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 Rv2822c/-:

update plot	correlation	link to info on gene
Rv1817/-	(cc=0.7829)	info on Rv1817/-
Rv2848c/cobB	(cc=0.7105)	info on Rv2848c/cobB
Rv2113/-	(cc=0.6508)	info on Rv2113/-
Rv0453/PPE11	(cc=0.6223)	info on Rv0453/PPE11
Rv3815c/-	(cc=0.5973)	info on Rv3815c/-
Rv0159c/PE3	(cc=0.5468)	info on Rv0159c/PE3
Rv3862c/whiB6	(cc=0.4468)	info on Rv3862c/whiB6
Rv1480/-	(cc=0.4429)	info on Rv1480/-
Rv1185c/fadD21	(cc=0.434)	info on Rv1185c/fadD21
Rv3685c/cyp137	(cc=0.4255)	info on Rv3685c/cyp137

Correlation of Rv2822c/- with Rv3815c/-

Normalized LFCs for Rv2822c/-:
(description and provenance of datasets)

	Rv2822c/-	Rv3815c/-
Fe_supp_jason_reseq	-0.535	0.979
low_pH_jason_reseq	-0.621	-0.796
NO_jason_reseq	-0.753	-0.126
B6_jason_reseq	-0.852	0.078
MHCII_jason_reseq	-0.363	0.437
Isoniazid02	1.998	1.352
Rifampicin4	-0.046	-0.631
Ethambutol3	-0.299	1.757
Meropenem3	-0.32	0.574
Vancomycin16	0.268	-1.353
Rv2680_day32	-0.687	-2.585
H37Rv_KO_MarP	-0.196	0.539
hypoxia_3wks	0.582	-0.303
hypoxia_6wks	-0.338	-0.956
glycerol	0.206	0.942
cholesterol	0.528	0.987
AJ	-0.198	0.247
Bibs02	-0.109	-0.274
Bibs02c	0.364	0.488
BL6	-0.479	0.605
BL6a	-0.135	0.432
BXD01	0.199	0.552
BXD010	-0.741	-0.555
BXD011	-0.632	1.267
BXD03	0.326	-0.091
BXD04	-1.13	0.913
BXD05	-0.964	-0.439
BXD06	-0.717	-0.064
BXD07	-0.515	-0.093
BXD08	-0.91	0.31
BXD09	-0.625	0.161
CAST	0.702	0.205
CCcont	-0.169	0.808
DS01	-0.267	0.0
DS02	0.106	-1.134
DS04	-1.041	0.364
DS0c	0.423	-0.471
GP01	-0.247	0.678
GP02	-0.435	0.633
GP0c	0.083	0.369
NOD	0.391	0.386
NZO	0.727	-0.257
PWK	-0.151	0.413
H37Rv_KO_CtpC	0.454	-0.126
H37Rv_KO_CtpD	-1.563	1.339
H37Rv_KO_Rv1272	0.133	1.376
H37Rv_KO_SugABC	1.101	-0.298
H37Rv_KO_MbtN	-0.539	0.907
Trans05	0.307	0.61
macrophage_unactivated	1.171	1.079
IL1	1.812	2.231
Rapamycin	1.967	2.397
Tcell	-4.412	-5.116
GMCSF	1.679	2.883
IFNab	2.428	2.352
IFNg	1.898	2.05
IFNg_GMCSF1	2.231	1.709
Rv1432_day32	0.179	0.15
Rv1565c_day32	-0.622	0.084
secA2_input	-0.308	-0.485
delta_Rv3594	1.222	0.327
delta_Rv3717	-0.747	1.309
delta_Rv3811	0.805	1.083
delta_Rv0954	0.291	0.976
PonA1	0.384	0.616
EccD1_KO	-1.322	0.918
EspI_KO	0.297	0.473
PE35_KO	1.07	-0.403
PPE68_KO	1.174	0.48
glycerol2	0.143	0.893
lignocerate	0.095	0.992
oleate	0.145	0.379
phosphatidylcholine	0.2	0.769
acetate	-0.136	1.43
glucAc	-0.206	1.041
Rv0950ko	-1.423	-0.498
Rv1096ko	-1.086	-0.115
Rv3684ko	-0.806	0.465
delta_otsA_trehalose	-0.711	-1.184