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 Rv2175c/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv3822/-	(cc=0.5743)	info on Rv3822/-
Rv3874/esxB	(cc=0.5527)	info on Rv3874/esxB
Rv2140c/TB18.6	(cc=0.5462)	info on Rv2140c/TB18.6
Rv3534c/hsaF	(cc=0.5312)	info on Rv3534c/hsaF
Rv0757/phoP	(cc=0.5292)	info on Rv0757/phoP
Rv1846c/blaI	(cc=0.5256)	info on Rv1846c/blaI
Rv2091c/-	(cc=0.5231)	info on Rv2091c/-
Rv3883c/mycP1	(cc=0.522)	info on Rv3883c/mycP1
Rv3616c/espA	(cc=0.5112)	info on Rv3616c/espA
Rv3869/eccB1	(cc=0.504)	info on Rv3869/eccB1

Correlation of Rv2175c/- with Rv3822/-

Normalized LFCs for Rv2175c/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv2175c/-	Rv3822/-
Fe_supp_jason_reseq	1.094	0.933
low_pH_jason_reseq	0.407	-0.4
NO_jason_reseq	0.819	-0.278
B6_jason_reseq	-0.341	0.705
MHCII_jason_reseq	0.466	1.492
Isoniazid02	0.106	-0.166
Rifampicin4	-0.623	-2.534
Ethambutol3	-0.28	0.078
Meropenem3	0.888	0.151
Vancomycin16	0.016	-1.064
Rv2680_day32	-0.451	-0.338
H37Rv_KO_MarP	0.936	0.277
hypoxia_3wks	0.447	-0.407
hypoxia_6wks	-0.317	0.015
glycerol	0.767	-1.159
cholesterol	-0.129	-0.24
AJ	-0.303	-1.674
Bibs02	-0.061	-0.42
Bibs02c	-0.215	-0.147
BL6	-0.566	-1.643
BL6a	-0.986	-1.464
BXD01	-0.71	-1.646
BXD010	-1.083	-1.397
BXD011	-1.113	-1.5
BXD03	-0.894	-1.748
BXD04	-0.691	-0.814
BXD05	-0.975	-0.872
BXD06	-0.387	-1.994
BXD07	-1.037	-2.018
BXD08	-1.349	-1.908
BXD09	-0.918	-2.016
CAST	-1.176	-1.889
CCcont	0.024	-1.387
DS01	-0.068	0.075
DS02	0.172	0.143
DS04	-0.541	-0.571
DS0c	-0.407	0.79
GP01	-0.097	-0.968
GP02	0.386	-0.222
GP0c	-0.932	-2.187
NOD	-0.88	-0.939
NZO	-1.273	-2.046
PWK	-0.688	-2.107
H37Rv_KO_CtpC	-1.012	-2.756
H37Rv_KO_CtpD	-0.43	-0.899
H37Rv_KO_Rv1272	-0.432	-2.006
H37Rv_KO_SugABC	-0.2	-0.359
H37Rv_KO_MbtN	0.202	-0.085
Trans05	-0.99	-0.832
macrophage_unactivated	0.698	0.707
IL1	0.098	0.16
Rapamycin	0.341	0.42
Tcell	0.388	-0.036
GMCSF	-0.045	0.541
IFNab	0.45	0.532
IFNg	-0.973	0.029
IFNg_GMCSF1	-0.025	0.613
Rv1432_day32	0.201	-0.978
Rv1565c_day32	-0.218	-1.29
secA2_input	1.393	-0.792
delta_Rv3594	-0.62	-0.073
delta_Rv3717	0.023	-0.457
delta_Rv3811	0.741	-0.161
delta_Rv0954	-0.513	-0.615
PonA1	-0.946	-0.148
EccD1_KO	1.444	-0.678
EspI_KO	-1.101	-0.097
PE35_KO	0.613	0.16
PPE68_KO	1.017	0.141
glycerol2	0.759	2.658
lignocerate	0.195	0.565
oleate	0.535	2.572
phosphatidylcholine	0.93	1.018
acetate	0.141	1.107
glucAc	0.006	1.638
Rv0950ko	0.109	-0.178
Rv1096ko	-0.368	-0.829
Rv3684ko	-0.724	-0.75
delta_otsA_trehalose	-0.47	0.201