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:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

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 Rv1319c/-

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

Comparison of LFCs between selected condtions.

condition	Rv1168c/PPE17	Rv1319c/-
Fe_supp_jason_reseq	0.699	0.224
low_pH_jason_reseq	0.607	-0.067
NO_jason_reseq	-0.074	-0.121
B6_jason_reseq	-0.071	-0.089
MHCII_jason_reseq	0.25	0.244
Isoniazid02	0.594	-0.125
Rifampicin4	0.016	0.455
Ethambutol3	0.82	1.665
Meropenem3	0.283	0.171
Vancomycin16	0.26	0.172
Rv2680_day32	0.157	0.795
H37Rv_KO_MarP	-0.183	0.262
hypoxia_3wks	0.419	-0.024
hypoxia_6wks	-0.188	0.259
glycerol	-0.238	-0.274
cholesterol	-0.308	-0.221
AJ	-0.274	-0.345
Bibs02	0.323	-0.036
Bibs02c	-0.229	-0.211
BL6	0.323	0.024
BL6a	-0.159	-0.191
BXD01	0.074	-0.104
BXD010	0.339	-0.185
BXD011	-0.185	-0.01
BXD03	-0.36	-0.07
BXD04	-0.151	-0.019
BXD05	0.207	-0.058
BXD06	0.061	-0.169
BXD07	0.032	-0.374
BXD08	0.145	-0.005
BXD09	-0.178	-0.252
CAST	-0.137	0.043
CCcont	-0.083	-0.434
DS01	-0.289	-0.009
DS02	0.058	-0.008
DS04	0.829	0.101
DS0c	-0.878	-0.42
GP01	0.011	0.385
GP02	0.887	0.295
GP0c	-0.386	-0.041
NOD	0.971	0.651
NZO	-0.818	-0.642
PWK	0.328	-0.045
H37Rv_KO_CtpC	0.37	0.271
H37Rv_KO_CtpD	0.183	0.903
H37Rv_KO_Rv1272	0.231	0.355
H37Rv_KO_SugABC	0.316	0.535
H37Rv_KO_MbtN	0.398	0.061
Trans05	0.84	0.276
macrophage_unactivated	1.133	0.36
IL1	-0.157	0.11
Rapamycin	0.138	-0.549
Tcell	0.254	-0.081
GMCSF	0.319	-0.082
IFNab	0.381	-0.154
IFNg	0.436	0.083
IFNg_GMCSF1	0.264	-0.019
Rv1432_day32	0.15	0.827
Rv1565c_day32	-0.046	0.248
secA2_input	0.081	-0.371
delta_Rv3594	0.0	-0.203
delta_Rv3717	-0.157	0.039
delta_Rv3811	0.071	-0.187
delta_Rv0954	-0.243	0.0
PonA1	-0.032	0.078
EccD1_KO	0.391	-0.378
EspI_KO	0.747	-0.037
PE35_KO	0.688	0.222
PPE68_KO	0.31	-0.064
glycerol2	0.73	0.633
lignocerate	0.537	0.509
oleate	0.654	0.695
phosphatidylcholine	0.704	0.745
acetate	-0.446	-0.17
glucAc	-0.61	-0.127
Rv0950ko	-0.112	0.0
Rv1096ko	-0.685	-0.238
Rv3684ko	0.255	-0.76
delta_otsA_trehalose	0.813	-0.132