rbbt-marq 1.0.0

data/install_scripts/GEO/series/GSE6358.yaml

@@ -0,0 +1,22 @@
+--- 
+:arrays: 
+  GSM146913: 
+    condition: Glucose 100mg_ml 7.5h vs 70mg_ml 6h
+  GSM146914: 
+    condition: Glucose 100mg_ml 7.5h vs 70mg_ml 6h
+  GSM146915: 
+    condition: Glucose 500mg_ml 6.3h vs 500mg_ml 10h
+  GSM146916: 
+    condition: Glucose 500mg_ml 6.3h vs 500mg_ml 10h
+  GSM146775: 
+    condition: Glucose 0mg_ml 0h
+  GSM146776: 
+    condition: Glucose 50mg_ml 7.5h
+  GSM146777: 
+    condition: Glucose 70mg_ml 3h
+:description: |-
+  The goal of this study is to analyse how the gene expression in Saccharomyces cerevisiae changes in dependency on the glucose concentration. Therefore, fed batch cultivations were carried out, during which the glucose concentration was maintained stable for several hours. Samples were taken at different times during the cultivations, the RNA was isolated and hybridised on whole genome yeast microarrays. Results from cultivations with the glucose concentrations 50, 70, 100 and 500 mg/L are presented. In addition, one sample from a starvation period (0 mg/L glucose) was analysed.
+  Keywords: Dependency on glucose concentration
+  !Series_overall_design = Results from seven microarray are summarised in this study. The samples originate from four different cultivations with the glucose set points mentioned above. Supplementary, one sample from a starvation period is shown and during the cultivations with glucose set points 70 mg/L and 500 mg/L, samples drawn at different cultivation times are presented.
+:title: Dependency of Gene Expression in Saccharomyces cerevisiae on extracellular Glucose Concentration
+:platform: GPL537

data/install_scripts/GEO/series/GSE6405.yaml

@@ -0,0 +1,36 @@
+--- 
+:arrays: 
+  GSM147758: 
+    condition: C-lim aerobic  Phe
+  GSM147747: 
+    condition: C-lim aerobic  ASN
+  GSM147759: 
+    condition: C-lim aerobic  Met
+  GSM147748: 
+    condition: C-lim aerobic  ASN
+  GSM147761: 
+    condition: C-lim aerobic  Met
+  GSM147750: 
+    condition: C-lim aerobic  Pro
+  GSM147749: 
+    condition: C-lim aerobic  Pro
+  GSM147762: 
+    condition: C-lim aerobic  Met
+  GSM147751: 
+    condition: C-lim aerobic  Pro
+  GSM147753: 
+    condition: C-lim aerobic  Leu
+  GSM147754: 
+    condition: C-lim aerobic  Leu
+  GSM147755: 
+    condition: C-lim aerobic  Leu
+  GSM147756: 
+    condition: C-lim aerobic  Phe
+  GSM147757: 
+    condition: C-lim aerobic  Phe
+  GSM147746: 
+    condition: C-lim aerobic  ASN
+:description: "Aerobic, glucose-limited chemostat cultures of Saccharomyces cerevisiae grown with six different nitrogen sources were subjected to transcriptome analysis. The use of chemostats enabled an analysis of nitrogen-source-dependent transcriptional regulation at a fixed specific growth rate. A selection of preferred (ammonium and asparagine) and non-preferred (leucine, phenylalanine, methionine and proline) nitrogen sources was investigated. For each nitrogen source, distinct sets of genes were induced or repressed relative to the other five nitrogen sources. A total number of 131 of such \xE2\x80\x98signature transcripts\xE2\x80\x99 were identified in this study. In addition to signature transcripts, genes were identified that showed a transcriptional co-response to two or more of the six nitrogen sources. For example, 33 genes were transcriptionally up-regulated in leucine-, phenylalanine- and methionine-grown cultures, which was partly attributed to the involvement of common enzymes in the dissimilation of these amino acids. In addition to specific transcriptional responses elicited by individual nitrogen sources, their impact on global regulatory mechanisms such as nitrogen catabolite repression (NCR) could be monitored. NCR-sensitive gene expression in the chemostat cultures showed that, ammonia and asparagine were \xE2\x80\x98rich\xE2\x80\x99 nitrogen sources. By this criterion, leucine, proline and methionine were \xE2\x80\x98poor\xE2\x80\x99 nitrogen sources and phenylalanine showed an \xE2\x80\x98intermediate\xE2\x80\x99 NCR response.\n\
+  Keywords: Response to growth on various nitrogen source transcriptome"
+:title: Transcriptional responses of yeast to preferred and non-preferred nitrogen sources in C-lim chemostat cultures
+:platform: GPL90

