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 Rv2011c/-:

update plot	correlation	link to info on gene
Rv2623/TB31.7	(cc=0.4728)	info on Rv2623/TB31.7
Rv0590A/-	(cc=0.4578)	info on Rv0590A/-
Rv0829/-	(cc=0.4435)	info on Rv0829/-
Rv1352/-	(cc=0.4417)	info on Rv1352/-
Rv1725c/-	(cc=0.4186)	info on Rv1725c/-
Rv2919c/glnB	(cc=0.4182)	info on Rv2919c/glnB
Rv0349/-	(cc=0.4145)	info on Rv0349/-
Rv2416c/eis	(cc=0.4097)	info on Rv2416c/eis
Rv0084/hycD	(cc=0.4044)	info on Rv0084/hycD
Rv1038c/esxJ	(cc=0.399)	info on Rv1038c/esxJ

Correlation of Rv2011c/- with Rv1352/-

Normalized LFCs for Rv2011c/-:
(description and provenance of datasets)

	Rv2011c/-	Rv1352/-
Fe_supp_jason_reseq	0.818	2.019
low_pH_jason_reseq	-0.318	-0.09
NO_jason_reseq	-0.142	-0.339
B6_jason_reseq	0.151	0.675
MHCII_jason_reseq	-0.09	-0.018
Isoniazid02	0.194	0.127
Rifampicin4	0.236	0.043
Ethambutol3	0.083	-0.165
Meropenem3	0.305	0.334
Vancomycin16	-0.273	0.862
Rv2680_day32	-1.585	0.109
H37Rv_KO_MarP	0.594	-0.246
hypoxia_3wks	-0.666	-1.077
hypoxia_6wks	-1.326	-1.184
glycerol	-1.624	-0.162
cholesterol	0.107	1.24
AJ	0.82	-0.884
Bibs02	2.152	0.901
Bibs02c	0.299	1.391
BL6	0.613	1.178
BL6a	0.304	0.865
BXD01	0.84	1.381
BXD010	0.498	0.152
BXD011	0.329	0.072
BXD03	0.736	-0.095
BXD04	0.654	0.949
BXD05	0.712	1.069
BXD06	-0.052	0.1
BXD07	0.931	1.075
BXD08	-0.716	0.438
BXD09	0.571	0.191
CAST	1.338	0.465
CCcont	0.62	1.63
DS01	0.465	0.986
DS02	-1.171	0.277
DS04	0.651	0.468
DS0c	0.211	-0.826
GP01	-0.619	-0.735
GP02	1.254	1.698
GP0c	0.891	0.437
NOD	-0.148	-0.044
NZO	-0.214	-1.026
PWK	-0.156	-0.138
H37Rv_KO_CtpC	1.037	-0.943
H37Rv_KO_CtpD	-1.246	1.079
H37Rv_KO_Rv1272	1.706	-0.499
H37Rv_KO_SugABC	-0.644	-1.259
H37Rv_KO_MbtN	-0.43	-1.93
Trans05	0.389	-0.327
macrophage_unactivated	0.83	0.78
IL1	0.469	-0.552
Rapamycin	-0.104	0.374
Tcell	0.072	1.714
GMCSF	0.932	-1.281
IFNab	0.565	-1.4
IFNg	0.778	-1.122
IFNg_GMCSF1	0.035	-1.668
Rv1432_day32	-0.192	-1.342
Rv1565c_day32	-0.15	-1.69
secA2_input	0.238	0.603
delta_Rv3594	1.938	2.082
delta_Rv3717	0.714	1.397
delta_Rv3811	2.51	1.674
delta_Rv0954	1.092	-0.981
PonA1	1.819	1.367
EccD1_KO	1.565	1.049
EspI_KO	1.166	1.089
PE35_KO	2.161	0.615
PPE68_KO	2.061	1.302
glycerol2	1.125	2.599
lignocerate	1.991	2.813
oleate	-1.853	0.624
phosphatidylcholine	1.197	2.882
acetate	1.393	2.864
glucAc	1.649	2.241
Rv0950ko	0.042	-2.165
Rv1096ko	-0.407	-0.914
Rv3684ko	1.405	-0.124
delta_otsA_trehalose	-0.592	0.508