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 Rv0853c/pdc:

update plot	correlation	link to info on gene
Rv1074c/fadA3	(cc=0.5105)	info on Rv1074c/fadA3
Rv0923c/-	(cc=0.4748)	info on Rv0923c/-
Rv1168c/PPE17	(cc=0.4311)	info on Rv1168c/PPE17
Rv3079c/-	(cc=0.4291)	info on Rv3079c/-
Rv3238c/-	(cc=0.4244)	info on Rv3238c/-
Rv1739c/-	(cc=0.3809)	info on Rv1739c/-
Rv2453c/mobA	(cc=0.3794)	info on Rv2453c/mobA
Rv2951c/-	(cc=0.3771)	info on Rv2951c/-
Rv0098/fcoT	(cc=0.3648)	info on Rv0098/fcoT
Rv3120/-	(cc=0.3587)	info on Rv3120/-

Correlation of Rv0853c/pdc with Rv1074c/fadA3

Normalized LFCs for Rv0853c/pdc:
(description and provenance of datasets)

	Rv0853c/pdc	Rv1074c/fadA3
Fe_supp_jason_reseq	-0.346	0.156
low_pH_jason_reseq	-0.278	-1.651
NO_jason_reseq	-1.189	-1.131
B6_jason_reseq	0.341	0.294
MHCII_jason_reseq	0.358	0.55
Isoniazid02	0.137	0.787
Rifampicin4	0.255	0.709
Ethambutol3	0.663	2.327
Meropenem3	0.089	0.417
Vancomycin16	0.141	0.117
Rv2680_day32	-0.592	-1.003
H37Rv_KO_MarP	-0.135	-0.365
hypoxia_3wks	-0.407	-0.578
hypoxia_6wks	0.238	-0.42
glycerol	-0.35	-0.492
cholesterol	-0.408	-0.829
AJ	-0.632	-0.23
Bibs02	-0.196	-0.372
Bibs02c	-0.797	-1.543
BL6	-0.283	0.206
BL6a	-0.088	-0.709
BXD01	0.064	-0.276
BXD010	0.35	0.07
BXD011	0.197	-0.377
BXD03	-0.04	-0.348
BXD04	0.222	-0.428
BXD05	0.33	-0.118
BXD06	0.304	-0.3
BXD07	0.161	-0.282
BXD08	0.039	-0.629
BXD09	-0.196	-0.441
CAST	-0.878	0.289
CCcont	-0.032	-0.023
DS01	0.366	-0.313
DS02	0.581	-0.321
DS04	0.594	-0.021
DS0c	-0.08	0.179
GP01	-1.223	-1.025
GP02	-0.166	-0.154
GP0c	-0.442	-1.127
NOD	1.1	1.271
NZO	-0.328	-0.16
PWK	-0.117	0.479
H37Rv_KO_CtpC	-0.035	0.144
H37Rv_KO_CtpD	0.421	-0.442
H37Rv_KO_Rv1272	0.164	0.994
H37Rv_KO_SugABC	0.225	0.225
H37Rv_KO_MbtN	0.386	-0.354
Trans05	0.863	0.103
macrophage_unactivated	0.903	0.982
IL1	0.543	0.047
Rapamycin	0.384	0.393
Tcell	-0.029	0.0
GMCSF	0.261	0.673
IFNab	0.245	0.284
IFNg	0.147	0.23
IFNg_GMCSF1	1.178	0.317
Rv1432_day32	0.287	0.237
Rv1565c_day32	0.077	0.088
secA2_input	-0.363	0.564
delta_Rv3594	0.54	0.454
delta_Rv3717	-0.083	0.052
delta_Rv3811	0.4	-0.028
delta_Rv0954	0.017	1.149
PonA1	-0.015	0.083
EccD1_KO	0.204	0.46
EspI_KO	1.084	1.069
PE35_KO	0.268	1.517
PPE68_KO	0.72	1.072
glycerol2	0.31	1.118
lignocerate	0.723	1.327
oleate	0.169	0.143
phosphatidylcholine	0.132	1.452
acetate	-0.598	0.158
glucAc	-0.154	0.093
Rv0950ko	-0.567	0.582
Rv1096ko	0.419	0.244
Rv3684ko	0.147	0.868
delta_otsA_trehalose	-0.022	2.072