TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv0075/-:

update plot	correlation	link to info on gene
Rv1156/-	(cc=0.5369)	info on Rv1156/-
Rv0840c/pip	(cc=0.5237)	info on Rv0840c/pip
Rv0218/-	(cc=0.5207)	info on Rv0218/-
Rv0674/-	(cc=0.5135)	info on Rv0674/-
Rv1367c/-	(cc=0.5062)	info on Rv1367c/-
Rv2232/ptkA	(cc=0.5018)	info on Rv2232/ptkA
Rv1368/lprF	(cc=0.4952)	info on Rv1368/lprF
Rv0846c/-	(cc=0.4937)	info on Rv0846c/-
Rv0359/-	(cc=0.4924)	info on Rv0359/-
Rv1105/-	(cc=0.4913)	info on Rv1105/-

Correlation of Rv0075/- with Rv1105/-

Normalized LFCs for Rv0075/-:
(description and provenance of datasets)

	Rv0075/-	Rv1105/-
Fe_supp_jason_reseq	-0.153	-0.368
low_pH_jason_reseq	-0.447	-0.644
NO_jason_reseq	0.097	0.21
B6_jason_reseq	0.662	0.503
MHCII_jason_reseq	1.083	0.521
Isoniazid02	0.825	1.675
Rifampicin4	0.265	-0.238
Ethambutol3	1.492	2.927
Meropenem3	-0.273	0.086
Vancomycin16	-0.348	0.342
Rv2680_day32	-0.169	0.789
H37Rv_KO_MarP	0.46	-0.332
hypoxia_3wks	0.255	1.739
hypoxia_6wks	0.75	1.693
glycerol	-0.285	-0.284
cholesterol	0.12	-0.296
AJ	-0.222	0.239
Bibs02	0.481	0.78
Bibs02c	0.432	0.505
BL6	-0.236	0.725
BL6a	0.192	0.834
BXD01	-0.007	1.447
BXD010	-0.372	0.759
BXD011	-0.143	1.272
BXD03	-0.42	0.604
BXD04	-0.271	1.217
BXD05	-0.077	0.944
BXD06	0.178	1.086
BXD07	-0.204	0.992
BXD08	-0.3	0.646
BXD09	-0.044	0.869
CAST	0.012	0.053
CCcont	-0.505	0.322
DS01	0.477	1.056
DS02	0.022	0.066
DS04	0.88	1.66
DS0c	0.83	0.762
GP01	-0.328	-0.072
GP02	1.227	0.074
GP0c	-0.544	0.214
NOD	0.573	0.675
NZO	-0.082	0.061
PWK	-0.199	1.047
H37Rv_KO_CtpC	-0.346	0.013
H37Rv_KO_CtpD	0.099	-0.039
H37Rv_KO_Rv1272	0.103	0.214
H37Rv_KO_SugABC	-0.301	-0.822
H37Rv_KO_MbtN	-0.8	0.279
Trans05	0.059	0.847
macrophage_unactivated	-0.846	-0.265
IL1	-0.392	-0.605
Rapamycin	0.025	-0.555
Tcell	-0.14	0.701
GMCSF	-0.576	-1.344
IFNab	-0.659	-1.339
IFNg	-0.329	-0.265
IFNg_GMCSF1	-0.625	-1.568
Rv1432_day32	-0.24	-0.541
Rv1565c_day32	-0.324	-0.981
secA2_input	0.412	-0.947
delta_Rv3594	-0.875	-0.281
delta_Rv3717	-0.357	-0.721
delta_Rv3811	-0.669	0.051
delta_Rv0954	-0.199	0.751
PonA1	-0.28	-0.807
EccD1_KO	0.086	0.707
EspI_KO	0.245	0.516
PE35_KO	-0.026	0.219
PPE68_KO	0.355	0.47
glycerol2	-0.024	0.394
lignocerate	-0.094	-0.123
oleate	0.047	0.316
phosphatidylcholine	-0.221	0.27
acetate	-0.128	-0.462
glucAc	-0.542	-0.718
Rv0950ko	-0.431	0.929
Rv1096ko	-0.486	0.28
Rv3684ko	-0.141	1.045
delta_otsA_trehalose	-0.064	-1.875