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 Rv2848c/cobB:

update plot	correlation	link to info on gene
Rv1817/-	(cc=0.7965)	info on Rv1817/-
Rv2113/-	(cc=0.7197)	info on Rv2113/-
Rv0453/PPE11	(cc=0.7152)	info on Rv0453/PPE11
Rv2822c/-	(cc=0.7105)	info on Rv2822c/-
Rv3815c/-	(cc=0.6271)	info on Rv3815c/-
Rv0159c/PE3	(cc=0.6085)	info on Rv0159c/PE3
Rv1480/-	(cc=0.5831)	info on Rv1480/-
Rv0441c/-	(cc=0.5352)	info on Rv0441c/-
Rv3091/-	(cc=0.4989)	info on Rv3091/-
Rv1412/ribC	(cc=0.4823)	info on Rv1412/ribC

Correlation of Rv2848c/cobB with Rv3815c/-

Normalized LFCs for Rv2848c/cobB:
(description and provenance of datasets)

	Rv2848c/cobB	Rv3815c/-
Fe_supp_jason_reseq	0.66	0.979
low_pH_jason_reseq	-0.212	-0.796
NO_jason_reseq	0.071	-0.126
B6_jason_reseq	0.274	0.078
MHCII_jason_reseq	0.558	0.437
Isoniazid02	1.521	1.352
Rifampicin4	0.72	-0.631
Ethambutol3	1.454	1.757
Meropenem3	0.187	0.574
Vancomycin16	0.706	-1.353
Rv2680_day32	-0.633	-2.585
H37Rv_KO_MarP	-0.161	0.539
hypoxia_3wks	0.263	-0.303
hypoxia_6wks	-0.035	-0.956
glycerol	0.426	0.942
cholesterol	0.385	0.987
AJ	0.521	0.247
Bibs02	0.534	-0.274
Bibs02c	0.303	0.488
BL6	0.39	0.605
BL6a	-0.034	0.432
BXD01	-0.805	0.552
BXD010	-1.385	-0.555
BXD011	-0.787	1.267
BXD03	-0.372	-0.091
BXD04	-0.708	0.913
BXD05	-0.832	-0.439
BXD06	-0.705	-0.064
BXD07	-1.089	-0.093
BXD08	-0.251	0.31
BXD09	-1.055	0.161
CAST	0.02	0.205
CCcont	-0.497	0.808
DS01	0.58	0.0
DS02	0.799	-1.134
DS04	0.748	0.364
DS0c	0.487	-0.471
GP01	-0.741	0.678
GP02	-0.257	0.633
GP0c	-0.167	0.369
NOD	-0.334	0.386
NZO	0.212	-0.257
PWK	0.342	0.413
H37Rv_KO_CtpC	-0.324	-0.126
H37Rv_KO_CtpD	-0.067	1.339
H37Rv_KO_Rv1272	-0.372	1.376
H37Rv_KO_SugABC	-1.675	-0.298
H37Rv_KO_MbtN	-1.399	0.907
Trans05	-0.419	0.61
macrophage_unactivated	2.071	1.079
IL1	2.948	2.231
Rapamycin	2.627	2.397
Tcell	-4.822	-5.116
GMCSF	2.986	2.883
IFNab	3.223	2.352
IFNg	2.881	2.05
IFNg_GMCSF1	4.342	1.709
Rv1432_day32	-0.257	0.15
Rv1565c_day32	0.134	0.084
secA2_input	1.061	-0.485
delta_Rv3594	-0.199	0.327
delta_Rv3717	-0.273	1.309
delta_Rv3811	-1.05	1.083
delta_Rv0954	-0.696	0.976
PonA1	0.17	0.616
EccD1_KO	-0.122	0.918
EspI_KO	0.103	0.473
PE35_KO	0.863	-0.403
PPE68_KO	0.39	0.48
glycerol2	0.475	0.893
lignocerate	0.66	0.992
oleate	0.2	0.379
phosphatidylcholine	0.675	0.769
acetate	1.714	1.43
glucAc	0.59	1.041
Rv0950ko	-0.199	-0.498
Rv1096ko	0.507	-0.115
Rv3684ko	-1.068	0.465
delta_otsA_trehalose	0.322	-1.184