Partial Sleep Restriction Activates Immune Response-Related Gene Expression Pathways: Experimental and Epidemiological Studies in Humans
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{"title"=>"Partial Sleep Restriction Activates Immune Response-Related Gene Expression Pathways: Experimental and Epidemiological Studies in Humans", "type"=>"journal", "authors"=>[{"first_name"=>"Vilma", "last_name"=>"Aho", "scopus_author_id"=>"55892627100"}, {"first_name"=>"Hanna M.", "last_name"=>"Ollila", "scopus_author_id"=>"25636363300"}, {"first_name"=>"Ville", "last_name"=>"Rantanen", "scopus_author_id"=>"36936872300"}, {"first_name"=>"Erkki", "last_name"=>"Kronholm", "scopus_author_id"=>"6603577155"}, {"first_name"=>"Ida", "last_name"=>"Surakka", "scopus_author_id"=>"26654479000"}, {"first_name"=>"Wessel M.A.", "last_name"=>"van Leeuwen", "scopus_author_id"=>"57189103260"}, {"first_name"=>"Maili", "last_name"=>"Lehto", "scopus_author_id"=>"16151489600"}, {"first_name"=>"Sampsa", "last_name"=>"Matikainen", "scopus_author_id"=>"7003789436"}, {"first_name"=>"Samuli", "last_name"=>"Ripatti", "scopus_author_id"=>"6603009457"}, {"first_name"=>"Mikko", "last_name"=>"Härmä", "scopus_author_id"=>"7005318528"}, {"first_name"=>"Mikael", "last_name"=>"Sallinen", "scopus_author_id"=>"6604003217"}, {"first_name"=>"Veikko", "last_name"=>"Salomaa", "scopus_author_id"=>"7004714461"}, {"first_name"=>"Matti", "last_name"=>"Jauhiainen", "scopus_author_id"=>"7006672430"}, {"first_name"=>"Harri", "last_name"=>"Alenius", "scopus_author_id"=>"15749838700"}, {"first_name"=>"Tiina", "last_name"=>"Paunio", "scopus_author_id"=>"7003887598"}, {"first_name"=>"Tarja", "last_name"=>"Porkka-Heiskanen", "scopus_author_id"=>"7003683803"}], "year"=>2013, "source"=>"PLoS ONE", "identifiers"=>{"issn"=>"19326203", "scopus"=>"2-s2.0-84886050257", "pui"=>"370091184", "doi"=>"10.1371/journal.pone.0077184", "isbn"=>"1932-6203 (Electronic)\\r1932-6203 (Linking)", "sgr"=>"84886050257", "pmid"=>"24194869"}, "id"=>"d687768d-5b66-39f6-ada8-7f599ed9051c", "abstract"=>"Epidemiological studies have shown that short or insufficient sleep is associated with increased risk for metabolic diseases and mortality. To elucidate mechanisms behind this connection, we aimed to identify genes and pathways affected by experimentally induced, partial sleep restriction and to verify their connection to insufficient sleep at population level. The experimental design simulated sleep restriction during a working week: sleep of healthy men (N = 9) was restricted to 4 h/night for five nights. The control subjects (N = 4) spent 8 h/night in bed. Leukocyte RNA expression was analyzed at baseline, after sleep restriction, and after recovery using whole genome microarrays complemented with pathway and transcription factor analysis. Expression levels of the ten most up-regulated and ten most down-regulated transcripts were correlated with subjective assessment of insufficient sleep in a population cohort (N = 472). Experimental sleep restriction altered the expression of 117 genes. Eight of the 25 most up-regulated transcripts were related to immune function. Accordingly, fifteen of the 25 most up-regulated Gene Ontology pathways were also related to immune function, including those for B cell activation, interleukin 8 production, and NF-κB signaling (P<0.005). Of the ten most up-regulated genes, expression of STX16 correlated negatively with self-reported insufficient sleep in a population sample, while three other genes showed tendency for positive correlation. Of the ten most down-regulated genes, TBX21 and LGR6 correlated negatively and TGFBR3 positively with insufficient sleep. Partial sleep restriction affects the regulation of signaling pathways related to the immune system. Some of these changes appear to be long-lasting and may at least partly explain how prolonged sleep restriction can contribute to inflammation-associated pathological states, such as cardiometabolic diseases.", "link"=>"http://www.mendeley.com/research/partial-sleep-restriction-activates-immune-responserelated-gene-expression-pathways-experimental-epi", "reader_count"=>45, "reader_count_by_academic_status"=>{"Professor > Associate Professor"=>1, "Librarian"=>1, "Researcher"=>11, "Student > Doctoral Student"=>1, "Student > Ph. D. Student"=>12, "Student > Postgraduate"=>2, "Student > Master"=>1, "Other"=>5, "Student > Bachelor"=>9, "Lecturer > Senior Lecturer"=>1, "Professor"=>1}, "reader_count_by_user_role"=>{"Professor > Associate Professor"=>1, "Librarian"=>1, "Researcher"=>11, "Student > Doctoral Student"=>1, "Student > Ph. D. 