Transcriptomic tools

General organization

A total of 492 files, 150 absolute value data, 342 relative expression data, 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. 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 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 experiments in MAGE-TAB standard. 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.

ID	Accession	Title	Type	Organism	Assays	Year month / day	Processed Data	Raw Data
1	E-MEXP-1118	Transcription profiling of Listeria monocytogenes EGD-e after heat-shock for 3, 10, 20, and 40 min		Listeria monocytogenes	24	2007 10 / 9	http://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
2	E-BUGS-46	Transcription profiling of Listeria monocytogenes relA and codY mutants	transcription profiling by array	Listeria monocytogenes	6	2007 3 / 7	http://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
3	E-GEOD-12143	Listeria monocytogenes EGD after growth BHI vs. LB vs. MM	transcription profiling by array	Listeria monocytogenes	9	2008 11 / 30	http://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
4	E-GEOD-12145	Listeria monocytogenes EGD?prfApPrfA and EGD?prfApPrfA* compared to the wild type strain EGD	transcription profiling by array	Listeria monocytogenes	12	2008 11 / 30	http://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
5	E-GEOD-12146	Listeria monocytogenes EGD and EGD-e	transcription profiling by array	Listeria monocytogenes, Listeria monocytogenes EGD-e	3	2008 11 / 30	http://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
6	E-GEOD-12151	Modulation of PrfA activity in Listeria monocytogenes upon growth in different culture media	transcription profiling by array	Listeria monocytogenes, Listeria monocytogenes EGD-e	24	2008 11 / 30	http://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
7	E-GEOD-11459	Glycerol metabolism and PrfA activity in Listeria monocytogenes	transcription profiling by array	Listeria monocytogenes	23	2008 5 / 30	http://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
8	E-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 cells	transcription profiling by array	Listeria monocytogenes	12	2008 6 / 18	http://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
9	E-MEXP-1162	Transcription profiling of Listeria monocytogenes EGD-e versus the over-expressing strain (EGD-e+pPXrnhB	transcription profiling by array	Listeria monocytogenes	6	2008 6 / 29	http://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
10	E-MEXP-1170	Transcription profiling of wild type and sigma B mutant Liseteria monocytogenes to characterise the EGD-e sigma B regulon	transcription profiling by array	Listeria monocytogenes	26	2008 7 / 2	http://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
11	E-MEXP-2138	Transcription profiling of Listeria monocytogenes wild type and prfA, sigB and hfq deletion mutants grown in different media and at different temperatures	transcription profiling by array	Listeria monocytogenes	39	2009 4 / 24	http://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
12	E-MEXP-2142	Tiling path analysis of Listeria monocytogenes wild type and prfA, sigB and hfq deletion mutants grown in different media and at different temperatures	transcription profiling by tiling array	Listeria monocytogenes	42	2009 4 / 24	Data is not available	http://www.ebi.ac.uk/arrayexpress/files/E-MEXP-2142/E-MEXP-2142.raw.1.zip
13	E-GEOD-19918	Transcriptomic and phenotypic responses of L. monocytogenes with different growth efficiencies under acidic conditions	transcription profiling by array	Listeria monocytogenes	14	2010 1 / 15	http://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
14	E-GEOD-15651	Listeria monocytogenes Transcriptome with RNA-Seq	RNA-seq of coding RNA	Listeria monocytogenes	4	2010 1 / 5	http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-15651/processed/	Data is not available
15	E-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 LiaSLm	transcription profiling by array	Listeria monocytogenes EGD-e	11	2010 11 / 16	http://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
16	E-MEXP-1947	Transcription profiling of Listeria monocytogenes after infection into murine macrophages	transcription profiling by array	Listeria monocytogenes	55	2010 11 / 25	http://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
17	E-GEOD-16336	Induction of virulence genes in Listeria monocytogenes serotype 4b upon exposure to concentrations of biocides	transcription profiling by tiling array	Listeria monocytogenes str. 4b F2365	34	2010 11 / 27	http://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
18	E-GEOD-19014	Pyruvate carboxylase and carbon metabolism in Listeria monocytogenes	transcription profiling by array	Listeria monocytogenes	4	2010 2 / 9	http://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
