Transcriptomic tools

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General organization

The small RNA webpage can be accessed either from the home webpage of the Listeriomics website or by double-clicking on a small RNA in the genome viewer.

Printscreen of the Gene webpage of the Listeriomics website


Small RNA search and selection

In this list, all the small RNA available in Listeria monocytogenes EGD-e strain are displayed. One can search for a small RNA. A click on an element of the list will display all related information on the Small RNA information panel.

Omics selection panel

For each Listeria small RNA two different information panels are available.

  • General information: The position of the small RNA, possible regulation, DNA sequence and predicted secondary structure.
  • Expression atlas: It shows in which transcriptomics datasets the selected small RNA is differently expressed. The cut-off on the Log(Fold Change) value for detecting such elements can be changed by the user.
Small RNA information panel

The panel in which all information will be displayed

How-to access Small RNA information ?

Small RNA general information panel of the Small RNA webpage
 Click on General information on the Omics selection panel
  • Genome viewer: Displays the small RNA in the genome viewer to see surrounding genome features.
  • General information: Every general information available on small RNA position, and study in which it was discovered.
  • Supplementary information: All supplementary information available from all the studies in which the small RNA was detected.
  • Sequences: DNA and amino acid sequences are available here for copy/paste.
  • Sequences: Predicted secondary structure at 37°C of the small RNA using UNAFold software.

Is my Small RNA transcribed ?

Expression atlas panel of the Small RNA webpage
 Click on Expression Atlas on the Omics selection panel
  • Cut-off selection: Select the value of Log(Fold Change) used to detect differential expression.
  • Send to Genome viewer of Heatmap viewer: Display selected datasets in the genome viewer in which the small RNA will be highlighted, or to the heatmap viewer to show the values of Log(Fold-change).
  • Datasets in which the gene is over-expressed: List of relative value expression data in which the small RNAis over-expressed (i.e. Log(FC) > cut-off).
  • Datasets in which the gene is under-expressed: List of relative value expression data in which the small RNAis under-expressed (i.e. Log(FC) < - cut-off).
  • Datasets in which the gene has no differential expression: List of relative value expression data in which the small RNAis not differentially expressed (i.e. - cut-off < Log(FC) < cut-off).

Summary of Small RNA studies in Listeria monocytogenes EGD-e

In the past decade, noncoding RNAs in Listeria have been studied in detail

  • 155 sRNAs (acting mainly in trans)
  • 46 cis regulatory elements (cisRegs)
  • 104 antisense RNAs (asRNAs)

Tables summarizing all the small RNAs observed can be accessed in the small RNAs summary webpage. This page can be accessed from the home webpage of the Listeriomics website.

Printscreen of the Small RNAs summary webpage of the Listeriomics website


Small RNA type selection:

Type of small RNA to display:

  • sRNAs
  • cisRegs
  • asRNAs
Small RNAs summary table

Table with different information on each small RNA:

  • Position
  • If a transcription start site has been found in [1]
  • In which study it has been first discovered
  • In which other study it has been observed

By clicking on a small RNA, the small RNA webpage will open to give more information.

