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 Rv1264/-:

update plot	correlation	link to info on gene
Rv0234c/gabD1	(cc=0.4834)	info on Rv0234c/gabD1
Rv3062/ligB	(cc=0.4214)	info on Rv3062/ligB
Rv0022c/whiB5	(cc=0.4137)	info on Rv0022c/whiB5
Rv2484c/-	(cc=0.4018)	info on Rv2484c/-
Rv2231A/vapC16	(cc=0.3985)	info on Rv2231A/vapC16
Rv0325/-	(cc=0.3958)	info on Rv0325/-
Rv0347/-	(cc=0.3847)	info on Rv0347/-
Rv0597c/-	(cc=0.3758)	info on Rv0597c/-
Rv2450c/rpfE	(cc=0.3739)	info on Rv2450c/rpfE
Rv1880c/cyp140	(cc=0.3732)	info on Rv1880c/cyp140

Correlation of Rv1264/- with Rv2231A/vapC16

Normalized LFCs for Rv1264/-:
(description and provenance of datasets)

	Rv1264/-	Rv2231A/vapC16
Fe_supp_jason_reseq	0.076	0.526
low_pH_jason_reseq	0.32	1.865
NO_jason_reseq	0.42	0.021
B6_jason_reseq	-0.155	0.009
MHCII_jason_reseq	0.409	-0.652
Isoniazid02	0.78	1.839
Rifampicin4	-0.872	-1.378
Ethambutol3	0.741	2.43
Meropenem3	-0.032	-0.181
Vancomycin16	0.096	-0.719
Rv2680_day32	-0.477	-0.296
H37Rv_KO_MarP	-0.045	0.251
hypoxia_3wks	1.156	1.38
hypoxia_6wks	0.879	1.288
glycerol	0.161	-0.13
cholesterol	0.0	-0.424
AJ	-0.393	-0.449
Bibs02	0.162	0.179
Bibs02c	-0.738	0.314
BL6	0.141	-0.877
BL6a	-0.326	0.135
BXD01	0.058	0.434
BXD010	-0.494	0.344
BXD011	0.128	0.291
BXD03	0.078	-0.049
BXD04	0.215	-0.408
BXD05	0.107	-0.242
BXD06	0.157	0.579
BXD07	-0.105	-0.51
BXD08	-0.225	0.715
BXD09	0.112	0.399
CAST	-0.305	0.871
CCcont	-0.678	-1.282
DS01	-0.133	0.424
DS02	-0.477	0.391
DS04	-0.551	0.562
DS0c	-0.737	0.965
GP01	-0.899	-3.197
GP02	0.349	-0.504
GP0c	-0.426	-1.303
NOD	-0.15	0.477
NZO	1.058	-0.241
PWK	0.325	0.226
H37Rv_KO_CtpC	0.029	-0.917
H37Rv_KO_CtpD	0.174	-1.335
H37Rv_KO_Rv1272	-1.015	-1.356
H37Rv_KO_SugABC	0.403	-0.077
H37Rv_KO_MbtN	-1.507	0.423
Trans05	0.434	-0.773
macrophage_unactivated	-0.335	-0.698
IL1	0.089	0.056
Rapamycin	-0.267	-0.565
Tcell	0.378	0.342
GMCSF	-0.082	0.293
IFNab	-0.187	0.281
IFNg	-0.233	-0.454
IFNg_GMCSF1	-0.154	1.364
Rv1432_day32	-0.454	0.01
Rv1565c_day32	0.856	0.303
secA2_input	-0.827	0.153
delta_Rv3594	0.531	1.367
delta_Rv3717	-0.076	0.759
delta_Rv3811	0.071	1.264
delta_Rv0954	0.087	0.437
PonA1	0.672	-0.667
EccD1_KO	0.648	0.234
EspI_KO	-0.65	-0.394
PE35_KO	0.125	-0.951
PPE68_KO	-0.291	0.672
glycerol2	0.455	0.324
lignocerate	-0.138	-0.142
oleate	0.71	0.279
phosphatidylcholine	0.667	0.489
acetate	-0.738	0.033
glucAc	-0.278	-0.478
Rv0950ko	0.305	0.362
Rv1096ko	0.929	1.568
Rv3684ko	1.136	1.048
delta_otsA_trehalose	0.204	1.185