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 Rv0933/pstB:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv1192/-	(cc=0.5594)	info on Rv1192/-
Rv3482c/-	(cc=0.5553)	info on Rv3482c/-
Rv3641c/fic	(cc=0.5526)	info on Rv3641c/fic
Rv0688/-	(cc=0.5353)	info on Rv0688/-
Rv0887c/-	(cc=0.5246)	info on Rv0887c/-
Rv1351/-	(cc=0.5033)	info on Rv1351/-
Rv3681c/whiB4	(cc=0.4911)	info on Rv3681c/whiB4
Rv1542c/glbN	(cc=0.491)	info on Rv1542c/glbN
Rv1976c/-	(cc=0.4869)	info on Rv1976c/-
Rv2920c/amt	(cc=0.4794)	info on Rv2920c/amt

Correlation of Rv0933/pstB with Rv1192/-

Normalized LFCs for Rv0933/pstB:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv0933/pstB	Rv1192/-
Fe_supp_jason_reseq	1.304	1.031
low_pH_jason_reseq	-0.704	-1.225
NO_jason_reseq	-0.567	-0.189
B6_jason_reseq	1.991	1.83
MHCII_jason_reseq	1.95	1.815
Isoniazid02	0.192	0.377
Rifampicin4	0.471	-0.125
Ethambutol3	0.096	1.46
Meropenem3	0.12	1.205
Vancomycin16	0.324	0.119
Rv2680_day32	-0.236	1.037
H37Rv_KO_MarP	0.195	0.203
hypoxia_3wks	0.0	-0.861
hypoxia_6wks	0.0	-1.207
glycerol	-0.334	-1.119
cholesterol	0.345	-0.023
AJ	-0.121	0.266
Bibs02	0.672	0.485
Bibs02c	1.208	0.377
BL6	0.239	-0.701
BL6a	0.57	-0.218
BXD01	-0.62	-0.434
BXD010	-0.212	-1.013
BXD011	-1.152	-0.527
BXD03	-0.644	-0.481
BXD04	-0.448	-0.115
BXD05	0.762	-1.431
BXD06	-0.211	-0.467
BXD07	-0.775	-0.623
BXD08	-0.061	-0.793
BXD09	-0.772	-0.899
CAST	-0.23	0.469
CCcont	-0.726	-0.592
DS01	0.713	1.167
DS02	0.562	0.429
DS04	0.412	1.526
DS0c	0.757	0.947
GP01	-1.824	-0.602
GP02	-1.343	0.033
GP0c	-0.686	-1.353
NOD	0.43	0.731
NZO	-0.214	0.025
PWK	0.929	0.374
H37Rv_KO_CtpC	-0.233	-0.644
H37Rv_KO_CtpD	1.044	-0.502
H37Rv_KO_Rv1272	0.137	-0.653
H37Rv_KO_SugABC	0.883	-0.293
H37Rv_KO_MbtN	-1.467	-1.325
Trans05	0.073	-0.495
macrophage_unactivated	1.193	0.092
IL1	-1.792	-0.329
Rapamycin	-0.74	-1.04
Tcell	1.443	0.248
GMCSF	-0.916	-0.465
IFNab	-1.657	-0.305
IFNg	-0.454	-0.81
IFNg_GMCSF1	-0.578	-0.418
Rv1432_day32	-0.609	-0.92
Rv1565c_day32	0.573	-0.573
secA2_input	0.106	-0.177
delta_Rv3594	-0.031	0.659
delta_Rv3717	1.114	0.02
delta_Rv3811	-0.061	0.946
delta_Rv0954	0.952	1.187
PonA1	0.581	0.372
EccD1_KO	-0.579	-0.957
EspI_KO	0.793	-0.2
PE35_KO	-0.268	-0.277
PPE68_KO	0.122	-0.035
glycerol2	0.706	0.935
lignocerate	1.114	1.103
oleate	0.563	0.669
phosphatidylcholine	0.613	1.139
acetate	1.119	0.618
glucAc	1.134	0.666
Rv0950ko	0.467	0.648
Rv1096ko	0.534	0.682
Rv3684ko	-0.341	0.383
delta_otsA_trehalose	-2.903	-0.476