Transcriptomic database

We downloaded the 64 Listeria related ArrayExpress (27) experiments in MAGE-TAB standard (36) (Table S3). Every MAGE-TAB file included an IDF (Investigation Description Format) file giving general information about the experiment, SDRF (Sample and Data Relationship Format) file giving data relationship, and processed data. We manually curated every SDRF file and integrated the different information about the data. We extracted the main biological attributes for each dataset and associated it to different key parameters: “TimePoint”, for growh time, void value being overnight growth; “Mutant” indicating a gene is removed or over-expressed; “Growth” indicating the growth phase from which the bacteria were extracted; “Temperature” of the growth media; “Media” properties for example if Glucose was added, or if bacteria were extracted from macrophages; “Strain used” and “Strain array” indicating the strain used for the experiment, and strain actually used for designing the array or mapping RNASeq reads. We then added matrices of expression or comparison for each biological condition. In total, 32 different gene expression array and 6 RNASeq technologies were combined. For Gene Expression arrays we downloaded the 32 ADF (Array Design Format) files which describe the relationship between array probes and genes. Only processed data provided by ArrayExpress were used, no new normalization was applied. Depending on the experiment, two types of data were available: Absolute expression value and relative expression value. The former if available, was log-transformed and median normalized, median differences of log values were calculated (LOGFC). For relative expression tables we were able to always extract LOGFC values. Fold change (FC) and t-test p-values were also extracted when available. For every type of data and value we calculated the mean value and standard deviation of each gene for technical and biological replicates. We did the same when many probes were available for one gene. In the case of RNASeq, raw reads alignments were performed with bowtie version 1.0.0 (parameters : --best –strata -k 1 -m 100 -n 1 -l 20) (37) or segemehl version 0.1.7-411 (parameters : default) (38) or novoalignCS (parameters : -F BFASTQ –s 1 –l 14 –t 50) Reads were mapped on L. mono. EGD-e genome sequence (NC_003210.1) for E-GEOD-47721, E-GEOD-51487, E-GEOD-60363, E-MTAB-329, PRJEB6949) and L. mono. 10403S (NC_017544) for E-GEOD-15651. Alignment files were then sorted and compressed to bam file format with SAMtools version 0.1.19 (39). BEDTools version 2.17.0 (40) was used in combination with custom python scripts to compute Reads Per Kilobase per Million mapped reads (RPKM) for each genomic feature and Reads Per Million (RPM) for genome-wide coverage. The differential expression analysis was performed using DESeq version 1.14.0 (41) following manual recommendation with respect to the number of available replicates on per feature raw counts.

A total of 492 files, 150 absolute value data, 342 relative expression data, (Figure 1) were created and integrated in the Listeriomics website. For every experiment, relative expression data were always available whereas absolute expression data was found only in a quarter of the data.