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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/1255790"], "description"=>"<p>The flow of statistical analysis and the amount of entities (genes/transcripts) after each step are illustrated. a) The 15101 entities that passed the filtering by flags and reannotation included 1292 up-regulated (red) and 1039 down-regulated (green) transcripts with at least 1.2-fold change from baseline (BL) to sleep restriction (SR) in sleep-restricted subjects ( = cases). * The pathway analysis was run for these genes. b) The 2331 entities were analyzed with 2-way ANOVA using the case/control status and the three timepoints as analysis axes. Changes with ANOVA interaction <i>P</i> value <0.05 were observed in 227 up-regulated and 83 down-regulated transcripts. c) Altogether 310 entities were further analyzed with 1-way repeated measures ANOVA considering the three timepoints. The 43 entities showing changes also in the control group were excluded from the analysis. The 133 genes with 1-way ANOVA <i>P</i> value <0.05 for the cases but not for the controls were then analyzed using a <i>t</i> test between the timepoints BL and SR. 62 genes were up-regulated and 55 down-regulated (P<0.05).</p>", "links"=>[], "tags"=>[], "article_id"=>830797, "categories"=>["Biological Sciences"], "users"=>["Vilma Aho", "Hanna M. Ollila", "Ville Rantanen", "Erkki Kronholm", "Ida Surakka", "Wessel M. A. van Leeuwen", "Maili Lehto", "Sampsa Matikainen", "Samuli Ripatti", "Mikko Härmä", "Mikael Sallinen", "Veikko Salomaa", "Matti Jauhiainen", "Harri Alenius", "Tiina Paunio", "Tarja Porkka-Heiskanen"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0077184.g001", "stats"=>{"downloads"=>4, "page_views"=>12, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Analysis_strategy_/830797", "title"=>"Analysis strategy.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-10-23 03:02:43"}
  • {"files"=>["https://ndownloader.figshare.com/files/1255798", "https://ndownloader.figshare.com/files/1255799", "https://ndownloader.figshare.com/files/1255800", "https://ndownloader.figshare.com/files/1255801", "https://ndownloader.figshare.com/files/1255802", "https://ndownloader.figshare.com/files/1255803"], "description"=>"<div><p>Epidemiological studies have shown that short or insufficient sleep is associated with increased risk for metabolic diseases and mortality. To elucidate mechanisms behind this connection, we aimed to identify genes and pathways affected by experimentally induced, partial sleep restriction and to verify their connection to insufficient sleep at population level. The experimental design simulated sleep restriction during a working week: sleep of healthy men (N = 9) was restricted to 4 h/night for five nights. The control subjects (N = 4) spent 8 h/night in bed. Leukocyte RNA expression was analyzed at baseline, after sleep restriction, and after recovery using whole genome microarrays complemented with pathway and transcription factor analysis. Expression levels of the ten most up-regulated and ten most down-regulated transcripts were correlated with subjective assessment of insufficient sleep in a population cohort (N = 472). Experimental sleep restriction altered the expression of 117 genes. Eight of the 25 most up-regulated transcripts were related to immune function. Accordingly, fifteen of the 25 most up-regulated Gene Ontology pathways were also related to immune function, including those for B cell activation, interleukin 8 production, and NF-κB signaling (<i>P</i><0.005). Of the ten most up-regulated genes, expression of <i>STX16</i> correlated negatively with self-reported insufficient sleep in a population sample, while three other genes showed tendency for positive correlation. Of the ten most down-regulated genes, <i>TBX21</i> and <i>LGR6</i> correlated negatively and <i>TGFBR3</i> positively with insufficient sleep. Partial sleep restriction affects the regulation of signaling pathways related to the immune system. Some of these changes appear to be long-lasting and may at least partly explain how prolonged sleep restriction can contribute to inflammation-associated pathological states, such as cardiometabolic diseases.