes that do not involve a signal peptide. Lastly, we reported the usefulness of ProteINSIDE to bring new biological hypotheses of research from proteomics data: the biological meaning of the uptake of adiponectin by the foetal muscle and a role for autophagy during ontogenesis of adipose and muscle tissues.</p></div>", "links"=>[], "tags"=>["ProteINSIDE", "Investigate Proteomics Data", "1000 proteins identifiers", "signal peptide", "Bovine Foetuses Genomics experiments", "iii", "ii", "data"], "article_id"=>1423613, "categories"=>["Biological Sciences"], "users"=>["Nicolas Kaspric", "Brigitte Picard", "Matthieu Reichstadt", "Jérémy Tournayre", "Muriel Bonnet"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0128086.s001", "https://dx.doi.org/10.1371/journal.pone.0128086.s002"], "stats"=>{"downloads"=>8, "page_views"=>6, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_ProteINSIDE_to_Easily_Investigate_Proteomics_Data_from_Ruminants_Application_to_Mine_Proteome_of_Adipose_and_Muscle_Tissues_in_Bovine_Foetuses_/1423613", "title"=>"ProteINSIDE to Easily Investigate Proteomics Data from Ruminants: Application to Mine Proteome of Adipose and Muscle Tissues in Bovine Foetuses", "pos_in_sequence"=>0, "defined_type"=>4, "published_date"=>"2015-05-22 02:50:53"}
• {"files"=>["https://ndownloader.figshare.com/files/2079404"], "description"=>"<p>Resources used to predict signal peptides were SignalP that was included in ProteINSIDE, as well as PrediSI [<a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0128086#pone.0128086.ref044\" target=\"_blank\">44</a>] and Phobius [<a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0128086#pone.0128086.ref045\" target=\"_blank\">45</a>] for bench tests. To reinforce the prediction of proteins to be secreted, ProteINSIDE checked the cellular localization of proteins with TargetP and used GO terms relative to the cellular component. GO terms were also used to predict proteins that are secreted without signal peptide. Squares give numbers of predicted (SignalP) secreted proteins confirmed by GO terms and subcellular location prediction (TargetP), and confirmed by GO terms for proteins that are potentially secreted without signal peptide.</p>", "links"=>[], "tags"=>["ProteINSIDE", "Investigate Proteomics Data", "1000 proteins identifiers", "signal peptide", "Bovine Foetuses Genomics experiments", "iii", "ii", "data"], "article_id"=>1423598, "categories"=>["Biological Sciences"], "users"=>["Nicolas Kaspric", "Brigitte Picard", "Matthieu Reichstadt", "Jérémy Tournayre", "Muriel Bonnet"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0128086.g004", "stats"=>{"downloads"=>9, "page_views"=>59, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Venn_diagrams_of_predicted_signal_peptides_from_amino_acid_sequence_of_1000_proteins_/1423598", "title"=>"Venn diagrams of predicted signal peptides from amino acid sequence of 1000 proteins.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2015-05-22 02:50:53"}
• {"files"=>["https://ndownloader.figshare.com/files/2079401"], "description"=>"<p>Network was built with Cytoscape web. (A) The colour of the edge depends on experimental methods used to identify PPi. White nodes are proteins from the dataset and grey nodes are known interacting proteins not included in the dataset. (B) Clicking on a protein/node provides biological information as gene and proteins ID, function, and a link to UniProt database. (C) Available options to sort the network and highlight proteins of interest.</p>", "links"=>[], "tags"=>["ProteINSIDE", "Investigate Proteomics Data", "1000 proteins identifiers", "signal peptide", "Bovine Foetuses Genomics experiments", "iii", "ii", "data"], "article_id"=>1423595, "categories"=>["Biological Sciences"], "users"=>["Nicolas Kaspric", "Brigitte Picard", "Matthieu Reichstadt", "Jérémy Tournayre", "Muriel Bonnet"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0128086.g003", "stats"=>{"downloads"=>0, "page_views"=>7, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_View_of_a_PPi_dynamic_extended_network_made_by_ProteINSIDE_/1423595", "title"=>"View of a PPi dynamic extended network made by ProteINSIDE.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2015-05-22 02:50:53"}
• {"files"=>["https://ndownloader.figshare.com/files/2079415"], "description"=>"<p>Numbers of ID retrieved by the ID mapping module of ProteINSIDE and by DAVID, BioMyn, or AgBase when a list of 1000 random proteins per species was uploaded.</p><p>^a from Sheep, Goat and Bovine results</p><p>^b from Sheep and Bovine results</p><p>Comparison of identifier mapping results.</p>", "links"=>[], "tags"=>["ProteINSIDE", "Investigate Proteomics Data", "1000 proteins identifiers", "signal peptide", "Bovine Foetuses Genomics experiments", "iii", "ii", "data"], "article_id"=>1423609, "categories"=>["Biological Sciences"], "users"=>["Nicolas Kaspric", "Brigitte Picard", "Matthieu Reichstadt", "Jérémy Tournayre", "Muriel Bonnet"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0128086.t002", "stats"=>{"downloads"=>4, "page_views"=>8, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Comparison_of_identifier_mapping_results_/1423609", "title"=>"Comparison of identifier mapping results.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2015-05-22 02:50:53"}
