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 Rv1498A/-:

update plot	correlation	link to info on gene
Rv2519/PE26	(cc=0.5856)	info on Rv2519/PE26
Rv2548/vapC19	(cc=0.544)	info on Rv2548/vapC19
Rv1217c/-	(cc=0.5413)	info on Rv1217c/-
Rv1729c/-	(cc=0.5307)	info on Rv1729c/-
Rv0505c/serB1	(cc=0.5054)	info on Rv0505c/serB1
Rv1548c/PPE21	(cc=0.4837)	info on Rv1548c/PPE21
Rv1583c/-	(cc=0.4738)	info on Rv1583c/-
Rv1507c/-	(cc=0.4673)	info on Rv1507c/-
Rv2735c/-	(cc=0.4619)	info on Rv2735c/-
Rv2818c/-	(cc=0.4595)	info on Rv2818c/-

Correlation of Rv1498A/- with Rv2818c/-

Normalized LFCs for Rv1498A/-:
(description and provenance of datasets)

	Rv1498A/-	Rv2818c/-
Fe_supp_jason_reseq	0.684	0.302
low_pH_jason_reseq	0.0	0.102
NO_jason_reseq	0.48	-0.213
B6_jason_reseq	-1.941	-0.127
MHCII_jason_reseq	-1.531	0.454
Isoniazid02	0.15	-0.105
Rifampicin4	0.474	-0.563
Ethambutol3	0.409	-0.157
Meropenem3	0.21	0.02
Vancomycin16	0.515	0.313
Rv2680_day32	0.973	-0.316
H37Rv_KO_MarP	-0.418	-0.391
hypoxia_3wks	-0.299	0.215
hypoxia_6wks	0.015	0.403
glycerol	-0.159	-0.363
cholesterol	-0.348	-0.229
AJ	-1.805	0.084
Bibs02	-0.91	0.098
Bibs02c	-0.133	0.418
BL6	0.571	0.654
BL6a	0.56	1.184
BXD01	-0.669	1.252
BXD010	0.357	1.154
BXD011	0.505	1.407
BXD03	0.198	1.319
BXD04	-0.866	1.015
BXD05	0.76	1.503
BXD06	-0.085	1.44
BXD07	0.513	1.573
BXD08	0.116	1.417
BXD09	0.448	1.177
CAST	-0.472	0.596
CCcont	-0.341	1.109
DS01	-0.351	0.246
DS02	0.101	0.367
DS04	-0.753	0.786
DS0c	-2.861	0.19
GP01	0.436	0.802
GP02	-0.236	0.227
GP0c	0.528	1.034
NOD	-1.681	0.197
NZO	0.139	-0.152
PWK	-0.709	-0.578
H37Rv_KO_CtpC	1.027	1.643
H37Rv_KO_CtpD	2.402	2.194
H37Rv_KO_Rv1272	0.64	1.215
H37Rv_KO_SugABC	0.644	0.93
H37Rv_KO_MbtN	-0.596	0.158
Trans05	1.133	0.593
macrophage_unactivated	-0.83	0.407
IL1	-0.323	-0.11
Rapamycin	-0.319	0.074
Tcell	-1.401	0.381
GMCSF	-0.227	1.323
IFNab	-0.78	0.251
IFNg	-0.433	0.604
IFNg_GMCSF1	-1.775	-0.277
Rv1432_day32	0.374	0.846
Rv1565c_day32	1.031	0.445
secA2_input	-2.661	-0.495
delta_Rv3594	-0.28	1.175
delta_Rv3717	-0.634	0.828
delta_Rv3811	0.326	0.659
delta_Rv0954	-0.315	0.028
PonA1	-1.297	0.824
EccD1_KO	-1.342	0.178
EspI_KO	-1.03	0.767
PE35_KO	0.613	1.561
PPE68_KO	-0.787	1.872
glycerol2	-1.956	-0.122
lignocerate	-0.912	0.038
oleate	-1.062	-0.03
phosphatidylcholine	-0.825	0.262
acetate	0.239	0.103
glucAc	-0.19	-0.101
Rv0950ko	-0.745	-0.832
Rv1096ko	-1.535	-0.501
Rv3684ko	-2.161	-1.071
delta_otsA_trehalose	-0.792	0.459