IDAccessionTitleTypeOrganismAssaysYear month / dayProcessed DataRaw Data
1E-MEXP-1118 Transcription profiling of Listeria monocytogenes EGD-e after heat-shock for 3, 10, 20, and 40 minListeria monocytogenes242007 10 / 9http://www.ebi.ac.uk/arrayexpress/files/E-MEXP-1118/E-MEXP-1118.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-MEXP-1118/E-MEXP-1118.raw.1.zip
2E-BUGS-46 Transcription profiling of Listeria monocytogenes relA and codY mutantstranscription profiling by arrayListeria monocytogenes62007 3 / 7http://www.ebi.ac.uk/arrayexpress/files/E-BUGS-46/E-BUGS-46.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-BUGS-46/E-BUGS-46.raw.1.zip
3E-GEOD-12143 Listeria monocytogenes EGD after growth BHI vs. LB vs. MMtranscription profiling by arrayListeria monocytogenes92008 11 / 30http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-12143/E-GEOD-12143.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-12143/E-GEOD-12143.raw.1.zip
4E-GEOD-12145 Listeria monocytogenes EGD?prfApPrfA and EGD?prfApPrfA* compared to the wild type strain EGDtranscription profiling by arrayListeria monocytogenes122008 11 / 30http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-12145/E-GEOD-12145.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-12145/E-GEOD-12145.raw.1.zip
5E-GEOD-12146 Listeria monocytogenes EGD and EGD-etranscription profiling by arrayListeria monocytogenes, Listeria monocytogenes EGD-e32008 11 / 30http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-12146/E-GEOD-12146.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-12146/E-GEOD-12146.raw.1.zip
6E-GEOD-12151 Modulation of PrfA activity in Listeria monocytogenes upon growth in different culture mediatranscription profiling by arrayListeria monocytogenes, Listeria monocytogenes EGD-e242008 11 / 30http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-12151/E-GEOD-12151.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-12151/E-GEOD-12151.raw.1.zip
7E-GEOD-11459 Glycerol metabolism and PrfA activity in Listeria monocytogenestranscription profiling by arrayListeria monocytogenes232008 5 / 30http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-11459/E-GEOD-11459.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-11459/E-GEOD-11459.raw.1.zip
8E-MEXP-1144 Transcription profiling of wild type Listera monocytogenes EGD-e and an isogenic deltahlydeltaplcA mutant strain 1 hour or 4 hours post infection into human intestinal epithelial cellstranscription profiling by arrayListeria monocytogenes122008 6 / 18http://www.ebi.ac.uk/arrayexpress/files/E-MEXP-1144/E-MEXP-1144.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-MEXP-1144/E-MEXP-1144.raw.1.zip
9E-MEXP-1162 Transcription profiling of Listeria monocytogenes EGD-e versus the over-expressing strain (EGD-e+pPXrnhBtranscription profiling by arrayListeria monocytogenes62008 6 / 29http://www.ebi.ac.uk/arrayexpress/files/E-MEXP-1162/E-MEXP-1162.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-MEXP-1162/E-MEXP-1162.raw.1.zip
10E-MEXP-1170 Transcription profiling of wild type and sigma B mutant Liseteria monocytogenes to characterise the EGD-e sigma B regulontranscription profiling by arrayListeria monocytogenes262008 7 / 2http://www.ebi.ac.uk/arrayexpress/files/E-MEXP-1170/E-MEXP-1170.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-MEXP-1170/E-MEXP-1170.raw.1.zip
11E-MEXP-2138 Transcription profiling of Listeria monocytogenes wild type and prfA, sigB and hfq deletion mutants grown in different media and at different temperaturestranscription profiling by arrayListeria monocytogenes392009 4 / 24http://www.ebi.ac.uk/arrayexpress/files/E-MEXP-2138/E-MEXP-2138.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-MEXP-2138/E-MEXP-2138.raw.1.zip
12E-MEXP-2142 Tiling path analysis of Listeria monocytogenes wild type and prfA, sigB and hfq deletion mutants grown in different media and at different temperaturestranscription profiling by tiling arrayListeria monocytogenes422009 4 / 24Data is not availablehttp://www.ebi.ac.uk/arrayexpress/files/E-MEXP-2142/E-MEXP-2142.raw.1.zip
13E-GEOD-19918 Transcriptomic and phenotypic responses of L. monocytogenes with different growth efficiencies under acidic conditionstranscription profiling by arrayListeria monocytogenes142010 1 / 15http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-19918/E-GEOD-19918.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-19918/E-GEOD-19918.raw.1.zip
14E-GEOD-15651 Listeria monocytogenes Transcriptome with RNA-SeqRNA-seq of coding RNAListeria monocytogenes42010 1 / 5http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-15651/processed/ Data is not available
