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 Rv1016c/lpqT:

update plot	correlation	link to info on gene
Rv0170/mce1B	(cc=0.5752)	info on Rv0170/mce1B
Rv0173/lprK	(cc=0.5475)	info on Rv0173/lprK
Rv0174/mce1F	(cc=0.5249)	info on Rv0174/mce1F
Rv0169/mce1A	(cc=0.5221)	info on Rv0169/mce1A
Rv0172/mce1D	(cc=0.4956)	info on Rv0172/mce1D
Rv0167/yrbE1A	(cc=0.4854)	info on Rv0167/yrbE1A
Rv2721c/-	(cc=0.4841)	info on Rv2721c/-
Rv0171/mce1C	(cc=0.462)	info on Rv0171/mce1C
Rv2655c/-	(cc=0.4513)	info on Rv2655c/-
Rv0168/yrbE1B	(cc=0.4443)	info on Rv0168/yrbE1B

Correlation of Rv1016c/lpqT with Rv0169/mce1A

Normalized LFCs for Rv1016c/lpqT:
(description and provenance of datasets)

	Rv1016c/lpqT	Rv0169/mce1A
Fe_supp_jason_reseq	-0.751	0.674
low_pH_jason_reseq	-0.187	0.581
NO_jason_reseq	1.502	2.46
B6_jason_reseq	0.581	0.209
MHCII_jason_reseq	-0.292	-0.879
Isoniazid02	-0.725	-0.501
Rifampicin4	1.283	1.451
Ethambutol3	1.341	0.444
Meropenem3	1.081	2.361
Vancomycin16	0.767	1.825
Rv2680_day32	0.81	0.351
H37Rv_KO_MarP	0.251	0.457
hypoxia_3wks	1.336	2.173
hypoxia_6wks	2.255	2.222
glycerol	-0.367	0.388
cholesterol	0.544	1.052
AJ	0.324	-0.168
Bibs02	-1.325	-2.951
Bibs02c	0.618	-2.284
BL6	0.201	0.631
BL6a	1.083	-1.444
BXD01	0.226	0.805
BXD010	0.884	0.846
BXD011	0.759	0.412
BXD03	-0.496	0.827
BXD04	0.704	0.592
BXD05	0.778	0.512
BXD06	0.478	0.075
BXD07	0.935	0.797
BXD08	0.251	0.301
BXD09	0.92	0.734
CAST	1.517	-0.766
CCcont	0.005	-0.006
DS01	-0.183	-2.392
DS02	-0.332	-1.793
DS04	-0.337	-0.783
DS0c	0.119	-2.292
GP01	0.462	-1.538
GP02	-1.26	-1.501
GP0c	-0.357	-0.702
NOD	0.804	-0.163
NZO	0.594	1.186
PWK	0.46	-1.319
H37Rv_KO_CtpC	0.232	-0.468
H37Rv_KO_CtpD	0.752	-0.573
H37Rv_KO_Rv1272	0.148	0.587
H37Rv_KO_SugABC	-0.446	1.394
H37Rv_KO_MbtN	0.15	0.256
Trans05	0.199	0.501
macrophage_unactivated	-1.001	-0.625
IL1	-1.29	-1.48
Rapamycin	-0.918	-1.97
Tcell	-1.906	-1.659
GMCSF	0.161	0.153
IFNab	-0.284	0.133
IFNg	0.438	0.118
IFNg_GMCSF1	-0.063	0.16
Rv1432_day32	-0.126	0.408
Rv1565c_day32	0.523	-1.906
secA2_input	0.964	-0.794
delta_Rv3594	0.0	0.233
delta_Rv3717	0.175	0.568
delta_Rv3811	0.921	-0.098
delta_Rv0954	1.054	0.382
PonA1	0.643	0.272
EccD1_KO	0.187	-0.579
EspI_KO	-0.168	-0.613
PE35_KO	-0.225	-0.213
PPE68_KO	0.573	0.179
glycerol2	-1.041	-0.254
lignocerate	-1.24	-2.656
oleate	0.535	0.759
phosphatidylcholine	-0.634	-0.725
acetate	-0.274	0.658
glucAc	-0.122	0.451
Rv0950ko	0.311	0.513
Rv1096ko	-0.187	-0.018
Rv3684ko	0.147	0.537
delta_otsA_trehalose	0.812	0.014