data/install_scripts/GEO/series/GSE6450.yaml

@@ -0,0 +1,51 @@
+--- 
+:arrays: 
+  GSM158684: 
+    condition: no3AT2_Glu_328h
+  GSM148411: 
+    condition: 40mM_Gal_522h
+  GSM148412: 
+    condition: 40mM_Glu_552h
+  GSM158685: 
+    condition: no3AT2_GluSS
+  GSM148413: 
+    condition: 40mM_Glu_574h
+  GSM158686: 
+    condition: no3AT2_GluSS
+  GSM148414: 
+    condition: 40mM_Glu_592h
+  GSM148403: 
+    condition: no3AT_Gal_316h
+  GSM158687: 
+    condition: no3AT2_GluSS
+  GSM148415: 
+    condition: 40mM_Glu_850h
+  GSM148404: 
+    condition: no3AT_Glu_344h
+  GSM148217: 
+    condition: no3AT_Gal_305h
+  GSM148416: 
+    condition: 40mM_Glu_878h
+  GSM148405: 
+    condition: no3AT_Glu_353h
+  GSM148417: 
+    condition: 40mM_Glu_937h
+  GSM148406: 
+    condition: no3AT_Glu_385h
+  GSM148407: 
+    condition: no3AT_Glu_478h
+  GSM148408: 
+    condition: no3AT_Glu_507h
+  GSM158682: 
+    condition: no3AT2_GalSS
+  GSM148410: 
+    condition: 40mM_Gal_477h
+  GSM148409: 
+    condition: no3AT_Glu_526h
+  GSM158683: 
+    condition: no3AT2_Glu_315h
+:description: |-
+  Cells adjust their transcriptional state to accommodate environmental and genetic perturbations. An open question is to what extent transcriptional response to perturbations has been specifically selected along evolution. To test the possibility that transcriptional reprogramming does not need to be 'pre-designed' in order to lead to an adaptive metabolic state on physiological time scales, we confronted yeast cells with a novel challenge they had not previously encountered. We rewired the genome by recruiting an essential gene, HIS3 from the histidine biosynthesis pathway to a foreign regulatory system, the GAL network responsible for galactose utilization. Switching medium to glucose in a chemostat caused repression of the essential gene and presented the cells with a severe challenge. Using genome-wide expression arrays we show that a global transcriptional reprogramming (>1200 genes) is induced immediately following the switch into the challenging environment, allowing adaptation of the cell population. A larger environmental pressure applied directly on the recruited HIS3 gene by a competitive inhibitor, led to significantly larger expression correlations among hundreds of genes residing in different functional modules, showing that the global transcriptional response underlies the adaptation process. The correlated transcriptional pattern relaxed to the adaptive state over a long period (~10 generations). Our results show that transcriptional plasticity, involving an enhanced response of a sizeable fraction of the genome, is a natural property of the regulatory network allowing it to overcome unforeseen challenges.
+  Keywords: time course, chemostat
+:title: Genome-wide transcriptional plasticity underlies cellular adaptation to novel challenge
+:platform: GPL4625

