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 Rv2519/PE26

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

	Rv0658c/-	Rv2519/PE26
Fe_supp_jason_reseq	-0.098	0.458
low_pH_jason_reseq	1.136	-0.074
NO_jason_reseq	0.181	0.045
B6_jason_reseq	-0.294	-0.416
MHCII_jason_reseq	-0.491	-0.542
Isoniazid02	1.817	0.412
Rifampicin4	-0.36	0.387
Ethambutol3	1.704	1.008
Meropenem3	0.742	0.339
Vancomycin16	0.462	0.329
Rv2680_day32	-0.581	0.166
H37Rv_KO_MarP	-0.605	0.147
hypoxia_3wks	0.0	-0.211
hypoxia_6wks	-0.487	-0.271
glycerol	0.26	0.118
cholesterol	-0.094	0.45
AJ	0.143	-0.047
Bibs02	0.768	0.054
Bibs02c	-0.209	0.22
BL6	-0.399	0.795
BL6a	0.416	0.446
BXD01	0.547	0.534
BXD010	0.092	0.61
BXD011	-0.251	0.328
BXD03	0.821	0.626
BXD04	-0.039	0.605
BXD05	0.097	0.477
BXD06	0.589	0.848
BXD07	0.085	0.255
BXD08	0.632	0.667
BXD09	0.168	0.427
CAST	0.187	0.22
CCcont	0.164	0.582
DS01	-0.128	0.414
DS02	0.26	0.577
DS04	1.332	0.898
DS0c	-0.141	0.189
GP01	0.32	0.489
GP02	0.379	0.524
GP0c	0.192	0.489
NOD	0.093	-0.14
NZO	-0.419	0.559
PWK	-0.085	-0.32
H37Rv_KO_CtpC	-0.018	1.638
H37Rv_KO_CtpD	0.103	1.208
H37Rv_KO_Rv1272	1.527	1.124
H37Rv_KO_SugABC	0.975	1.198
H37Rv_KO_MbtN	1.614	0.878
Trans05	1.35	1.06
macrophage_unactivated	0.126	0.527
IL1	0.833	0.225
Rapamycin	-0.212	0.068
Tcell	-0.512	0.072
GMCSF	0.499	0.441
IFNab	-0.384	-0.172
IFNg	-0.5	-0.278
IFNg_GMCSF1	0.085	0.204
Rv1432_day32	-0.763	0.029
Rv1565c_day32	0.682	0.43
secA2_input	-0.371	-0.495
delta_Rv3594	-0.41	-0.09
delta_Rv3717	-0.549	0.26
delta_Rv3811	-0.87	0.126
delta_Rv0954	-1.795	0.202
PonA1	0.126	0.129
EccD1_KO	0.184	-0.184
EspI_KO	0.425	0.0
PE35_KO	0.204	-0.082
PPE68_KO	-0.531	-0.525
glycerol2	-0.297	-0.468
lignocerate	0.134	-0.16
oleate	-0.138	-0.885
phosphatidylcholine	-0.231	-0.109
acetate	0.017	-0.721
glucAc	-0.244	-0.159
Rv0950ko	0.495	-0.096
Rv1096ko	-0.38	-0.618
Rv3684ko	0.576	-0.524
delta_otsA_trehalose	0.129	0.519