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 Rv1817/-

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

	Rv2848c/cobB	Rv1817/-
Fe_supp_jason_reseq	0.66	-0.223
low_pH_jason_reseq	-0.212	-0.388
NO_jason_reseq	0.071	-0.714
B6_jason_reseq	0.274	-0.232
MHCII_jason_reseq	0.558	0.326
Isoniazid02	1.521	0.215
Rifampicin4	0.72	0.0
Ethambutol3	1.454	0.612
Meropenem3	0.187	0.316
Vancomycin16	0.706	-0.04
Rv2680_day32	-0.633	-0.437
H37Rv_KO_MarP	-0.161	-0.186
hypoxia_3wks	0.263	0.116
hypoxia_6wks	-0.035	-0.203
glycerol	0.426	0.604
cholesterol	0.385	0.241
AJ	0.521	-0.311
Bibs02	0.534	0.738
Bibs02c	0.303	0.358
BL6	0.39	-0.327
BL6a	-0.034	-0.133
BXD01	-0.805	0.177
BXD010	-1.385	-0.209
BXD011	-0.787	0.092
BXD03	-0.372	-0.113
BXD04	-0.708	-0.103
BXD05	-0.832	-0.219
BXD06	-0.705	0.007
BXD07	-1.089	-0.344
BXD08	-0.251	0.091
BXD09	-1.055	-0.331
CAST	0.02	0.22
CCcont	-0.497	-0.371
DS01	0.58	0.453
DS02	0.799	0.334
DS04	0.748	0.332
DS0c	0.487	0.409
GP01	-0.741	-0.077
GP02	-0.257	0.301
GP0c	-0.167	-0.088
NOD	-0.334	0.441
NZO	0.212	0.069
PWK	0.342	0.068
H37Rv_KO_CtpC	-0.324	0.111
H37Rv_KO_CtpD	-0.067	0.178
H37Rv_KO_Rv1272	-0.372	1.0
H37Rv_KO_SugABC	-1.675	-0.144
H37Rv_KO_MbtN	-1.399	0.43
Trans05	-0.419	1.011
macrophage_unactivated	2.071	1.588
IL1	2.948	2.201
Rapamycin	2.627	2.317
Tcell	-4.822	-4.923
GMCSF	2.986	2.26
IFNab	3.223	1.886
IFNg	2.881	2.397
IFNg_GMCSF1	4.342	2.385
Rv1432_day32	-0.257	0.096
Rv1565c_day32	0.134	-0.156
secA2_input	1.061	-0.434
delta_Rv3594	-0.199	0.0
delta_Rv3717	-0.273	-0.028
delta_Rv3811	-1.05	0.28
delta_Rv0954	-0.696	0.142
PonA1	0.17	-0.059
EccD1_KO	-0.122	0.687
EspI_KO	0.103	0.359
PE35_KO	0.863	0.63
PPE68_KO	0.39	0.56
glycerol2	0.475	0.085
lignocerate	0.66	-0.069
oleate	0.2	0.386
phosphatidylcholine	0.675	0.239
acetate	1.714	-0.156
glucAc	0.59	-0.167
Rv0950ko	-0.199	0.13
Rv1096ko	0.507	-0.392
Rv3684ko	-1.068	-0.102
delta_otsA_trehalose	0.322	-0.085