15E-GEOD-24107 The cell envelope stress response mediated by the LiaFSRLm three-component system of Listeria monocytogenes is controlled via the phosphatase activity of the bifunctional histidine kinase LiaSLmtranscription profiling by arrayListeria monocytogenes EGD-e112010 11 / 16http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-24107/E-GEOD-24107.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-24107/E-GEOD-24107.raw.1.zip
16E-MEXP-1947 Transcription profiling of Listeria monocytogenes after infection into murine macrophagestranscription profiling by arrayListeria monocytogenes552010 11 / 25http://www.ebi.ac.uk/arrayexpress/files/E-MEXP-1947/E-MEXP-1947.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-MEXP-1947/E-MEXP-1947.raw.1.zip
17E-GEOD-16336 Induction of virulence genes in Listeria monocytogenes serotype 4b upon exposure to concentrations of biocidestranscription profiling by tiling arrayListeria monocytogenes str. 4b F2365342010 11 / 27http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-16336/E-GEOD-16336.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-16336/E-GEOD-16336.raw.1.zip
18E-GEOD-19014 Pyruvate carboxylase and carbon metabolism in Listeria monocytogenestranscription profiling by arrayListeria monocytogenes42010 2 / 9http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-19014/E-GEOD-19014.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-19014/E-GEOD-19014.raw.1.zip
19E-TABM-663 Transcription profiling of Listeria monocytogenes intracellularly replicating in mouse macrophages activated by IFN-gammatranscription profiling by arrayListeria monocytogenes122010 3 / 11http://www.ebi.ac.uk/arrayexpress/files/E-TABM-663/E-TABM-663.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-TABM-663/E-TABM-663.raw.1.zip
20E-GEOD-20367 Probing the pan genome of a foodborne bacterial pathogen Listeria monocytogenescomparative genomic hybridization by arrayListeria monocytogenes, Listeria monocytogenes EGD-e, Listeria monocytogenes FSL F2-208, Listeria monocytogenes FSL J1-208, Listeria monocytogenes FSL J2-071182010 4 / 6http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-20367/E-GEOD-20367.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-20367/raw/
21E-MTAB-116 Transcription profiling of wild type and L forms of Listeria monocytogenestranscription profiling by arrayListeria monocytogenes42010 5 / 12Data is not availablehttp://www.ebi.ac.uk/arrayexpress/files/E-MTAB-116/E-MTAB-116.raw.1.zip
22E-GEOD-20274 Transcriptome profiling of Listeria monocytogenes during growth on a RTE-meat matrixtranscription profiling by arrayListeria monocytogenes122010 5 / 14http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-20274/E-GEOD-20274.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-20274/E-GEOD-20274.raw.1.zip
23E-GEOD-19570 Osmotic stress in Listeria monocytogenes serotype 4b strain F2365 grown in BHI medium and BHI medium with 1.2% NaCltranscription profiling by arrayListeria monocytogenes122010 5 / 15http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-19570/E-GEOD-19570.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-19570/E-GEOD-19570.raw.1.zip
24E-GEOD-11347 Characterization of the SigB-PrfA regulatory network in Listeria monocytogenestranscription profiling by arrayListeria monocytogenes242010 5 / 19http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-11347/E-GEOD-11347.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-11347/E-GEOD-11347.raw.1.zip
25E-GEOD-12634 Listeria monocytogenes SOS response determined after mitomycin C exposuretranscription profiling by arrayListeria monocytogenes EGD-e162010 5 / 19http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-12634/E-GEOD-12634.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-12634/E-GEOD-12634.raw.1.zip
26E-GEOD-18363 Identification of the major PEP-phosphotransferase systems (PTS) for glucose, mannose and cellobiose of L. monocytogenestranscription profiling by arrayListeria monocytogenes EGD-e242010 5 / 19http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-18363/E-GEOD-18363.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-18363/E-GEOD-18363.raw.1.zip
27E-GEOD-21427 Sigma B in Listeria monocytogenes strains from different lineagestranscription profiling by arrayListeria monocytogenes42010 6 / 1http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-21427/E-GEOD-21427.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-21427/E-GEOD-21427.raw.1.zip
28E-GEOD-6421 regulation of Listeria monocytogenes internalin-like genes by ?B and PrfA as revealed by subgenomic microarray analysestranscription profiling by arrayListeria monocytogenes, Listeria monocytogenes 10403S42010 6 / 11http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-6421/E-GEOD-6421.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-6421/E-GEOD-6421.raw.1.zip
