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 Rv0941c/-:

update plot	correlation	link to info on gene
Rv3521/-	(cc=0.5384)	info on Rv3521/-
Rv0779c/-	(cc=0.5133)	info on Rv0779c/-
Rv3265c/wbbL1	(cc=0.4732)	info on Rv3265c/wbbL1
Rv2892c/PPE45	(cc=0.4615)	info on Rv2892c/PPE45
Rv3144c/PPE52	(cc=0.4482)	info on Rv3144c/PPE52
Rv2971/-	(cc=0.4419)	info on Rv2971/-
Rv3831/-	(cc=0.4288)	info on Rv3831/-
Rv1735c/-	(cc=0.4243)	info on Rv1735c/-
Rv0765c/-	(cc=0.4096)	info on Rv0765c/-
Rv0578c/PE_PGRS7	(cc=0.4039)	info on Rv0578c/PE_PGRS7

Correlation of Rv0941c/- with Rv3144c/PPE52

Normalized LFCs for Rv0941c/-:
(description and provenance of datasets)

	Rv0941c/-	Rv3144c/PPE52
Fe_supp_jason_reseq	-0.985	-0.859
low_pH_jason_reseq	-0.522	-0.263
NO_jason_reseq	0.302	-0.362
B6_jason_reseq	-0.074	-0.381
MHCII_jason_reseq	-0.103	-0.058
Isoniazid02	0.604	0.287
Rifampicin4	0.579	0.62
Ethambutol3	0.759	2.379
Meropenem3	0.357	0.478
Vancomycin16	1.021	0.255
Rv2680_day32	-0.36	-0.331
H37Rv_KO_MarP	0.426	0.107
hypoxia_3wks	0.327	0.857
hypoxia_6wks	0.013	-0.023
glycerol	0.527	0.743
cholesterol	0.182	0.219
AJ	-0.057	0.884
Bibs02	0.936	0.395
Bibs02c	-0.496	1.249
BL6	0.184	-0.56
BL6a	-0.1	0.992
BXD01	0.573	0.049
BXD010	0.679	0.786
BXD011	0.543	0.139
BXD03	0.116	0.238
BXD04	-0.248	-0.192
BXD05	0.53	0.486
BXD06	0.327	0.224
BXD07	0.174	0.609
BXD08	0.172	0.407
BXD09	0.107	0.078
CAST	-0.277	0.833
CCcont	0.065	-0.352
DS01	0.0	0.472
DS02	0.774	-0.151
DS04	0.878	0.606
DS0c	0.262	0.954
GP01	0.175	0.465
GP02	0.951	0.779
GP0c	0.503	0.818
NOD	0.231	0.687
NZO	0.409	0.019
PWK	-0.465	0.145
H37Rv_KO_CtpC	0.108	0.861
H37Rv_KO_CtpD	0.898	1.286
H37Rv_KO_Rv1272	1.642	0.819
H37Rv_KO_SugABC	0.765	0.108
H37Rv_KO_MbtN	-0.947	-0.573
Trans05	1.07	1.636
macrophage_unactivated	-0.051	-0.486
IL1	-0.047	-0.424
Rapamycin	-0.359	0.187
Tcell	0.684	-0.316
GMCSF	0.536	0.135
IFNab	-0.354	0.124
IFNg	0.39	0.0
IFNg_GMCSF1	-0.182	-0.342
Rv1432_day32	-0.262	0.458
Rv1565c_day32	0.889	0.193
secA2_input	0.672	0.013
delta_Rv3594	0.366	0.199
delta_Rv3717	0.545	1.044
delta_Rv3811	0.626	0.323
delta_Rv0954	0.559	0.913
PonA1	0.089	0.368
EccD1_KO	0.335	0.454
EspI_KO	0.468	-0.211
PE35_KO	0.709	0.615
PPE68_KO	0.736	0.758
glycerol2	-0.006	-0.325
lignocerate	-0.16	-0.462
oleate	-0.186	0.031
phosphatidylcholine	0.069	-0.503
acetate	-0.703	-0.811
glucAc	-0.533	-0.627
Rv0950ko	1.269	0.555
Rv1096ko	1.004	0.259
Rv3684ko	0.907	-0.239
delta_otsA_trehalose	0.811	0.108