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 Rv3600c/-:

update plot	correlation	link to info on gene
Rv3045/adhC	(cc=0.5849)	info on Rv3045/adhC
Rv3891c/esxD	(cc=0.511)	info on Rv3891c/esxD
Rv2299c/htpG	(cc=0.4844)	info on Rv2299c/htpG
Rv0407/fgd1	(cc=0.4809)	info on Rv0407/fgd1
Rv3133c/devR	(cc=0.4536)	info on Rv3133c/devR
Rv0009/ppiA	(cc=0.4502)	info on Rv0009/ppiA
Rv2031c/hspX	(cc=0.4362)	info on Rv2031c/hspX
Rv3293/pcd	(cc=0.4256)	info on Rv3293/pcd
Rv1691/-	(cc=0.4211)	info on Rv1691/-
Rv1069c/-	(cc=0.4152)	info on Rv1069c/-

Correlation of Rv3600c/- with Rv3045/adhC

Normalized LFCs for Rv3600c/-:
(description and provenance of datasets)

	Rv3600c/-	Rv3045/adhC
Fe_supp_jason_reseq	1.077	1.118
low_pH_jason_reseq	1.623	1.246
NO_jason_reseq	0.782	-1.987
B6_jason_reseq	1.175	-0.069
MHCII_jason_reseq	1.194	-0.36
Isoniazid02	-2.734	-2.177
Rifampicin4	-1.189	-0.65
Ethambutol3	0.083	-0.829
Meropenem3	-1.592	-2.737
Vancomycin16	0.52	-2.43
Rv2680_day32	1.45	0.379
H37Rv_KO_MarP	0.794	0.629
hypoxia_3wks	-4.135	-4.115
hypoxia_6wks	-3.773	-2.023
glycerol	1.198	1.36
cholesterol	0.85	0.976
AJ	0.165	0.176
Bibs02	0.595	-0.189
Bibs02c	0.503	0.844
BL6	0.361	1.377
BL6a	0.661	0.904
BXD01	0.48	1.168
BXD010	0.046	0.752
BXD011	0.256	1.184
BXD03	-0.423	1.321
BXD04	0.158	1.514
BXD05	0.672	1.554
BXD06	0.281	1.018
BXD07	0.13	1.159
BXD08	0.433	1.052
BXD09	0.543	1.65
CAST	-0.609	0.454
CCcont	1.026	1.772
DS01	1.215	1.107
DS02	0.876	0.498
DS04	0.732	0.981
DS0c	1.163	1.07
GP01	0.572	-0.622
GP02	0.059	-0.726
GP0c	-0.1	0.169
NOD	-0.142	0.652
NZO	-0.318	0.259
PWK	0.0	-0.161
H37Rv_KO_CtpC	-1.412	0.612
H37Rv_KO_CtpD	1.936	1.994
H37Rv_KO_Rv1272	0.225	1.344
H37Rv_KO_SugABC	-1.267	1.218
H37Rv_KO_MbtN	-0.194	-0.107
Trans05	-0.476	0.361
macrophage_unactivated	1.054	2.001
IL1	-0.819	-0.469
Rapamycin	0.0	0.832
Tcell	-0.658	0.463
GMCSF	-0.533	0.129
IFNab	-0.193	0.629
IFNg	-1.165	-0.497
IFNg_GMCSF1	-0.635	-0.079
Rv1432_day32	1.008	-1.061
Rv1565c_day32	1.399	0.81
secA2_input	-0.064	0.534
delta_Rv3594	-0.101	0.298
delta_Rv3717	-0.055	0.279
delta_Rv3811	-0.628	0.785
delta_Rv0954	-1.765	-0.125
PonA1	1.348	0.172
EccD1_KO	0.171	0.217
EspI_KO	0.59	0.704
PE35_KO	0.735	-0.242
PPE68_KO	0.627	-0.176
glycerol2	-0.385	0.163
lignocerate	0.178	0.688
oleate	-1.0	-0.106
phosphatidylcholine	0.08	0.468
acetate	0.617	-0.081
glucAc	0.598	0.496
Rv0950ko	1.034	0.199
Rv1096ko	0.546	0.82
Rv3684ko	0.927	1.281
delta_otsA_trehalose	-0.459	-1.408