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 Rv0441c/-

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

	Rv2848c/cobB	Rv0441c/-
Fe_supp_jason_reseq	0.66	0.071
low_pH_jason_reseq	-0.212	-0.806
NO_jason_reseq	0.071	0.231
B6_jason_reseq	0.274	0.263
MHCII_jason_reseq	0.558	0.644
Isoniazid02	1.521	0.052
Rifampicin4	0.72	-0.152
Ethambutol3	1.454	0.901
Meropenem3	0.187	-0.161
Vancomycin16	0.706	0.584
Rv2680_day32	-0.633	-1.157
H37Rv_KO_MarP	-0.161	1.523
hypoxia_3wks	0.263	-0.427
hypoxia_6wks	-0.035	-0.593
glycerol	0.426	0.0
cholesterol	0.385	-0.235
AJ	0.521	-0.358
Bibs02	0.534	-0.339
Bibs02c	0.303	0.735
BL6	0.39	-0.034
BL6a	-0.034	0.323
BXD01	-0.805	-1.479
BXD010	-1.385	-0.67
BXD011	-0.787	1.087
BXD03	-0.372	-1.188
BXD04	-0.708	-0.996
BXD05	-0.832	-0.634
BXD06	-0.705	-0.217
BXD07	-1.089	-1.304
BXD08	-0.251	-0.8
BXD09	-1.055	-0.59
CAST	0.02	0.16
CCcont	-0.497	-0.36
DS01	0.58	0.062
DS02	0.799	0.844
DS04	0.748	-0.256
DS0c	0.487	0.057
GP01	-0.741	0.477
GP02	-0.257	1.207
GP0c	-0.167	0.241
NOD	-0.334	-0.029
NZO	0.212	-0.763
PWK	0.342	0.075
H37Rv_KO_CtpC	-0.324	-0.474
H37Rv_KO_CtpD	-0.067	0.409
H37Rv_KO_Rv1272	-0.372	-0.364
H37Rv_KO_SugABC	-1.675	-1.385
H37Rv_KO_MbtN	-1.399	-0.86
Trans05	-0.419	-1.459
macrophage_unactivated	2.071	0.559
IL1	2.948	0.074
Rapamycin	2.627	1.025
Tcell	-4.822	-0.081
GMCSF	2.986	1.233
IFNab	3.223	1.158
IFNg	2.881	0.839
IFNg_GMCSF1	4.342	2.228
Rv1432_day32	-0.257	1.949
Rv1565c_day32	0.134	0.33
secA2_input	1.061	0.153
delta_Rv3594	-0.199	-0.915
delta_Rv3717	-0.273	-0.638
delta_Rv3811	-1.05	-0.754
delta_Rv0954	-0.696	-0.704
PonA1	0.17	0.23
EccD1_KO	-0.122	1.411
EspI_KO	0.103	0.819
PE35_KO	0.863	0.47
PPE68_KO	0.39	0.384
glycerol2	0.475	0.56
lignocerate	0.66	0.773
oleate	0.2	0.207
phosphatidylcholine	0.675	0.28
acetate	1.714	1.022
glucAc	0.59	0.985
Rv0950ko	-0.199	0.326
Rv1096ko	0.507	0.03
Rv3684ko	-1.068	-0.495
delta_otsA_trehalose	0.322	0.906