data/install_scripts/GEO/series/GSE6687.yaml

@@ -0,0 +1,15 @@
+--- 
+:arrays: 
+  GSM154431: 
+    condition: Mg starv 90min
+  GSM154432: 
+    condition: Mg starv 90min
+  GSM154433: 
+    condition: Mg starv 90min
+  GSM154435: 
+    condition: Mg starv 90min
+:description: |-
+  To learn about the cellular processes involved in Mg2+ transport and the mechanisms allowing cells to cope with low Mg2+ availability, we performed RNA expression profiling experiments, and followed changes in gene activity upon Mg2+ depletion on a genome-wide scale. A striking portion of genes up-regulated under Mg2+ depletion is also induced by high Ca2+ and/or alkalinization. Among the genes significantly up-regulated by Mg2+ starvation, Ca2+ stress and alkalinization are ENA1 (encoding a P-type ATPase sodium pump) and PHO89 (encoding a sodium/phosphate cotransporter). We show that up-regulation of these genes is dependent on the calcineurin/Crz1p signaling pathway. Similarly to Ca2+ stress, Mg2+ starvation induces translocation of the transcription factor Crz1p from the cytoplasm into the nucleus. The up-regulation of ENA1 and PHO89 upon Mg2+ starvation depends on extracellular Ca2+. Using fluorescence resonance energy transfer microscopy we demonstrate that removal of Mg2+ results in an immediate increase in free cytoplasmic Ca2+. This effect is dependent on external Ca2+. Results presented indicate that Mg2+ depletion in yeast cells leads to enhanced cellular Ca2+ concentrations, which activate the Crz1p/calcineurin pathway. We provide evidence that calcineurin/Crz1p signaling is crucial for yeast cells to cope with Mg2+ depletion stress.
+  Keywords: stress response (magnesium starvation)
+:title: Yeast magnesium starvation, 90 minutes
+:platform: GPL4734

data/install_scripts/GEO/series/GSE6705.yaml

@@ -0,0 +1,19 @@
+--- 
+:arrays: 
+  GSM154627: 
+    condition: wt
+  GSM154628: 
+    condition: cbc2
+  GSM154629: 
+    condition: cbc2
+  GSM154157: 
+    condition: wt
+  GSM154631: 
+    condition: cbc2
+  GSM154623: 
+    condition: wt
+:description: |-
+  The goal of this experiment is to identify transcripts regulated by Cbc2, the small subunit of nuclear cap binding complex (CBC) in Saccharomyces cerevisiae.
+  Keywords: Genetic modification
+:title: Whole genome expression profile for cbc2-delta cells
+:platform: GPL90

data/install_scripts/GEO/series/GSE6801.yaml

@@ -0,0 +1,27 @@
+--- 
+:description: |-
+  Type 2C protein phosphatases are encoded in Saccharomyces cerevisiae by several related genes (PTC1-5 and PTC7). To gain insight into the functions attributable to specific members of this gene family, we have investigated the transcriptional profiles of ptc1-5 mutants. Two main patterns were obtained as follows: the one generated by the ptc1 mutation and the one resulting from the lack of Ptc2-5. ptc4 and ptc5 profiles were quite similar, whereas that of ptc2 was less related to this group. Mutation of PTC1 resulted in increased expression of numerous genes that are also induced by cell wall damage, such as YKL161c, SED1, or CRH1, as well as in higher amounts of active Slt2 mitogen-activated protein kinase, indicating that lack of the phosphatase activates the cell wall integrity pathway. ptc1 cells were even more sensitive than slt2 mutants to a number of cell wall-damaging agents, and both mutations had additive effects. The sensitivity of ptc1 cells was not dependent on Hog1. Besides these phenotypes, we observed that calcineurin was hyperactivated in ptc1 cells, which were also highly sensitive to calcium ions, heavy metals, and alkaline pH, and exhibited a random haploid budding pattern. Remarkably, many of these traits are found in certain mutants with impaired vacuolar function. As ptc1 cells also display fragmented vacuoles, we hypothesized that lack of Ptc1 would primarily cause vacuolar malfunction, from which other phenotypes would derive. In agreement with this scenario, overexpression of VPS73, a gene of unknown function involved in vacuolar protein sorting, largely rescues not only vacuolar fragmentation but also sensitivity to cell wall damage, high calcium, alkaline pH, as well as other ptc1-specific phenotypes.
+  Keywords: yeast, type 2C protein phosphatases, mutant strains, transcriptional profiles
+:arrays: 
+  GSM157024: 
+    condition: ptc1 vs wt
+  GSM157025: 
+    condition: ptc1 vs wt
+  GSM157026: 
+    condition: ptc2 vs wt
+  GSM157027: 
+    condition: ptc2 vs wt
+  GSM157028: 
+    condition: ptc3 vs wt
+  GSM157030: 
+    condition: ptc4 vs wt
+  GSM157029: 
+    condition: ptc3 vs wt
+  GSM157031: 
+    condition: ptc4 vs wt
+  GSM157032: 
+    condition: ptc5 vs wt
+  GSM157033: 
+    condition: ptc5 vs wt
+:title: Transcriptional profiling of the protein phosphatase 2C family in yeast
+:platform: GPL4069