• {"files"=>["https://ndownloader.figshare.com/files/2079413"], "description"=>"<p>Analyses performed by ProteINSIDE in comparison with DAVID [<a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0128086#pone.0128086.ref024\" target=\"_blank\">24</a>], BioMyn [<a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0128086#pone.0128086.ref025\" target=\"_blank\">25</a>], and AgBase [<a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0128086#pone.0128086.ref029\" target=\"_blank\">29</a>]. ProteINSIDE performs analyses using gene or protein ID from 6 species: Human, Rat, Murine, Bovine, Ovine, and Caprine species.</p><p>x indicates that the analysis is performed by the resource.</p><p>Available modules of analyses for ProteINSIDE, DAVID, BioMyn, and AgBase.</p>", "links"=>[], "tags"=>["ProteINSIDE", "Investigate Proteomics Data", "1000 proteins identifiers", "signal peptide", "Bovine Foetuses Genomics experiments", "iii", "ii", "data"], "article_id"=>1423607, "categories"=>["Biological Sciences"], "users"=>["Nicolas Kaspric", "Brigitte Picard", "Matthieu Reichstadt", "Jérémy Tournayre", "Muriel Bonnet"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0128086.t001", "stats"=>{"downloads"=>3, "page_views"=>15, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Available_modules_of_analyses_for_ProteINSIDE_DAVID_BioMyn_and_AgBase_/1423607", "title"=>"Available modules of analyses for ProteINSIDE, DAVID, BioMyn, and AgBase.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2015-05-22 02:50:53"}
• {"files"=>["https://ndownloader.figshare.com/files/2079412"], "description"=>"<p>ProteINSIDE built a network between the 46 proteins identified in AT and muscle, and proteins outside of the dataset and know to interact with them in Human species. We filtered and sorted the network using high values of betweenness (an average of 10000) and closeness centralities (an average of 0,318). We have identified 6 proteins that were highly central in the dataset (linked with the maximum of proteins and pathways), 12 proteins were moderately central (engaged in the maximum of pathways but not necessary with many proteins), and 17 proteins were more weakly central (less linked with the maximum of proteins and less engaged in pathways, but central on the network). White boxes indicate proteins that are from the bovine dataset and grey boxes indicate proteins that are external to the dataset.</p>", "links"=>[], "tags"=>["ProteINSIDE", "Investigate Proteomics Data", "1000 proteins identifiers", "signal peptide", "Bovine Foetuses Genomics experiments", "iii", "ii", "data"], "article_id"=>1423606, "categories"=>["Biological Sciences"], "users"=>["Nicolas Kaspric", "Brigitte Picard", "Matthieu Reichstadt", "Jérémy Tournayre", "Muriel Bonnet"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0128086.g008", "stats"=>{"downloads"=>0, "page_views"=>7, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Extended_PPi_network_that_includes_proteins_identified_both_in_foetal_AT_and_muscle_/1423606", "title"=>"Extended PPi network that includes proteins identified both in foetal AT and muscle.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2015-05-22 02:50:53"}
• {"files"=>["https://ndownloader.figshare.com/files/2079409"], "description"=>"<p>The abundance of ADIPOQ was normalized to the mRNA abundance of ribosomal protein P0 (RPLP0). Results are ΔΔ CT for foetal and adult AT or muscle samples, relatively to a control sample that is an adult AT. PCR were carried out as previously described [<a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0128086#pone.0128086.ref062\" target=\"_blank\">62</a>].</p>", "links"=>[], "tags"=>["ProteINSIDE", "Investigate Proteomics Data", "1000 proteins identifiers", "signal peptide", "Bovine Foetuses Genomics experiments", "iii", "ii", "data"], "article_id"=>1423603, "categories"=>["Biological Sciences"], "users"=>["Nicolas Kaspric", "Brigitte Picard", "Matthieu Reichstadt", "Jérémy Tournayre", "Muriel Bonnet"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0128086.g007", "stats"=>{"downloads"=>0, "page_views"=>10, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_mRNA_abundance_of_adiponectin_ADIPOQ_in_bovine_AT_and_muscle_/1423603", "title"=>"mRNA abundance of adiponectin (ADIPOQ) in bovine AT and muscle.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2015-05-22 02:50:53"}