</p></div>", "links"=>[], "tags"=>["activates", "response-related", "epidemiological", "studies"], "article_id"=>830804, "categories"=>["Biological Sciences"], "users"=>["Vilma Aho", "Hanna M. Ollila", "Ville Rantanen", "Erkki Kronholm", "Ida Surakka", "Wessel M. A. van Leeuwen", "Maili Lehto", "Sampsa Matikainen", "Samuli Ripatti", "Mikko Härmä", "Mikael Sallinen", "Veikko Salomaa", "Matti Jauhiainen", "Harri Alenius", "Tiina Paunio", "Tarja Porkka-Heiskanen"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0077184.s001", "https://dx.doi.org/10.1371/journal.pone.0077184.s002", "https://dx.doi.org/10.1371/journal.pone.0077184.s003", "https://dx.doi.org/10.1371/journal.pone.0077184.s004", "https://dx.doi.org/10.1371/journal.pone.0077184.s005", "https://dx.doi.org/10.1371/journal.pone.0077184.s006"], "stats"=>{"downloads"=>22, "page_views"=>13, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Partial_Sleep_Restriction_Activates_Immune_Response_Related_Gene_Expression_Pathways_Experimental_and_Epidemiological_Studies_in_Humans_/830804", "title"=>"Partial Sleep Restriction Activates Immune Response-Related Gene Expression Pathways: Experimental and Epidemiological Studies in Humans", "pos_in_sequence"=>0, "defined_type"=>4, "published_date"=>"2013-10-23 03:02:43"}
  • {"files"=>["https://ndownloader.figshare.com/files/1255792"], "description"=>"<p>Arrows (↑) illustrate activating and blunt ended lines (T) inhibiting effects. Red  =  increased after SR, green  =  decreased after SR, grey  =  no change observed. IFNγ  =  interferon γ, IL  =  interleukin, STAT1, TBX21 and SOCS3  =  transcription factors, Ig  =  immunoglobulins. (The factors involved in T helper (Th) cell differentiation modified after <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0077184#pone.0077184-Robinson1\" target=\"_blank\">[30]</a>). We propose that cumulative SR via the activation of B cell-mediated humoral immunity by Th2 cells may lead to increased risk for development or exacerbation of asthmatic symptoms. We also suggest that SR may participate in the development of atherosclerosis through increased cholesterol intake into macrophages. On the other hand, the reduction in the NK cell type immune response may be a mode to protect the self from destruction by apoptosis and/or might contribute to the attenuated immune response towards pathogens.</p>", "links"=>[], "tags"=>["activation", "lymphocyte", "leukocyte", "populations", "cumulative"], "article_id"=>830799, "categories"=>["Biological Sciences"], "users"=>["Vilma Aho", "Hanna M. Ollila", "Ville Rantanen", "Erkki Kronholm", "Ida Surakka", "Wessel M. A. van Leeuwen", "Maili Lehto", "Sampsa Matikainen", "Samuli Ripatti", "Mikko Härmä", "Mikael Sallinen", "Veikko Salomaa", "Matti Jauhiainen", "Harri Alenius", "Tiina Paunio", "Tarja Porkka-Heiskanen"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0077184.g003", "stats"=>{"downloads"=>1, "page_views"=>9, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Differentiation_and_activation_of_lymphocyte_and_other_leukocyte_populations_in_cumulative_sleep_restriction_SR_/830799", "title"=>"Differentiation and activation of lymphocyte and other leukocyte populations in cumulative sleep restriction (SR).", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-10-23 03:02:43"}
  • {"files"=>["https://ndownloader.figshare.com/files/1255793"], "description"=>"<p>The expression changes of the 25 most up-regulated genes/transcripts after experimental sleep restriction period (SR) compared to baseline values (BL). Pointwise <i>P</i> values and fold changes (SR expression/BL expression) between these two timepoints are shown for each transcript.</p>", "links"=>[], "tags"=>["genes", "cumulative"], "article_id"=>830800, "categories"=>["Biological Sciences"], "users"=>["Vilma Aho", "Hanna M. Ollila", "Ville Rantanen", "Erkki Kronholm", "Ida Surakka", "Wessel M. A. van Leeuwen", "Maili Lehto", "Sampsa Matikainen", "Samuli Ripatti", "Mikko Härmä", "Mikael Sallinen", "Veikko Salomaa", "Matti Jauhiainen", "Harri Alenius", "Tiina Paunio", "Tarja Porkka-Heiskanen"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0077184.t001", "stats"=>{"downloads"=>9, "page_views"=>24, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Up_regulated_genes_after_cumulative_sleep_restriction_/830800", "title"=>"Up-regulated genes after cumulative sleep restriction.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2013-10-23 03:02:43"}
