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 Rv3330/dacB1:

update plot	correlation	link to info on gene
Rv2190c/-	(cc=0.5632)	info on Rv2190c/-
Rv2696c/-	(cc=0.5628)	info on Rv2696c/-
Rv1006/-	(cc=0.5406)	info on Rv1006/-
Rv1159/pimE	(cc=0.5217)	info on Rv1159/pimE
Rv0431/-	(cc=0.5135)	info on Rv0431/-
Rv3790/dprE1	(cc=0.5052)	info on Rv3790/dprE1
Rv2525c/-	(cc=0.5012)	info on Rv2525c/-
Rv1111c/-	(cc=0.4934)	info on Rv1111c/-
Rv0497/-	(cc=0.4811)	info on Rv0497/-
Rv1701/-	(cc=0.4745)	info on Rv1701/-

Correlation of Rv3330/dacB1 with Rv0431/-

Normalized LFCs for Rv3330/dacB1:
(description and provenance of datasets)

	Rv3330/dacB1	Rv0431/-
Fe_supp_jason_reseq	-0.104	0.751
low_pH_jason_reseq	-0.55	1.305
NO_jason_reseq	-0.381	-0.436
B6_jason_reseq	-0.431	0.695
MHCII_jason_reseq	0.622	0.0
Isoniazid02	-0.125	-2.043
Rifampicin4	-2.364	-4.04
Ethambutol3	0.266	-0.832
Meropenem3	-1.579	-2.146
Vancomycin16	-0.515	-2.918
Rv2680_day32	-0.82	2.141
H37Rv_KO_MarP	-1.795	-3.466
hypoxia_3wks	0.271	-0.439
hypoxia_6wks	-0.509	-0.075
glycerol	0.173	-1.583
cholesterol	0.537	0.082
AJ	-0.343	-1.193
Bibs02	0.866	1.477
Bibs02c	0.211	1.117
BL6	0.492	1.154
BL6a	0.032	1.092
BXD01	0.0	1.07
BXD010	-0.201	0.328
BXD011	0.336	0.236
BXD03	0.296	-1.06
BXD04	0.262	0.878
BXD05	0.631	0.405
BXD06	0.032	0.372
BXD07	0.482	0.533
BXD08	0.291	1.697
BXD09	0.0	0.976
CAST	-0.637	-0.521
CCcont	0.605	2.676
DS01	0.149	0.38
DS02	-0.49	0.403
DS04	0.136	2.112
DS0c	0.327	1.724
GP01	0.723	-0.903
GP02	0.751	0.603
GP0c	0.649	-0.342
NOD	-0.439	-0.952
NZO	-0.116	-1.124
PWK	0.566	-1.009
H37Rv_KO_CtpC	0.245	2.33
H37Rv_KO_CtpD	-0.649	-0.778
H37Rv_KO_Rv1272	0.515	-1.105
H37Rv_KO_SugABC	0.664	0.972
H37Rv_KO_MbtN	0.92	4.38
Trans05	0.268	-0.295
macrophage_unactivated	0.505	0.761
IL1	0.199	-0.742
Rapamycin	0.635	-0.101
Tcell	0.339	1.378
GMCSF	0.784	2.081
IFNab	0.227	-0.203
IFNg	0.778	-0.567
IFNg_GMCSF1	0.952	-0.104
Rv1432_day32	0.714	0.488
Rv1565c_day32	-0.167	0.55
secA2_input	-0.291	-2.829
delta_Rv3594	-0.132	0.84
delta_Rv3717	-0.159	1.47
delta_Rv3811	-0.342	-0.086
delta_Rv0954	-0.012	-1.55
PonA1	0.572	-0.608
EccD1_KO	-0.585	-2.611
EspI_KO	-1.469	-3.268
PE35_KO	-1.581	-1.978
PPE68_KO	-1.065	-1.635
glycerol2	-0.111	1.513
lignocerate	0.106	2.66
oleate	-0.293	-0.248
phosphatidylcholine	-0.398	2.507
acetate	0.263	1.127
glucAc	0.211	1.49
Rv0950ko	-0.805	-3.401
Rv1096ko	-0.09	-3.402
Rv3684ko	-0.648	2.021
delta_otsA_trehalose	0.825	0.081