data/install_scripts/GEO/series/GSE6847.yaml

@@ -0,0 +1,18 @@
+--- 
+:description: "Tra1 is an essential component of the S. cerevisiae SAGA and NuA4 complexes. Using targeted mutagenesis, we identified residues within its C-terminal phosphatidylinositol-3 kinase (PI3K) domain that are required for function. The phenotype of tra1-P3408A, S3463A and SRR3413-3415AAA included temperature sensitivity and reduced growth in media containing 6% ethanol or aminotriazole. These alleles resulted in \xE2\x89\xA52-fold change in expression of ~7% of yeast genes in rich media and reduced activation of PHO5 and ADH2 promoters. Tra1-SRR3413 associated with components of both the NuA4 and SAGA complexes and with the Gal4 transcriptional activation domain similar to wild-type protein. Tra1-SRR3413 resulted in a decreased ratio of acetylated histone H3 and H4 to total histone H3 at the PHO5 promoter that appeared largely due to increased unacetylated histone. Slow growth of a tra1-SRR3413 strain in aminotriazole was suppressed by deletion of Vps1 and the Vps1 interacting protein, Rad16. In addition, ethanol sensitivity was suppressed by loss of Vam3, suggesting that Tra1 is involved with protein trafficking and membrane sorting.  Furthermore, tra1-SRR3413 results in generation dependent telomere shortening. While the tra1 alleles have some phenotypic similarities with deletions of SAGA and/or NuA4 components, the pattern of gene expression, genetic interactions and telomere shortening suggest possible novel functions for the PI3K-domain of Tra1.\n\
+  Keywords: yeast, Tra1, PI3-kinase domain, gene expression, genetic modification"
+:arrays: 
+  GSM157838: 
+    condition: TRA1 SB vs. tra1 P3408A
+  GSM157839: 
+    condition: TRA1 SB vs. tra1 P3408A
+  GSM157840: 
+    condition: TRA1 SB vs. tra1 SRR3413
+  GSM157841: 
+    condition: TRA1 SB vs. tra1 SRR3413
+  GSM157842: 
+    condition: TRA1 SB vs. tra1 S3463A
+  GSM157843: 
+    condition: TRA1 SB vs. tra1 S3463A
+:title: The PI3K domain of Tra1 is required for transcriptional regulation
+:platform: GPL884

data/install_scripts/GEO/series/GSE6870.yaml

@@ -0,0 +1,23 @@
+--- 
+:description: |-
+  Understanding the conditions that promote the evolution of reproductive isolation, and thus speciation. Here we empirically test some of the key predictions of speciation theory (Coyne 2004; Kohn 2005) by experimentally evolving the initial stages of speciation in yeast. After allowing replicate populations to adapt to two divergent environments, we observed the consistent, de novo evolution of two forms of postzygotic isolation: reduced rate of mitotic reproduction and reduced efficiency of meiotic reproduction. In general, divergent selection resulted in greater reproductive isolation than parallel selection, as predicted by ecological speciation theory. Our experimental system allowed for the first controlled comparison of the relative importance of ecological and genetic mechanisms of isolation, and the novel ability to quantify the effects of antagonistic epistasis. For mitotic reproduction, hybrid inferiority was conditional upon the selective environments and was both ecological and genetic in basis. In contrast, isolation associated with meiotic reproduction was unconditional and was caused solely by genetic mechanisms. Overall, our results show that adaption to divergent environments promotes the evolution of isolation through antagonistic epistasis, providing evidence of a plausible common avenue to speciation and adaptive radiation in nature (Schluter 2000,2001: Funk 2006)
+  Keywords: Speciation, antagonistic epistasis, divergent adaptation
+:arrays: 
+  GSM158365: 
+    condition: sce2965 vs control
+  GSM158355: 
+    condition: sce2950 vs control
+  GSM158367: 
+    condition: sce2965 vs control
+  GSM158370: 
+    condition: sce2950 vs control
+  GSM158369: 
+    condition: sce2965 vs control
+  GSM158371: 
+    condition: sce2950 vs control
+  GSM158352: 
+    condition: sce2950 vs control
+  GSM158364: 
+    condition: sce2965 vs control
+:title: Incipient speciation by divergent adaptation and antagonistic epistasis in yeast
+:platform: GPL3458