  • {"files"=>["https://ndownloader.figshare.com/files/1255791"], "description"=>"<p>The 310 entities (genes/transcripts) with interaction <i>P</i> value (<i>P</i><0.05) in 2-way ANOVA, sorted by average fold change from baseline (BL) to sleep restriction (SR) (with the up-regulated (red) on top, followed by the down-regulated (green). Each lane represents one individual (sleep deprived subjects, N = 9; controls, N = 4), and colour codes represent the fold change from BL to SR (BL  = 1).</p>", "links"=>[], "tags"=>[], "article_id"=>830798, "categories"=>["Biological Sciences"], "users"=>["Vilma Aho", "Hanna M. Ollila", "Ville Rantanen", "Erkki Kronholm", "Ida Surakka", "Wessel M. A. van Leeuwen", "Maili Lehto", "Sampsa Matikainen", "Samuli Ripatti", "Mikko Härmä", "Mikael Sallinen", "Veikko Salomaa", "Matti Jauhiainen", "Harri Alenius", "Tiina Paunio", "Tarja Porkka-Heiskanen"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0077184.g002", "stats"=>{"downloads"=>2, "page_views"=>14, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Expression_changes_after_partial_sleep_restriction_/830798", "title"=>"Expression changes after partial sleep restriction.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-10-23 03:02:43"}
  • {"files"=>["https://ndownloader.figshare.com/files/1255797"], "description"=>"<p>The expression changes of the 25 most down-regulated genes/transcripts after experimental sleep restriction period (SR) compared to baseline values (BL). Pointwise <i>P</i> values and fold changes (SR expression / BL expression) between these two timepoints are shown for each transcript.</p>", "links"=>[], "tags"=>["genes"], "article_id"=>830803, "categories"=>["Biological Sciences"], "users"=>["Vilma Aho", "Hanna M. Ollila", "Ville Rantanen", "Erkki Kronholm", "Ida Surakka", "Wessel M. A. van Leeuwen", "Maili Lehto", "Sampsa Matikainen", "Samuli Ripatti", "Mikko Härmä", "Mikael Sallinen", "Veikko Salomaa", "Matti Jauhiainen", "Harri Alenius", "Tiina Paunio", "Tarja Porkka-Heiskanen"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0077184.t002", "stats"=>{"downloads"=>1, "page_views"=>15, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Down_regulated_genes_after_experimental_sleep_restriction_/830803", "title"=>"Down-regulated genes after experimental sleep restriction.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2013-10-23 03:02:43"}
  • {"files"=>["https://ndownloader.figshare.com/files/1255796"], "description"=>"<p>The top 25 Gene Ontology pathways (biological processes) that were significantly enriched (<i>P</i><0.01 after permutation) among the transcripts up-regulated after sleep restriction. <i>Total genes</i> represents the number of genes that are annotated to the pathway. <i>Top genes</i> represents the number of genes that were found in the study setting and contributed to the significance of the pathway.</p>", "links"=>[], "tags"=>["ontology", "pathways", "up-regulated"], "article_id"=>830802, "categories"=>["Biological Sciences"], "users"=>["Vilma Aho", "Hanna M. Ollila", "Ville Rantanen", "Erkki Kronholm", "Ida Surakka", "Wessel M. A. van Leeuwen", "Maili Lehto", "Sampsa Matikainen", "Samuli Ripatti", "Mikko Härmä", "Mikael Sallinen", "Veikko Salomaa", "Matti Jauhiainen", "Harri Alenius", "Tiina Paunio", "Tarja Porkka-Heiskanen"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0077184.t003", "stats"=>{"downloads"=>5, "page_views"=>8, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Gene_Ontology_pathways_up_regulated_after_sleep_restriction_/830802", "title"=>"Gene Ontology pathways up-regulated after sleep restriction.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2013-10-23 03:02:43"}

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Relative Metric

{"start_date"=>"2013-01-01T00:00:00Z", "end_date"=>"2013-12-31T00:00:00Z", "subject_areas"=>[{"subject_area"=>"/Biology and life sciences", "average_usage"=>[269, 466, 588, 697, 800, 896, 988, 1076, 1165, 1254, 1340, 1417]}, {"subject_area"=>"/Biology and life sciences/Cell biology", "average_usage"=>[272, 472, 600, 713, 815, 911, 1004, 1094, 1185, 1273, 1358, 1441]}, {"subject_area"=>"/Biology and life sciences/Developmental biology", "average_usage"=>[275, 472, 605, 720, 822, 921, 1013, 1106, 1200, 1289, 1378, 1459, 1531]}, {"subject_area"=>"/Biology and life sciences/Genetics", "average_usage"=>[284, 491, 620, 738, 843, 945, 1043, 1137, 1225, 1315, 1400, 1479, 1555]}, {"subject_area"=>"/Medicine and health sciences", "average_usage"=>[264, 460, 584, 692, 794, 887, 978, 1067, 1154, 1241, 1328, 1408, 1474]}]}
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