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 Rv2135c/-:

update plot	correlation	link to info on gene
Rv2904c/rplS	(cc=0.6217)	info on Rv2904c/rplS
Rv2051c/ppm1	(cc=0.558)	info on Rv2051c/ppm1
Rv0736/rslA	(cc=0.5513)	info on Rv0736/rslA
Rv2869c/rip	(cc=0.5271)	info on Rv2869c/rip
Rv2603c/-	(cc=0.4946)	info on Rv2603c/-
Rv0410c/pknG	(cc=0.4935)	info on Rv0410c/pknG
Rv0324/-	(cc=0.4924)	info on Rv0324/-
Rv3715c/recR	(cc=0.4668)	info on Rv3715c/recR
Rv3245c/mtrB	(cc=0.466)	info on Rv3245c/mtrB
Rv2241/aceE	(cc=0.4644)	info on Rv2241/aceE

Correlation of Rv2135c/- with Rv2904c/rplS

Normalized LFCs for Rv2135c/-:
(description and provenance of datasets)

	Rv2135c/-	Rv2904c/rplS
Fe_supp_jason_reseq	2.559	2.262
low_pH_jason_reseq	-0.634	0.0
NO_jason_reseq	-0.995	0.69
B6_jason_reseq	-0.421	0.0
MHCII_jason_reseq	-0.37	0.0
Isoniazid02	-2.187	-0.201
Rifampicin4	-0.49	0.341
Ethambutol3	2.38	1.44
Meropenem3	-0.399	-0.165
Vancomycin16	0.424	0.0
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	-3.718	-0.586
hypoxia_3wks	-1.511	0.0
hypoxia_6wks	-0.791	0.0
glycerol	1.758	0.0
cholesterol	0.0	0.0
AJ	0.0	0.0
Bibs02	0.0	0.0
Bibs02c	0.0	0.0
BL6	0.0	0.0
BL6a	0.0	0.0
BXD01	0.0	0.0
BXD010	0.0	0.0
BXD011	0.0	0.0
BXD03	0.0	0.0
BXD04	0.0	0.0
BXD05	0.0	0.0
BXD06	0.0	0.0
BXD07	0.0	0.0
BXD08	0.0	0.0
BXD09	0.0	0.0
CAST	0.0	0.0
CCcont	2.382	1.082
DS01	0.0	0.0
DS02	0.0	0.0
DS04	0.0	0.194
DS0c	0.0	0.0
GP01	0.0	0.0
GP02	0.0	0.0
GP0c	0.0	0.0
NOD	0.0	0.0
NZO	0.0	0.0
PWK	0.0	0.0
H37Rv_KO_CtpC	0.0	0.162
H37Rv_KO_CtpD	0.0	0.127
H37Rv_KO_Rv1272	0.0	0.0
H37Rv_KO_SugABC	0.099	0.099
H37Rv_KO_MbtN	0.196	0.196
Trans05	0.0	0.0
macrophage_unactivated	-0.761	0.0
IL1	-1.124	-0.409
Rapamycin	-1.163	-0.424
Tcell	-1.235	-0.45
GMCSF	-1.001	0.0
IFNab	0.0	0.0
IFNg	-1.013	-0.369
IFNg_GMCSF1	-1.191	-0.434
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.0
secA2_input	4.169	3.389
delta_Rv3594	-1.158	-0.459
delta_Rv3717	-2.555	-0.243
delta_Rv3811	-2.149	-0.617
delta_Rv0954	1.49	0.22
PonA1	2.001	-0.346
EccD1_KO	-2.375	0.954
EspI_KO	-2.059	0.433
PE35_KO	0.067	-0.767
PPE68_KO	0.889	1.133
glycerol2	-0.82	0.0
lignocerate	-1.033	0.0
oleate	-1.202	0.0
phosphatidylcholine	-1.188	0.0
acetate	0.69	0.0
glucAc	0.229	0.0
Rv0950ko	1.658	0.874
Rv1096ko	0.344	-0.697
Rv3684ko	1.346	0.337
delta_otsA_trehalose	1.021	0.654