data/install_scripts/GEO/series/GSE7103.yaml

@@ -0,0 +1,28 @@
+--- 
+:arrays: 
+  GSM170868: 
+    treatment: Periprosthetic membrane wear
+  GSM170869: 
+    treatment: Periprosthetic membrane wear
+  GSM170870: 
+    treatment: Periprosthetic membrane wear
+  GSM170871: 
+    treatment: Periprosthetic membrane infectious
+  GSM170872: 
+    treatment: Periprosthetic membrane wear
+  GSM170873: 
+    treatment: Periprosthetic membrane infectious
+  GSM170874: 
+    treatment: Periprosthetic membrane infectious
+  GSM170875: 
+    treatment: Periprosthetic membrane infectious
+  GSM170876: 
+    treatment: Periprosthetic membrane infectious
+  GSM170877: 
+    treatment: Periprosthetic membrane wear
+:description: |-
+  The aim of the study was to identify markers for the early diagnosis of endoprosthesis loosening, for the differentiation between wear-particle induced and septic loosening, as well as to gather new insights into the pathogenesis.
+  824 genes were differentially expressed with a fold change greater than 2. Among these were Chitinase 1, CD52, Calpain 3, Apolipoprotein, CD18, Lysyl oxidase, Cathepsin D, E-Cadherin, VE-Cadherin, Nidogen, Angiopoietin 1 and Thrombospondin 2, and the differential expression levels were validated by RT-PCR. The chitinase activity was significantly higher in the blood from patients with wear-particle induced prosthesis loosening (p=0.001). However, using chitinase activity as a marker for early diagnosis, it has a specificity of 83% and a sensitivity of only 52%, due to a high variability both in the disease and in the control group.
+  Keywords: Tissue type comparison, disease state analysis, search for new biomarkers
+:title: Gene expression profiling in wear-particle induced and infectious endoprosthesis loosening
+:platform: GPL96

data/install_scripts/GEO/series/GSE7140.yaml

@@ -0,0 +1,19 @@
+--- 
+:description: |-
+  To determine the transcriptional changes that occur when yeast is shifted from anaerobic growth to an aerobic environment over a period of 120 minutes.
+  Keywords: time course, stress response, environmental response, aerobic, anaerobic
+:arrays: 
+  GSM172057: 
+    condition: aerobic vs anaerobic 20min
+  GSM172058: 
+    condition: aerobic vs anaerobic 60min
+  GSM172059: 
+    condition: aerobic vs anaerobic 120min
+  GSM172052: 
+    condition: aerobic vs anaerobic 0min
+  GSM172053: 
+    condition: aerobic vs anaerobic 5min
+  GSM172055: 
+    condition: aerobic vs anaerobic 10min
+:title: Transcriptional response of S.cerevisiae to aeration after anaerobic growth
+:platform: GPL4873

