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 Rv0077c/-:

update plot	correlation	link to info on gene
Rv0347/-	(cc=0.5037)	info on Rv0347/-
Rv3337/-	(cc=0.493)	info on Rv3337/-
Rv0372c/-	(cc=0.4813)	info on Rv0372c/-
Rv1262c/-	(cc=0.4677)	info on Rv1262c/-
Rv1761c/-	(cc=0.4593)	info on Rv1761c/-
Rv0276/-	(cc=0.4468)	info on Rv0276/-
Rv2994/-	(cc=0.4383)	info on Rv2994/-
Rv0633c/-	(cc=0.4357)	info on Rv0633c/-
Rv3714c/-	(cc=0.4247)	info on Rv3714c/-
Rv0858c/dapC	(cc=0.4236)	info on Rv0858c/dapC

Correlation of Rv0077c/- with Rv2994/-

Normalized LFCs for Rv0077c/-:
(description and provenance of datasets)

	Rv0077c/-	Rv2994/-
Fe_supp_jason_reseq	-0.221	-0.358
low_pH_jason_reseq	-0.381	-0.865
NO_jason_reseq	0.029	-0.074
B6_jason_reseq	0.538	0.503
MHCII_jason_reseq	0.238	0.585
Isoniazid02	0.444	0.192
Rifampicin4	0.165	0.72
Ethambutol3	0.555	0.413
Meropenem3	0.528	0.207
Vancomycin16	0.239	0.531
Rv2680_day32	-1.331	-0.56
H37Rv_KO_MarP	0.349	0.099
hypoxia_3wks	0.546	0.335
hypoxia_6wks	0.37	0.695
glycerol	0.098	-0.278
cholesterol	-0.208	-0.106
AJ	0.555	0.131
Bibs02	1.245	-0.012
Bibs02c	-0.045	0.45
BL6	-0.449	0.603
BL6a	0.274	0.363
BXD01	-0.404	-0.321
BXD010	0.349	-0.158
BXD011	0.035	0.293
BXD03	0.338	-0.026
BXD04	0.068	-0.42
BXD05	0.639	0.398
BXD06	0.225	0.009
BXD07	0.315	0.144
BXD08	-0.058	0.222
BXD09	0.805	-0.009
CAST	0.375	0.143
CCcont	-0.551	-0.494
DS01	0.681	0.419
DS02	0.148	-0.284
DS04	0.804	-0.142
DS0c	0.03	0.5
GP01	1.734	0.516
GP02	0.194	0.412
GP0c	0.235	-0.141
NOD	-0.216	0.208
NZO	0.373	-0.16
PWK	0.26	0.182
H37Rv_KO_CtpC	-1.045	-0.064
H37Rv_KO_CtpD	-0.704	-0.251
H37Rv_KO_Rv1272	-0.411	-0.968
H37Rv_KO_SugABC	-0.952	1.032
H37Rv_KO_MbtN	-0.973	-1.404
Trans05	-0.057	-0.209
macrophage_unactivated	-0.12	-0.445
IL1	0.303	-0.047
Rapamycin	0.046	-0.457
Tcell	0.049	-0.782
GMCSF	0.573	0.821
IFNab	0.308	-0.221
IFNg	0.596	-0.353
IFNg_GMCSF1	0.0	-0.415
Rv1432_day32	-0.478	1.036
Rv1565c_day32	-0.066	0.294
secA2_input	1.403	0.614
delta_Rv3594	-1.007	0.167
delta_Rv3717	-0.868	0.118
delta_Rv3811	-1.152	-0.123
delta_Rv0954	0.523	-0.021
PonA1	0.347	-0.575
EccD1_KO	0.059	-0.109
EspI_KO	-0.813	0.046
PE35_KO	-0.426	-0.61
PPE68_KO	-0.499	-0.106
glycerol2	-0.289	-0.626
lignocerate	-0.399	-0.772
oleate	-0.425	-0.4
phosphatidylcholine	-0.459	-0.437
acetate	-0.195	-0.874
glucAc	-0.777	-1.191
Rv0950ko	0.633	0.048
Rv1096ko	1.327	0.832
Rv3684ko	1.225	0.452
delta_otsA_trehalose	1.344	1.026