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 Rv2113/-

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

	Rv2848c/cobB	Rv2113/-
Fe_supp_jason_reseq	0.66	0.922
low_pH_jason_reseq	-0.212	-1.379
NO_jason_reseq	0.071	-0.559
B6_jason_reseq	0.274	-1.249
MHCII_jason_reseq	0.558	-0.531
Isoniazid02	1.521	-1.043
Rifampicin4	0.72	0.406
Ethambutol3	1.454	0.657
Meropenem3	0.187	-0.462
Vancomycin16	0.706	-0.231
Rv2680_day32	-0.633	-0.825
H37Rv_KO_MarP	-0.161	0.159
hypoxia_3wks	0.263	-0.012
hypoxia_6wks	-0.035	-0.568
glycerol	0.426	0.237
cholesterol	0.385	-0.405
AJ	0.521	0.356
Bibs02	0.534	-0.372
Bibs02c	0.303	-0.209
BL6	0.39	0.418
BL6a	-0.034	0.169
BXD01	-0.805	-0.106
BXD010	-1.385	-0.113
BXD011	-0.787	0.753
BXD03	-0.372	0.123
BXD04	-0.708	-0.166
BXD05	-0.832	0.301
BXD06	-0.705	0.224
BXD07	-1.089	0.171
BXD08	-0.251	0.265
BXD09	-1.055	0.103
CAST	0.02	-0.828
CCcont	-0.497	0.169
DS01	0.58	-0.335
DS02	0.799	0.098
DS04	0.748	-0.218
DS0c	0.487	0.11
GP01	-0.741	0.072
GP02	-0.257	-0.087
GP0c	-0.167	0.142
NOD	-0.334	-0.404
NZO	0.212	-0.604
PWK	0.342	-0.409
H37Rv_KO_CtpC	-0.324	0.148
H37Rv_KO_CtpD	-0.067	0.72
H37Rv_KO_Rv1272	-0.372	0.551
H37Rv_KO_SugABC	-1.675	1.132
H37Rv_KO_MbtN	-1.399	0.42
Trans05	-0.419	0.939
macrophage_unactivated	2.071	1.143
IL1	2.948	2.886
Rapamycin	2.627	3.167
Tcell	-4.822	-6.0
GMCSF	2.986	2.756
IFNab	3.223	2.663
IFNg	2.881	2.905
IFNg_GMCSF1	4.342	2.963
Rv1432_day32	-0.257	0.322
Rv1565c_day32	0.134	1.531
secA2_input	1.061	0.128
delta_Rv3594	-0.199	-0.337
delta_Rv3717	-0.273	-0.154
delta_Rv3811	-1.05	-0.312
delta_Rv0954	-0.696	0.181
PonA1	0.17	-0.268
EccD1_KO	-0.122	0.148
EspI_KO	0.103	0.222
PE35_KO	0.863	-0.286
PPE68_KO	0.39	-0.147
glycerol2	0.475	0.894
lignocerate	0.66	0.616
oleate	0.2	1.331
phosphatidylcholine	0.675	0.999
acetate	1.714	0.342
glucAc	0.59	-0.082
Rv0950ko	-0.199	0.25
Rv1096ko	0.507	-0.13
Rv3684ko	-1.068	-0.233
delta_otsA_trehalose	0.322	0.537