data/install_scripts/GEO/series/GSE7188.yaml

@@ -0,0 +1,23 @@
+--- 
+:description: |-
+  Gentamicin is a highly efficacious antibiotic against gram-negative bacteria.  However, its usefulness in treating infection is compromised by its poorly understood renal toxicity.  This toxic effect is seen in a variety of organisms.  While the yeast Saccharomyces cerevisiae is relatively insensitive to gentamicin, mutations in any one of 20 or so genes causes a dramatic increase in sensitivity.  Many of these genes encode proteins important for translation termination or specific protein trafficking complexes.  Here, we demonstrate by microarray analysis that gentamicin treatment leads to dramatic decreases in genes under the control of the MADS box protein Mcm1, including genes encoding products involved in mating, nitrogen utilization, and ribosome biogenesis.  Furthermore, microarray analysis also demonstrates an increase in a Rlm1-dependent set of genes involved in maintaining the structure of the cell wall that are also induced by the antifungal agents caspofungin and calcofluor white.  Subsequent inspection of the physical and genetic interactions of the remaining gentamicin sensitive mutants revealed a network centered around chitin synthase and the Arf Pathway.  Furthermore, conditional arf1 mutants are hypersensitive to gentamicin even under permissive conditions. These results suggest that gentamicin may act as a cell wall stress, possibly by disrupting Arf-dependent trafficking of proteins involved in forming the cell wall.
+  Keywords: disease state analysis, comparative genomic analysis +/- gentamicin treatment
+:arrays: 
+  GSM172916: 
+    treatment: Control
+  GSM172917: 
+    treatment: Control
+  GSM172918: 
+    treatment: Control
+  GSM172919: 
+    treatment: Control
+  GSM172920: 
+    treatment: Gentamicin
+  GSM172921: 
+    treatment: Gentamicin
+  GSM172922: 
+    treatment: Gentamicin
+  GSM172923: 
+    treatment: Gentamicin
+:title: Expression data from Saccharomyces cerevisiae treated with gentamicin
+:platform: GPL90

data/install_scripts/GEO/series/GSE7261.yaml

@@ -0,0 +1,16 @@
+--- 
+:description: "Time course after the addition of the transcriptional inhibitor thiolutin at 3\xC2\xB5g/mL to an exponential growing culture of S. cerevisiae in YPD.\n\
+  Keywords: time course, mRNA stability analysis"
+:arrays: 
+  GSM175046: 
+    condition: thiolutin 0min
+  GSM175047: 
+    condition: thiolutin 10min
+  GSM175048: 
+    condition: thiolutin 20min
+  GSM175050: 
+    condition: thiolutin 45min
+  GSM175049: 
+    condition: thiolutin 30min
+:title: "Yeast mRNA decay analysis after addition of 3 \xC2\xB5/mL thiolutin"
+:platform: GPL3763

data/install_scripts/GEO/series/GSE7337.yaml

@@ -0,0 +1,19 @@
+--- 
+:description: |-
+  Total RNA from three replicate cultures of wild-type and mutant strains was isolated and the expression profiles were determined using Affymetrix arrays. Comparisons between the sample groups allow the identification of genes regulated by histone H2A^4-20 mutant.
+  Keywords: histone H2A mutant, repeat
+:arrays: 
+  GSM176900: 
+    condition: H2Amut
+  GSM176869: 
+    condition: wt
+  GSM176894: 
+    condition: wt
+  GSM176895: 
+    condition: wt
+  GSM176896: 
+    condition: H2Amut
+  GSM176898: 
+    condition: H2Amut
+:title: Histone H2A^4-20
+:platform: GPL90

data/install_scripts/GEO/series/GSE7338.yaml

@@ -0,0 +1,19 @@
+--- 
+:description: |-
+  Total RNA from three replicate cultures of wild-type and mutant strains was isolated and the expression profiles were determined using Affymetrix arrays. Comparisons between the sample groups allow the identification of genes regulated by the histone H2A K4,7G mutant.
+  Keywords: histone H2A mutant, repeat
+:arrays: 
+  GSM176901: 
+    condition: H2A mut
+  GSM176902: 
+    condition: H2A mut
+  GSM176869: 
+    condition: wt
+  GSM176903: 
+    condition: H2A mut
+  GSM176894: 
+    condition: wt
+  GSM176895: 
+    condition: wt
+:title: Histone H2A K4,7G
+:platform: GPL90

