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 Rv0658c/-:

update plot	correlation	link to info on gene
Rv2529/-	(cc=0.5138)	info on Rv2529/-
Rv3430c/-	(cc=0.4962)	info on Rv3430c/-
Rv2118c/-	(cc=0.4919)	info on Rv2118c/-
Rv1582c/-	(cc=0.4896)	info on Rv1582c/-
Rv1871c/-	(cc=0.465)	info on Rv1871c/-
Rv2519/PE26	(cc=0.4521)	info on Rv2519/PE26
Rv1785c/cyp143	(cc=0.4407)	info on Rv1785c/cyp143
Rv2582/ppiB	(cc=0.4231)	info on Rv2582/ppiB
Rv1729c/-	(cc=0.4201)	info on Rv1729c/-
Rv0907/-	(cc=0.4193)	info on Rv0907/-

Correlation of Rv0658c/- with Rv3430c/-

Normalized LFCs for Rv0658c/-:
(description and provenance of datasets)

	Rv0658c/-	Rv3430c/-
Fe_supp_jason_reseq	-0.098	0.175
low_pH_jason_reseq	1.136	0.574
NO_jason_reseq	0.181	-0.268
B6_jason_reseq	-0.294	0.089
MHCII_jason_reseq	-0.491	0.606
Isoniazid02	1.817	1.013
Rifampicin4	-0.36	0.336
Ethambutol3	1.704	1.192
Meropenem3	0.742	0.949
Vancomycin16	0.462	0.443
Rv2680_day32	-0.581	0.146
H37Rv_KO_MarP	-0.605	-0.151
hypoxia_3wks	0.0	-0.427
hypoxia_6wks	-0.487	-0.175
glycerol	0.26	0.092
cholesterol	-0.094	-0.353
AJ	0.143	-0.415
Bibs02	0.768	0.298
Bibs02c	-0.209	0.095
BL6	-0.399	0.407
BL6a	0.416	0.712
BXD01	0.547	0.562
BXD010	0.092	0.764
BXD011	-0.251	0.436
BXD03	0.821	0.893
BXD04	-0.039	0.67
BXD05	0.097	0.549
BXD06	0.589	0.375
BXD07	0.085	0.498
BXD08	0.632	0.594
BXD09	0.168	0.551
CAST	0.187	-0.429
CCcont	0.164	0.407
DS01	-0.128	0.275
DS02	0.26	-0.389
DS04	1.332	0.43
DS0c	-0.141	0.552
GP01	0.32	-0.226
GP02	0.379	0.529
GP0c	0.192	0.038
NOD	0.093	0.285
NZO	-0.419	-0.223
PWK	-0.085	-0.07
H37Rv_KO_CtpC	-0.018	0.214
H37Rv_KO_CtpD	0.103	0.821
H37Rv_KO_Rv1272	1.527	0.434
H37Rv_KO_SugABC	0.975	0.408
H37Rv_KO_MbtN	1.614	0.622
Trans05	1.35	0.569
macrophage_unactivated	0.126	0.625
IL1	0.833	0.128
Rapamycin	-0.212	-0.338
Tcell	-0.512	0.332
GMCSF	0.499	0.016
IFNab	-0.384	0.148
IFNg	-0.5	0.227
IFNg_GMCSF1	0.085	0.192
Rv1432_day32	-0.763	-0.03
Rv1565c_day32	0.682	0.346
secA2_input	-0.371	0.089
delta_Rv3594	-0.41	-0.906
delta_Rv3717	-0.549	-0.63
delta_Rv3811	-0.87	-0.968
delta_Rv0954	-1.795	-0.512
PonA1	0.126	-0.878
EccD1_KO	0.184	0.023
EspI_KO	0.425	-0.12
PE35_KO	0.204	0.715
PPE68_KO	-0.531	0.557
glycerol2	-0.297	0.305
lignocerate	0.134	0.241
oleate	-0.138	0.224
phosphatidylcholine	-0.231	0.916
acetate	0.017	-0.138
glucAc	-0.244	-0.177
Rv0950ko	0.495	0.784
Rv1096ko	-0.38	-0.021
Rv3684ko	0.576	0.151
delta_otsA_trehalose	0.129	0.686