• {"files"=>["https://ndownloader.figshare.com/files/2079407"], "description"=>"<p>We highlighted the relationships among different proteins involved in a same process: (A) muscle development, (B) energetic complexes, (C) respiratory chain, and (D) cell proliferation. Squares indicate key proteins identified by sorting the network with algorithms of betweeness (an average of 100) and closeness centralities (an average of 0.4).</p>", "links"=>[], "tags"=>["ProteINSIDE", "Investigate Proteomics Data", "1000 proteins identifiers", "signal peptide", "Bovine Foetuses Genomics experiments", "iii", "ii", "data"], "article_id"=>1423602, "categories"=>["Biological Sciences"], "users"=>["Nicolas Kaspric", "Brigitte Picard", "Matthieu Reichstadt", "Jérémy Tournayre", "Muriel Bonnet"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0128086.g006", "stats"=>{"downloads"=>0, "page_views"=>10, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_PPi_network_between_proteins_from_the_bovine_foetal_muscle_/1423602", "title"=>"PPi network between proteins from the bovine foetal muscle.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2015-05-22 02:50:53"}

PMC Usage Stats | Further Information

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• {"unique-ip"=>"24", "full-text"=>"25", "pdf"=>"8", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"6", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2015", "month"=>"7"}
• {"unique-ip"=>"13", "full-text"=>"8", "pdf"=>"4", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"1", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2015", "month"=>"8"}
• {"unique-ip"=>"22", "full-text"=>"27", "pdf"=>"8", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2015", "month"=>"9"}
• {"unique-ip"=>"13", "full-text"=>"11", "pdf"=>"4", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"5", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2015", "month"=>"10"}
• {"unique-ip"=>"6", "full-text"=>"4", "pdf"=>"0", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"3", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2016", "month"=>"2"}
• {"unique-ip"=>"12", "full-text"=>"7", "pdf"=>"4", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"1", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2015", "month"=>"11"}
• {"unique-ip"=>"20", "full-text"=>"9", "pdf"=>"13", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2015", "month"=>"12"}
• {"unique-ip"=>"10", "full-text"=>"5", "pdf"=>"3", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"5", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2016", "month"=>"1"}
• {"unique-ip"=>"10", "full-text"=>"8", "pdf"=>"7", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"2", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2016", "month"=>"3"}
• {"unique-ip"=>"2", "full-text"=>"3", "pdf"=>"0", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2016", "month"=>"4"}
• {"unique-ip"=>"7", "full-text"=>"6", "pdf"=>"1", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"1", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2016", "month"=>"5"}
• {"unique-ip"=>"12", "full-text"=>"7", "pdf"=>"4", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"5", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2016", "month"=>"6"}
• {"unique-ip"=>"6", "full-text"=>"5", "pdf"=>"1", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"3", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2016", "month"=>"7"}
• {"unique-ip"=>"8", "full-text"=>"6", "pdf"=>"2", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"7", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2016", "month"=>"8"}
• {"unique-ip"=>"4", "full-text"=>"4", "pdf"=>"1", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"1", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2016", "month"=>"9"}
• {"unique-ip"=>"4", "full-text"=>"5", "pdf"=>"2", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"1", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2016", "month"=>"10"}
• {"unique-ip"=>"3", "full-text"=>"5", "pdf"=>"1", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"3", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2016", "month"=>"11"}
• {"unique-ip"=>"7", "full-text"=>"7", "pdf"=>"1", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"5", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2016", "month"=>"12"}
• {"unique-ip"=>"2", "full-text"=>"3", "pdf"=>"0", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"6", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2017", "month"=>"1"}
• {"unique-ip"=>"4", "full-text"=>"4", "pdf"=>"2", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2017", "month"=>"2"}
• {"unique-ip"=>"5", "full-text"=>"3", "pdf"=>"2", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"2", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2017", "month"=>"3"}
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• {"unique-ip"=>"30", "full-text"=>"6", "pdf"=>"3", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"10", "supp-data"=>"2", "cited-by"=>"1", "year"=>"2017", "month"=>"5"}
• {"unique-ip"=>"1", "full-text"=>"1", "pdf"=>"1", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2017", "month"=>"6"}
• {"unique-ip"=>"1", "full-text"=>"1", "pdf"=>"0", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2017", "month"=>"7"}
• {"unique-ip"=>"4", "full-text"=>"4", "pdf"=>"0", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2017", "month"=>"8"}
• {"unique-ip"=>"4", "full-text"=>"3", "pdf"=>"4", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2017", "month"=>"9"}
• {"unique-ip"=>"4", "full-text"=>"3", "pdf"=>"2", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2017", "month"=>"10"}