19	E-TABM-663	Transcription profiling of Listeria monocytogenes intracellularly replicating in mouse macrophages activated by IFN-gamma	transcription profiling by array	Listeria monocytogenes	12	2010 3 / 11	http://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
20	E-GEOD-20367	Probing the pan genome of a foodborne bacterial pathogen Listeria monocytogenes	comparative genomic hybridization by array	Listeria monocytogenes, Listeria monocytogenes EGD-e, Listeria monocytogenes FSL F2-208, Listeria monocytogenes FSL J1-208, Listeria monocytogenes FSL J2-071	18	2010 4 / 6	http://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/
21	E-MTAB-116	Transcription profiling of wild type and L forms of Listeria monocytogenes	transcription profiling by array	Listeria monocytogenes	4	2010 5 / 12	Data is not available	http://www.ebi.ac.uk/arrayexpress/files/E-MTAB-116/E-MTAB-116.raw.1.zip
22	E-GEOD-20274	Transcriptome profiling of Listeria monocytogenes during growth on a RTE-meat matrix	transcription profiling by array	Listeria monocytogenes	12	2010 5 / 14	http://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
23	E-GEOD-19570	Osmotic stress in Listeria monocytogenes serotype 4b strain F2365 grown in BHI medium and BHI medium with 1.2% NaCl	transcription profiling by array	Listeria monocytogenes	12	2010 5 / 15	http://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
24	E-GEOD-11347	Characterization of the SigB-PrfA regulatory network in Listeria monocytogenes	transcription profiling by array	Listeria monocytogenes	24	2010 5 / 19	http://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
25	E-GEOD-12634	Listeria monocytogenes SOS response determined after mitomycin C exposure	transcription profiling by array	Listeria monocytogenes EGD-e	16	2010 5 / 19	http://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
26	E-GEOD-18363	Identification of the major PEP-phosphotransferase systems (PTS) for glucose, mannose and cellobiose of L. monocytogenes	transcription profiling by array	Listeria monocytogenes EGD-e	24	2010 5 / 19	http://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
27	E-GEOD-21427	Sigma B in Listeria monocytogenes strains from different lineages	transcription profiling by array	Listeria monocytogenes	4	2010 6 / 1	http://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
28	E-GEOD-6421	regulation of Listeria monocytogenes internalin-like genes by ?B and PrfA as revealed by subgenomic microarray analyses	transcription profiling by array	Listeria monocytogenes, Listeria monocytogenes 10403S	4	2010 6 / 11	http://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
29	E-GEOD-18796	Physiology and genetic activity of Listeria monocytogenes during multi-hurdle stress induced cell death	transcription profiling by array	Listeria monocytogenes	8	2010 6 / 20	http://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
30	E-MTAB-118	Transcription profiling of wild type and SreA mutant Listeria monocytogenes	transcription profiling by array	Listeria monocytogenes	4	2010 6 / 20	Data is not available	http://www.ebi.ac.uk/arrayexpress/files/E-MTAB-118/E-MTAB-118.raw.1.zip
31	E-GEOD-13057	In vivo transcriptome of Listeria monocytogenes EGDe	transcription profiling by array	Listeria monocytogenes EGD-e	8	2010 6 / 25	http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-13057/E-GEOD-13057.processed.1.zip	Data is not available
32	E-MEXP-2279	Transcription profiling of Listeria monocytogenes following oxygen restriction	transcription profiling by array	Listeria monocytogenes	3	2010 7 / 1	http://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
33	E-GEOD-25195	Transcriptional response of Listeria monocytogenes h7858 and f6854 to lactate and acetate	transcription profiling by array	Listeria monocytogenes	32	2011 11 / 3	http://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
34	E-GEOD-34083	Intracellular transcription by multiple Listeria monocytogenes strains	transcription profiling by array	Listeria monocytogenes	4	2011 12 / 2	http://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
35	E-GEOD-16887	Identification of sigB inhibitors in L. monocytogenes	transcription profiling by array	Listeria monocytogenes 10403S	1	2011 12 / 6	http://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
36	E-GEOD-26690	Transcriptomic Response of Listeria monocytogenes throughout the Life Cycle	transcription profiling by array	Listeria monocytogenes serotype 4b str. F2365	12	2011 2 / 24	http://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
37	E-GEOD-28507	Listeria monocytogenes transcriptional response to bile	transcription profiling by array	Listeria monocytogenes	6	2011 4 / 12	http://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