29E-GEOD-18796 Physiology and genetic activity of Listeria monocytogenes during multi-hurdle stress induced cell deathtranscription profiling by arrayListeria monocytogenes82010 6 / 20http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-18796/E-GEOD-18796.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-18796/E-GEOD-18796.raw.1.zip
30E-MTAB-118 Transcription profiling of wild type and SreA mutant Listeria monocytogenestranscription profiling by arrayListeria monocytogenes42010 6 / 20Data is not availablehttp://www.ebi.ac.uk/arrayexpress/files/E-MTAB-118/E-MTAB-118.raw.1.zip
31E-GEOD-13057 In vivo transcriptome of Listeria monocytogenes EGDetranscription profiling by arrayListeria monocytogenes EGD-e82010 6 / 25http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-13057/E-GEOD-13057.processed.1.zip Data is not available
32E-MEXP-2279 Transcription profiling of Listeria monocytogenes following oxygen restrictiontranscription profiling by arrayListeria monocytogenes32010 7 / 1http://www.ebi.ac.uk/arrayexpress/files/E-MEXP-2279/processed/ http://www.ebi.ac.uk/arrayexpress/files/E-MEXP-2279/E-MEXP-2279.raw.1.zip
33E-GEOD-25195 Transcriptional response of Listeria monocytogenes h7858 and f6854 to lactate and acetatetranscription profiling by arrayListeria monocytogenes322011 11 / 3http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-25195/E-GEOD-25195.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-25195/E-GEOD-25195.raw.1.zip
34E-GEOD-34083 Intracellular transcription by multiple Listeria monocytogenes strainstranscription profiling by arrayListeria monocytogenes42011 12 / 2http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-34083/E-GEOD-34083.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-34083/E-GEOD-34083.raw.1.zip
35E-GEOD-16887 Identification of sigB inhibitors in L. monocytogenestranscription profiling by arrayListeria monocytogenes 10403S12011 12 / 6http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-16887/E-GEOD-16887.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-16887/E-GEOD-16887.raw.1.zip
36E-GEOD-26690 Transcriptomic Response of Listeria monocytogenes throughout the Life Cycletranscription profiling by arrayListeria monocytogenes serotype 4b str. F2365122011 2 / 24http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-26690/E-GEOD-26690.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-26690/E-GEOD-26690.raw.1.zip
37E-GEOD-28507 Listeria monocytogenes transcriptional response to biletranscription profiling by arrayListeria monocytogenes62011 4 / 12http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-28507/E-GEOD-28507.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-28507/E-GEOD-28507.raw.1.zip
38E-BUGS-110 Global Transcriptional Analysis of Spontaneous Sakacin P-Resistant Mutant Strains of Listeria monocytogenes during Growth on Different Sugarstranscription profiling by arrayListeria monocytogenes162011 4 / 15http://www.ebi.ac.uk/arrayexpress/files/E-BUGS-110/processed/ http://www.ebi.ac.uk/arrayexpress/files/E-BUGS-110/E-BUGS-110.raw.1.zip
39E-GEOD-22819 Gene expression profiling of a pressure-tolerant Listeria monocytogenes Scott A ctsR deletion mutanttranscription profiling by arrayListeria monocytogenes42011 6 / 10http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-22819/E-GEOD-22819.processed.1.zip Data is not available
40E-GEOD-22672 Listeria monocytogenes Grown at Refrigeration Temperature Shows Reduced Acid Survival and an Altered Transcriptional Response to Acid Shocktranscription profiling by arrayListeria monocytogenes102011 6 / 30http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-22672/E-GEOD-22672.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-22672/E-GEOD-22672.raw.1.zip
41E-GEOD-27521 Temporal changes in Listeria monocytogenes gene expression during salt stresstranscription profiling by arrayListeria monocytogenes602011 7 / 1http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-27521/E-GEOD-27521.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-27521/E-GEOD-27521.raw.1.zip
42E-MTAB-329 non-coding RNA-Seq of Listeria monocytogenes from bacteria growing extracellularly and in macrophagesListeria monocytogenes EGD-e22011 7 / 21http://www.ebi.ac.uk/arrayexpress/files/E-MTAB-329/E-MTAB-329.processed.1.zip Data is not available
43E-GEOD-32434 Analysis of ?L dependent traits based on phenotypic and transcriptomic evaluation of the Listeria monocytogenes EGDe straintranscription profiling by arrayListeria monocytogenes EGD-e362012 1 / 1http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-32434/E-GEOD-32434.processed.1.zip Data is not available
