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 Rv3023c/-:

update plot	correlation	link to info on gene
Rv1047/-	(cc=0.9569)	info on Rv1047/-
Rv2666/-	(cc=0.8829)	info on Rv2666/-
Rv3115/-	(cc=0.8696)	info on Rv3115/-
Rv2512c/-	(cc=0.7659)	info on Rv2512c/-
Rv1199c/-	(cc=0.7634)	info on Rv1199c/-
Rv3187/-	(cc=0.689)	info on Rv3187/-
Rv2279/-	(cc=0.6867)	info on Rv2279/-
Rv1369c/-	(cc=0.6681)	info on Rv1369c/-
Rv1756c/-	(cc=0.6668)	info on Rv1756c/-
Rv2355/-	(cc=0.6589)	info on Rv2355/-

Correlation of Rv3023c/- with Rv1047/-

Normalized LFCs for Rv3023c/-:
(description and provenance of datasets)

	Rv3023c/-	Rv1047/-
Fe_supp_jason_reseq	-0.908	-0.963
low_pH_jason_reseq	-0.186	-0.527
NO_jason_reseq	-0.155	-0.433
B6_jason_reseq	-0.704	-0.66
MHCII_jason_reseq	-0.428	-0.261
Isoniazid02	-1.075	-0.989
Rifampicin4	0.257	0.241
Ethambutol3	-0.631	-0.539
Meropenem3	-0.294	-0.235
Vancomycin16	-0.82	-0.711
Rv2680_day32	0.098	0.357
H37Rv_KO_MarP	-0.222	-0.152
hypoxia_3wks	-0.215	0.159
hypoxia_6wks	-0.785	-0.516
glycerol	0.234	-0.022
cholesterol	-0.17	-0.207
AJ	0.931	1.05
Bibs02	1.028	1.086
Bibs02c	1.42	1.334
BL6	0.027	-0.028
BL6a	0.809	0.795
BXD01	0.532	0.627
BXD010	0.523	0.533
BXD011	0.257	0.442
BXD03	0.679	0.812
BXD04	0.743	0.766
BXD05	0.952	0.841
BXD06	0.575	0.67
BXD07	0.823	0.948
BXD08	0.328	0.316
BXD09	0.453	0.553
CAST	0.762	0.871
CCcont	0.065	0.065
DS01	0.366	0.541
DS02	0.985	1.122
DS04	0.528	0.625
DS0c	0.837	0.735
GP01	0.433	0.366
GP02	0.489	0.468
GP0c	0.32	0.387
NOD	0.688	0.762
NZO	0.578	0.831
PWK	0.466	0.712
H37Rv_KO_CtpC	1.194	1.204
H37Rv_KO_CtpD	0.662	0.601
H37Rv_KO_Rv1272	0.747	0.747
H37Rv_KO_SugABC	1.049	1.029
H37Rv_KO_MbtN	0.437	0.382
Trans05	1.11	1.179
macrophage_unactivated	0.268	0.227
IL1	0.925	1.035
Rapamycin	0.638	0.433
Tcell	-1.039	-1.235
GMCSF	0.85	0.657
IFNab	0.29	0.112
IFNg	0.032	0.192
IFNg_GMCSF1	0.688	0.845
Rv1432_day32	-0.402	-0.275
Rv1565c_day32	0.253	0.226
secA2_input	-0.139	0.316
delta_Rv3594	0.104	0.168
delta_Rv3717	-0.37	-0.25
delta_Rv3811	0.0	-0.021
delta_Rv0954	-0.056	-0.194
PonA1	-0.716	-0.563
EccD1_KO	-0.408	0.309
EspI_KO	0.083	0.519
PE35_KO	1.0	1.394
PPE68_KO	0.278	0.397
glycerol2	-1.386	-1.316
lignocerate	-1.078	-0.893
oleate	-1.171	-0.875
phosphatidylcholine	-1.104	-0.755
acetate	0.685	0.766
glucAc	-0.081	-0.422
Rv0950ko	0.0	-0.109
Rv1096ko	-0.489	-0.778
Rv3684ko	-0.301	-0.799
delta_otsA_trehalose	-0.437	-0.386