38	E-BUGS-110	Global Transcriptional Analysis of Spontaneous Sakacin P-Resistant Mutant Strains of Listeria monocytogenes during Growth on Different Sugars	transcription profiling by array	Listeria monocytogenes	16	2011 4 / 15	http://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
39	E-GEOD-22819	Gene expression profiling of a pressure-tolerant Listeria monocytogenes Scott A ctsR deletion mutant	transcription profiling by array	Listeria monocytogenes	4	2011 6 / 10	http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-22819/E-GEOD-22819.processed.1.zip	Data is not available
40	E-GEOD-22672	Listeria monocytogenes Grown at Refrigeration Temperature Shows Reduced Acid Survival and an Altered Transcriptional Response to Acid Shock	transcription profiling by array	Listeria monocytogenes	10	2011 6 / 30	http://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
41	E-GEOD-27521	Temporal changes in Listeria monocytogenes gene expression during salt stress	transcription profiling by array	Listeria monocytogenes	60	2011 7 / 1	http://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
42	E-MTAB-329	non-coding RNA-Seq of Listeria monocytogenes from bacteria growing extracellularly and in macrophages		Listeria monocytogenes EGD-e	2	2011 7 / 21	http://www.ebi.ac.uk/arrayexpress/files/E-MTAB-329/E-MTAB-329.processed.1.zip	Data is not available
43	E-GEOD-32434	Analysis of ?L dependent traits based on phenotypic and transcriptomic evaluation of the Listeria monocytogenes EGDe strain	transcription profiling by array	Listeria monocytogenes EGD-e	36	2012 1 / 1	http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-32434/E-GEOD-32434.processed.1.zip	Data is not available
44	E-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 array	Listeria monocytogenes J0161	8	2012 1 / 15	http://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
45	E-GEOD-32913	Genome-wide transcriptional profiling of the cell envelope stress response of Listeria monocytogenes	transcription profiling by array	Listeria monocytogenes	16	2012 1 / 24	http://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
46	E-GEOD-40598	Role of a GntR-family response regulator LbrA in Listeria monocytogenes biofilm formation	transcription profiling by array	Listeria monocytogenes	6	2012 9 / 6	http://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
47	E-GEOD-32172	L. monocytogenes ctsR mutant 2-1 cells response to pressure	transcription profiling by array	Listeria monocytogenes str. Scott A	2	2013 2 / 14	http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-32172/E-GEOD-32172.processed.1.zip	Data is not available
48	E-GEOD-41891	Gene expression profiling of a nisin-sensitive Listeria monocytogenes Scott A ctsR deletion mutant	transcription profiling by array	Listeria monocytogenes str. Scott A	4	2013 2 / 14	http://www.ebi.ac.uk/arrayexpress/files/E-GEOD-41891/E-GEOD-41891.processed.1.zip	Data is not available
49	E-GEOD-46182	Characterization of the lag-phase associated cold acclimation gene expression responses in L. monocytogenes EGD-e	transcription profiling by array	Listeria monocytogenes EGD-e	12	2013 4 / 19	http://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
50	E-GEOD-43052	The whole genome transcription analysis reveals the regulatory network for Listeria monocytogenes biofilm formation is modified in the prfA deletion mutant	transcription profiling by array	Listeria monocytogenes EGD-e	15	2013 5 / 1	http://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
51	E-GEOD-46612	Characterization of the transcriptomes of genetically diverse Listeria monocytogenes exposed to hyperosmotic and low temperature conditions	transcription profiling by array	Listeria monocytogenes	6	2013 5 / 4	http://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
52	E-GEOD-42730	Listeria monocytogenes strain F2365 has reduced ability to survive stress while maintaining virulence characteristics	transcription profiling by array	Listeria monocytogenes	1	2013 6 / 1	http://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
53	E-GEOD-47721	Transcriptomic profiling of L-rhamnose utilization in Lmo0753 deletion mutant of Listeria monocytogenes EGDe from human foodborne outbreak associated lineage LII	RNA-seq of coding RNA	Listeria monocytogenes	4	2013 17 / 7	Data is not available	Data is not available
54	E-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 strains	transcription profiling by array	Listeria monocytogenes	1	2013 20 / 7	http://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
55	E-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 array	Listeria monocytogenes EGD, Listeria monocytogenes EGD-e	9	2013 8 / 1	http://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
56	E-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 array	Listeria monocytogenes EGD, Listeria monocytogenes EGD-e	9	2013 8 / 1	http://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