data/install_scripts/GEO/series/GSE7362.yaml

@@ -0,0 +1,123 @@
+--- 
+:description: |-
+  To study the signals and pathways underlying spore germination we examined the global changes in gene expression during this process.
+  We find that the germination process can be divided into two distinct stages. During the first stage, the induced spores respond only to glucose. The transcription program during this stage recapitulates the general transcription response of yeast cells to glucose. Only during the second phase are the cells able to sense and respond to other nutritional components in the environment. Components of the mitotic machinery are involved in spore germination but in a distinct pattern. In contrast to the mitotic cell cycle, growth related events during germination are not coordinated with nuclear events and are separately regulated.
+  Genome-wide expression profiling enables us to follow the progression of spore germination, thus dividing this process into two major stages and to identify germination-specific regulation of components of the mitotic cell cycle machinery.
+  Keywords: Time course
+:arrays: 
+  GSM177250: 
+    incubation: glu-pre.inc-germination2h
+    time: "3.5"
+  GSM177249: 
+    incubation: glu-pre.inc-germination2h
+    time: 3h
+  GSM177238: 
+    incubation: nit
+    time: 2h
+  GSM177227: 
+    incubation: glu
+    time: 2h
+  GSM177251: 
+    incubation: glu-pre.inc-germination2h
+    time: 4h
+  GSM177240: 
+    incubation: nit
+    time: 3h
+  GSM177239: 
+    incubation: nit
+    time: 2.5h
+  GSM177228: 
+    incubation: glu
+    time: 2.5h
+  GSM177252: 
+    incubation: nit-pre.inc-germination2h
+    time: 30min
+  GSM177241: 
+    incubation: nit
+    time: 3.5h
+  GSM177230: 
+    incubation: glu
+    time: 3.5h
+  GSM177229: 
+    incubation: glu
+    time: 3h
+  GSM177253: 
+    incubation: nit-pre.inc-germination2h
+    time: 1h
+  GSM177242: 
+    incubation: nit
+    time: 4.5h
+  GSM177231: 
+    incubation: glu
+    time: 4h
+  GSM177254: 
+    incubation: nit-pre.inc-germination2h
+    time: 1.5h
+  GSM177243: 
+    incubation: nit
+    time: 6h
+  GSM177232: 
+    incubation: glu
+    time: 6h
+  GSM177221: 
+    incubation: diff-nut
+    time: 0min
+  GSM177255: 
+    incubation: nit-pre.inc-germination2h
+    time: 2h
+  GSM177244: 
+    incubation: glu-pre.inc-germination2h
+    time: 30min
+  GSM177233: 
+    incubation: nit
+    time: 15min
+  GSM177222: 
+    incubation: glu
+    time: 15min
+  GSM177256: 
+    incubation: nit-pre.inc-germination2h
+    time: 2.5h
+  GSM177245: 
+    incubation: glu-pre.inc-germination2h
+    time: 1h
+  GSM177234: 
+    incubation: nit
+    time: 30min
+  GSM177223: 
+    incubation: glu
+    time: 30min
+  GSM177257: 
+    incubation: nit-pre.inc-germination2h
+    time: 3.5h
+  GSM177246: 
+    incubation: glu-pre.inc-germination2h
+    time: 1.5h
+  GSM177235: 
+    incubation: bit
+    time: 45min
+  GSM177224: 
+    incubation: glu
+    time: 45min
+  GSM177258: 
+    incubation: nit-pre.inc-germination2h
+    time: 4h
+  GSM177247: 
+    incubation: glu-pre.inc-germination2h
+    time: 2h
+  GSM177236: 
+    incubation: nit
+    time: 1h
+  GSM177225: 
+    incubation: glu
+    time: 1h
+  GSM177248: 
+    incubation: glu-pre.inc-germination2h
+    time: 2.5h
+  GSM177237: 
+    incubation: nit
+    time: 1.5h
+  GSM177226: 
+    incubation: glu
+    time: 1.5h
+:title: The contribution of different nutrients to spore germination in Saccharomyces cerevisiae
+:platform: GPL5031