44E-GEOD-27936 Gene Expression Profiling of Listeria monocytogenes in monoculture and in co-culture state in the presence of Bacillus subtilis both as planktonic cells and in biofilms.transcription profiling by arrayListeria monocytogenes J016182012 1 / 15http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-27936/E-GEOD-27936.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-27936/E-GEOD-27936.raw.1.zip
45E-GEOD-32913 Genome-wide transcriptional profiling of the cell envelope stress response of Listeria monocytogenestranscription profiling by arrayListeria monocytogenes162012 1 / 24http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-32913/E-GEOD-32913.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-32913/E-GEOD-32913.raw.1.zip
46E-GEOD-40598 Role of a GntR-family response regulator LbrA in Listeria monocytogenes biofilm formationtranscription profiling by arrayListeria monocytogenes62012 9 / 6http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-40598/E-GEOD-40598.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-40598/E-GEOD-40598.raw.1.zip
47E-GEOD-32172 L. monocytogenes ctsR mutant 2-1 cells response to pressuretranscription profiling by arrayListeria monocytogenes str. Scott A22013 2 / 14http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-32172/E-GEOD-32172.processed.1.zip Data is not available
48E-GEOD-41891 Gene expression profiling of a nisin-sensitive Listeria monocytogenes Scott A ctsR deletion mutanttranscription profiling by arrayListeria monocytogenes str. Scott A42013 2 / 14http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-41891/E-GEOD-41891.processed.1.zip Data is not available
49E-GEOD-46182 Characterization of the lag-phase associated cold acclimation gene expression responses in L. monocytogenes EGD-etranscription profiling by arrayListeria monocytogenes EGD-e122013 4 / 19http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-46182/E-GEOD-46182.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-46182/E-GEOD-46182.raw.1.zip
50E-GEOD-43052 The whole genome transcription analysis reveals the regulatory network for Listeria monocytogenes biofilm formation is modified in the prfA deletion mutanttranscription profiling by arrayListeria monocytogenes EGD-e152013 5 / 1http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-43052/E-GEOD-43052.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-43052/E-GEOD-43052.raw.1.zip
51E-GEOD-46612 Characterization of the transcriptomes of genetically diverse Listeria monocytogenes exposed to hyperosmotic and low temperature conditionstranscription profiling by arrayListeria monocytogenes62013 5 / 4http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-46612/E-GEOD-46612.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-46612/E-GEOD-46612.raw.1.zip
52E-GEOD-42730 Listeria monocytogenes strain F2365 has reduced ability to survive stress while maintaining virulence characteristicstranscription profiling by arrayListeria monocytogenes12013 6 / 1http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-42730/E-GEOD-42730.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-42730/E-GEOD-42730.raw.1.zip
53E-GEOD-47721 Transcriptomic profiling of L-rhamnose utilization in Lmo0753 deletion mutant of Listeria monocytogenes EGDe from human foodborne outbreak associated lineage LIIRNA-seq of coding RNAListeria monocytogenes42013 17 / 7Data is not availableData is not available
54E-GEOD-49056 Listeria monocytogenes Sigma B, but not PrfA, shows strain specific contributions to growth under salt stress, and prolongated lag phase of a sigB null mutant across strainstranscription profiling by arrayListeria monocytogenes12013 20 / 7http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-49056/E-GEOD-49056.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-49056/E-GEOD-49056.raw.1.zip
55E-MTAB-1677 Transcription profiling by tiling array of Listeria monocytogenes EGD wild type, Listeria monocytogenes EGD-e wild-type and EGD-e PrfA*transcription profiling by tiling arrayListeria monocytogenes EGD, Listeria monocytogenes EGD-e92013 8 / 1http://www.ebi.ac.uk/arrayexpress/files/E-MTAB-1677/E-MTAB-1677.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-MTAB-1677/E-MTAB-1677.raw.1.zip
56E-MTAB-1676 Transcription profiling by array of Listeria monocytogenes EGD wild type, Listeria monocytogenes EGD-e wild-type and EGD-e PrfA*transcription profiling by arrayListeria monocytogenes EGD, Listeria monocytogenes EGD-e92013 8 / 1http://www.ebi.ac.uk/arrayexpress/files/E-MTAB-1676/E-MTAB-1676.processed.1.zip http://www.ebi.ac.uk/arrayexpress/files/E-MTAB-1676/E-MTAB-1676.raw.1.zip
  1. ↑ Cite error: Invalid <ref> tag; no text was provided for refs named Wurtzel
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