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 Rv1168c/PPE17:

update plot	correlation	link to info on gene
Rv1319c/-	(cc=0.4724)	info on Rv1319c/-
Rv3121/cyp141	(cc=0.4563)	info on Rv3121/cyp141
Rv1074c/fadA3	(cc=0.4559)	info on Rv1074c/fadA3
Rv3079c/-	(cc=0.4475)	info on Rv3079c/-
Rv2360c/-	(cc=0.4321)	info on Rv2360c/-
Rv0853c/pdc	(cc=0.4311)	info on Rv0853c/pdc
Rv1871c/-	(cc=0.4264)	info on Rv1871c/-
Rv1966/mce3A	(cc=0.4223)	info on Rv1966/mce3A
Rv2958c/-	(cc=0.4173)	info on Rv2958c/-
Rv3614c/espD	(cc=0.4155)	info on Rv3614c/espD

Correlation of Rv1168c/PPE17 with Rv1074c/fadA3

Normalized LFCs for Rv1168c/PPE17:
(description and provenance of datasets)

	Rv1168c/PPE17	Rv1074c/fadA3
Fe_supp_jason_reseq	0.699	0.156
low_pH_jason_reseq	0.607	-1.651
NO_jason_reseq	-0.074	-1.131
B6_jason_reseq	-0.071	0.294
MHCII_jason_reseq	0.25	0.55
Isoniazid02	0.594	0.787
Rifampicin4	0.016	0.709
Ethambutol3	0.82	2.327
Meropenem3	0.283	0.417
Vancomycin16	0.26	0.117
Rv2680_day32	0.157	-1.003
H37Rv_KO_MarP	-0.183	-0.365
hypoxia_3wks	0.419	-0.578
hypoxia_6wks	-0.188	-0.42
glycerol	-0.238	-0.492
cholesterol	-0.308	-0.829
AJ	-0.274	-0.23
Bibs02	0.323	-0.372
Bibs02c	-0.229	-1.543
BL6	0.323	0.206
BL6a	-0.159	-0.709
BXD01	0.074	-0.276
BXD010	0.339	0.07
BXD011	-0.185	-0.377
BXD03	-0.36	-0.348
BXD04	-0.151	-0.428
BXD05	0.207	-0.118
BXD06	0.061	-0.3
BXD07	0.032	-0.282
BXD08	0.145	-0.629
BXD09	-0.178	-0.441
CAST	-0.137	0.289
CCcont	-0.083	-0.023
DS01	-0.289	-0.313
DS02	0.058	-0.321
DS04	0.829	-0.021
DS0c	-0.878	0.179
GP01	0.011	-1.025
GP02	0.887	-0.154
GP0c	-0.386	-1.127
NOD	0.971	1.271
NZO	-0.818	-0.16
PWK	0.328	0.479
H37Rv_KO_CtpC	0.37	0.144
H37Rv_KO_CtpD	0.183	-0.442
H37Rv_KO_Rv1272	0.231	0.994
H37Rv_KO_SugABC	0.316	0.225
H37Rv_KO_MbtN	0.398	-0.354
Trans05	0.84	0.103
macrophage_unactivated	1.133	0.982
IL1	-0.157	0.047
Rapamycin	0.138	0.393
Tcell	0.254	0.0
GMCSF	0.319	0.673
IFNab	0.381	0.284
IFNg	0.436	0.23
IFNg_GMCSF1	0.264	0.317
Rv1432_day32	0.15	0.237
Rv1565c_day32	-0.046	0.088
secA2_input	0.081	0.564
delta_Rv3594	0.0	0.454
delta_Rv3717	-0.157	0.052
delta_Rv3811	0.071	-0.028
delta_Rv0954	-0.243	1.149
PonA1	-0.032	0.083
EccD1_KO	0.391	0.46
EspI_KO	0.747	1.069
PE35_KO	0.688	1.517
PPE68_KO	0.31	1.072
glycerol2	0.73	1.118
lignocerate	0.537	1.327
oleate	0.654	0.143
phosphatidylcholine	0.704	1.452
acetate	-0.446	0.158
glucAc	-0.61	0.093
Rv0950ko	-0.112	0.582
Rv1096ko	-0.685	0.244
Rv3684ko	0.255	0.868
delta_otsA_trehalose	0.813	2.072