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 Rv0039c/-:

update plot	correlation	link to info on gene
Rv0631c/recC	(cc=0.5919)	info on Rv0631c/recC
Rv0377/-	(cc=0.5349)	info on Rv0377/-
Rv3480c/-	(cc=0.4585)	info on Rv3480c/-
Rv0797/-	(cc=0.4582)	info on Rv0797/-
Rv1681/moeX	(cc=0.4505)	info on Rv1681/moeX
Rv0470A/-	(cc=0.4348)	info on Rv0470A/-
Rv0447c/ufaA1	(cc=0.4282)	info on Rv0447c/ufaA1
Rv0400c/fadE7	(cc=0.4256)	info on Rv0400c/fadE7
Rv0847/lpqS	(cc=0.4244)	info on Rv0847/lpqS
Rv3655c/-	(cc=0.423)	info on Rv3655c/-

Correlation of Rv0039c/- with Rv0797/-

Normalized LFCs for Rv0039c/-:
(description and provenance of datasets)

	Rv0039c/-	Rv0797/-
Fe_supp_jason_reseq	-1.939	-0.488
low_pH_jason_reseq	0.517	0.877
NO_jason_reseq	-0.42	0.018
B6_jason_reseq	0.009	0.073
MHCII_jason_reseq	-0.134	0.285
Isoniazid02	0.304	0.294
Rifampicin4	0.945	0.866
Ethambutol3	0.698	0.522
Meropenem3	0.429	1.577
Vancomycin16	1.504	0.748
Rv2680_day32	-0.802	0.23
H37Rv_KO_MarP	-0.597	-0.023
hypoxia_3wks	-0.502	0.451
hypoxia_6wks	0.0	-0.119
glycerol	-0.638	-0.622
cholesterol	-0.018	1.999
AJ	-0.331	-0.234
Bibs02	0.264	-0.101
Bibs02c	-0.097	0.452
BL6	-0.453	0.784
BL6a	-0.36	0.367
BXD01	-0.834	0.379
BXD010	-0.384	-0.02
BXD011	-1.007	-0.15
BXD03	-0.421	0.007
BXD04	-0.243	-0.047
BXD05	0.303	0.685
BXD06	-0.501	0.174
BXD07	0.077	0.64
BXD08	-0.341	0.102
BXD09	0.142	0.059
CAST	0.617	0.267
CCcont	-0.359	0.316
DS01	1.545	0.406
DS02	0.562	-0.107
DS04	1.789	0.611
DS0c	1.369	-0.156
GP01	-1.496	-0.333
GP02	-2.318	0.44
GP0c	-1.132	-0.028
NOD	-0.576	0.151
NZO	0.54	-0.189
PWK	0.422	0.264
H37Rv_KO_CtpC	-0.254	0.358
H37Rv_KO_CtpD	0.667	0.079
H37Rv_KO_Rv1272	0.161	-0.812
H37Rv_KO_SugABC	0.705	0.601
H37Rv_KO_MbtN	-1.051	-0.459
Trans05	-1.203	-0.365
macrophage_unactivated	-0.451	-0.18
IL1	0.065	0.142
Rapamycin	0.887	0.371
Tcell	-0.169	-0.456
GMCSF	0.713	0.055
IFNab	-0.045	-0.444
IFNg	0.107	0.219
IFNg_GMCSF1	0.377	0.258
Rv1432_day32	-0.164	0.482
Rv1565c_day32	0.0	-0.161
secA2_input	-0.052	-0.441
delta_Rv3594	-1.103	-0.548
delta_Rv3717	0.43	0.522
delta_Rv3811	0.296	0.192
delta_Rv0954	1.337	0.132
PonA1	0.322	0.376
EccD1_KO	0.553	0.701
EspI_KO	1.081	1.001
PE35_KO	-0.554	0.828
PPE68_KO	0.515	0.477
glycerol2	-0.719	-0.071
lignocerate	-0.096	0.06
oleate	-0.357	-0.391
phosphatidylcholine	-0.896	0.008
acetate	-0.746	0.605
glucAc	-0.52	0.172
Rv0950ko	0.377	0.178
Rv1096ko	1.294	1.393
Rv3684ko	1.533	0.871
delta_otsA_trehalose	1.756	2.102