• {"unique-ip"=>"3", "full-text"=>"3", "pdf"=>"1", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2017", "month"=>"11"}
• {"unique-ip"=>"5", "full-text"=>"4", "pdf"=>"3", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2017", "month"=>"12"}
• {"unique-ip"=>"4", "full-text"=>"4", "pdf"=>"3", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2018", "month"=>"1"}
• {"unique-ip"=>"5", "full-text"=>"4", "pdf"=>"0", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"2", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2018", "month"=>"3"}
• {"unique-ip"=>"8", "full-text"=>"8", "pdf"=>"1", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2019", "month"=>"1"}
• {"unique-ip"=>"2", "full-text"=>"2", "pdf"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2018", "month"=>"11"}
• {"unique-ip"=>"2", "full-text"=>"2", "pdf"=>"1", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2018", "month"=>"9"}
• {"unique-ip"=>"4", "full-text"=>"4", "pdf"=>"1", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2018", "month"=>"4"}
• {"unique-ip"=>"4", "full-text"=>"5", "pdf"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"1", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2018", "month"=>"5"}
• {"unique-ip"=>"4", "full-text"=>"3", "pdf"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"2", "cited-by"=>"0", "year"=>"2018", "month"=>"6"}
• {"unique-ip"=>"6", "full-text"=>"6", "pdf"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"3", "cited-by"=>"0", "year"=>"2018", "month"=>"7"}
• {"unique-ip"=>"5", "full-text"=>"5", "pdf"=>"5", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"4", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2018", "month"=>"10"}
• {"unique-ip"=>"7", "full-text"=>"9", "pdf"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"1", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2018", "month"=>"8"}
• {"unique-ip"=>"6", "full-text"=>"6", "pdf"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2018", "month"=>"12"}
• {"unique-ip"=>"4", "full-text"=>"0", "pdf"=>"3", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"4", "supp-data"=>"0", "cited-by"=>"1", "year"=>"2019", "month"=>"2"}
• {"unique-ip"=>"8", "full-text"=>"6", "pdf"=>"1", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"7", "supp-data"=>"2", "cited-by"=>"1", "year"=>"2019", "month"=>"3"}
• {"unique-ip"=>"5", "full-text"=>"3", "pdf"=>"1", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"1", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2019", "month"=>"4"}
• {"unique-ip"=>"3", "full-text"=>"4", "pdf"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"1", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2019", "month"=>"5"}
• {"unique-ip"=>"11", "full-text"=>"5", "pdf"=>"5", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"4", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2019", "month"=>"8"}
• {"unique-ip"=>"6", "full-text"=>"5", "pdf"=>"1", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2019", "month"=>"9"}
• {"unique-ip"=>"9", "full-text"=>"6", "pdf"=>"2", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"5", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2019", "month"=>"10"}
• {"unique-ip"=>"1", "full-text"=>"0", "pdf"=>"1", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2019", "month"=>"12"}
• {"unique-ip"=>"10", "full-text"=>"10", "pdf"=>"2", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"4", "supp-data"=>"3", "cited-by"=>"0", "year"=>"2020", "month"=>"2"}
• {"unique-ip"=>"7", "full-text"=>"8", "pdf"=>"1", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"1", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2020", "month"=>"3"}
• {"unique-ip"=>"2", "full-text"=>"1", "pdf"=>"1", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2020", "month"=>"4"}
• {"unique-ip"=>"3", "full-text"=>"2", "pdf"=>"3", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"3", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2020", "month"=>"5"}
• {"unique-ip"=>"8", "full-text"=>"7", "pdf"=>"3", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2020", "month"=>"6"}
• {"unique-ip"=>"5", "full-text"=>"6", "pdf"=>"1", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2020", "month"=>"7"}
• {"unique-ip"=>"1", "full-text"=>"1", "pdf"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2020", "month"=>"8"}
• {"unique-ip"=>"2", "full-text"=>"3", "pdf"=>"1", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2020", "month"=>"9"}
• {"unique-ip"=>"10", "full-text"=>"10", "pdf"=>"2", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2020", "month"=>"10"}
• {"unique-ip"=>"7", "full-text"=>"6", "pdf"=>"4", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2020", "month"=>"11"}
• {"unique-ip"=>"7", "full-text"=>"7", "pdf"=>"4", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2020", "month"=>"12"}
• {"unique-ip"=>"9", "full-text"=>"10", "pdf"=>"1", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"1", "cited-by"=>"0", "year"=>"2021", "month"=>"1"}

Relative Metric

{"start_date"=>"2015-01-01T00:00:00Z", "end_date"=>"2015-12-31T00:00:00Z", "subject_areas"=>[]}

F1000Prime