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 Rv3094c/-:

update plot	correlation	link to info on gene
Rv0906/-	(cc=0.4884)	info on Rv0906/-
Rv0517/-	(cc=0.4629)	info on Rv0517/-
Rv2675c/-	(cc=0.4618)	info on Rv2675c/-
Rv1200/-	(cc=0.4609)	info on Rv1200/-
Rv0488/-	(cc=0.4569)	info on Rv0488/-
Rv1812c/-	(cc=0.4471)	info on Rv1812c/-
Rv1987/-	(cc=0.4359)	info on Rv1987/-
Rv3740c/-	(cc=0.4347)	info on Rv3740c/-
Rv1714/-	(cc=0.434)	info on Rv1714/-
Rv3473c/bpoA	(cc=0.4253)	info on Rv3473c/bpoA

Correlation of Rv3094c/- with Rv1200/-

Normalized LFCs for Rv3094c/-:
(description and provenance of datasets)

	Rv3094c/-	Rv1200/-
Fe_supp_jason_reseq	-0.043	0.126
low_pH_jason_reseq	-0.706	-0.236
NO_jason_reseq	0.323	0.097
B6_jason_reseq	-0.217	0.573
MHCII_jason_reseq	-0.033	1.227
Isoniazid02	-0.732	-0.611
Rifampicin4	-0.506	-0.233
Ethambutol3	-0.935	-0.268
Meropenem3	-0.509	-0.289
Vancomycin16	-0.43	-0.769
Rv2680_day32	0.153	-0.677
H37Rv_KO_MarP	-0.415	-0.027
hypoxia_3wks	0.271	0.044
hypoxia_6wks	0.418	-0.058
glycerol	0.319	-0.383
cholesterol	0.194	-0.156
AJ	0.494	-0.084
Bibs02	0.727	0.51
Bibs02c	0.832	0.399
BL6	0.64	0.419
BL6a	0.369	0.284
BXD01	0.168	0.021
BXD010	-0.125	-0.324
BXD011	-0.229	0.02
BXD03	-0.442	0.093
BXD04	-0.198	0.215
BXD05	0.489	0.551
BXD06	-0.075	-0.075
BXD07	0.158	0.237
BXD08	0.248	0.087
BXD09	-0.023	-0.109
CAST	-0.103	0.167
CCcont	0.784	0.035
DS01	0.44	0.512
DS02	1.015	0.436
DS04	0.242	0.119
DS0c	1.02	0.663
GP01	-0.375	-0.574
GP02	-0.16	0.013
GP0c	-0.151	-0.199
NOD	-0.683	0.33
NZO	-0.358	0.501
PWK	-1.029	0.128
H37Rv_KO_CtpC	-0.334	-0.293
H37Rv_KO_CtpD	0.0	0.417
H37Rv_KO_Rv1272	0.673	0.178
H37Rv_KO_SugABC	0.774	0.479
H37Rv_KO_MbtN	0.398	0.779
Trans05	0.07	0.036
macrophage_unactivated	0.363	0.549
IL1	0.273	0.018
Rapamycin	-0.018	-0.052
Tcell	0.0	0.248
GMCSF	-0.259	0.42
IFNab	0.187	0.23
IFNg	0.291	0.233
IFNg_GMCSF1	0.214	0.273
Rv1432_day32	0.287	0.216
Rv1565c_day32	0.943	0.174
secA2_input	0.916	0.106
delta_Rv3594	0.401	-0.346
delta_Rv3717	-0.219	0.0
delta_Rv3811	0.779	0.028
delta_Rv0954	0.832	-0.292
PonA1	-0.724	-0.052
EccD1_KO	-0.362	0.122
EspI_KO	-0.222	0.334
PE35_KO	0.064	0.54
PPE68_KO	0.07	0.739
glycerol2	0.912	0.853
lignocerate	1.129	0.706
oleate	0.567	0.44
phosphatidylcholine	1.063	0.926
acetate	0.386	0.426
glucAc	0.71	0.731
Rv0950ko	0.488	0.317
Rv1096ko	0.395	0.44
Rv3684ko	1.208	0.57
delta_otsA_trehalose	-0.197	-0.776