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 Rv0590/mce2B:

update plot	correlation	link to info on gene
Rv1153c/omt	(cc=0.5438)	info on Rv1153c/omt
Rv2689c/-	(cc=0.453)	info on Rv2689c/-
Rv0442c/PPE10	(cc=0.4458)	info on Rv0442c/PPE10
Rv1001/arcA	(cc=0.4333)	info on Rv1001/arcA
Rv0030/-	(cc=0.4276)	info on Rv0030/-
Rv0958/-	(cc=0.4067)	info on Rv0958/-
Rv2756c/hsdM	(cc=0.3986)	info on Rv2756c/hsdM
Rv0591/mce2C	(cc=0.3969)	info on Rv0591/mce2C
Rv0698/-	(cc=0.3943)	info on Rv0698/-
Rv2407/-	(cc=0.3892)	info on Rv2407/-

Correlation of Rv0590/mce2B with Rv2756c/hsdM

Normalized LFCs for Rv0590/mce2B:
(description and provenance of datasets)

	Rv0590/mce2B	Rv2756c/hsdM
Fe_supp_jason_reseq	-2.234	-0.178
low_pH_jason_reseq	0.918	0.671
NO_jason_reseq	0.614	0.772
B6_jason_reseq	-2.589	0.83
MHCII_jason_reseq	-1.251	-0.169
Isoniazid02	0.713	0.211
Rifampicin4	-0.791	-0.119
Ethambutol3	-0.422	-0.081
Meropenem3	-0.399	-0.412
Vancomycin16	-0.6	0.279
Rv2680_day32	-0.828	0.104
H37Rv_KO_MarP	-0.175	-0.229
hypoxia_3wks	-0.586	-0.152
hypoxia_6wks	-0.361	0.155
glycerol	-0.193	0.0
cholesterol	0.073	-0.107
AJ	0.203	0.0
Bibs02	1.084	1.491
Bibs02c	-0.859	0.92
BL6	-0.614	0.643
BL6a	-0.399	0.222
BXD01	0.05	0.0
BXD010	0.128	0.088
BXD011	-0.236	0.71
BXD03	-0.054	0.209
BXD04	0.047	-0.19
BXD05	0.984	0.261
BXD06	-0.473	0.667
BXD07	-0.152	0.752
BXD08	-0.447	0.759
BXD09	-0.095	0.723
CAST	0.23	0.402
CCcont	-0.04	0.768
DS01	-0.294	0.551
DS02	0.164	0.742
DS04	0.682	0.791
DS0c	0.217	0.586
GP01	-0.425	1.237
GP02	0.052	0.416
GP0c	0.68	1.002
NOD	0.853	0.952
NZO	-0.402	0.224
PWK	0.148	0.135
H37Rv_KO_CtpC	0.379	1.252
H37Rv_KO_CtpD	0.796	1.176
H37Rv_KO_Rv1272	0.106	0.642
H37Rv_KO_SugABC	1.642	0.958
H37Rv_KO_MbtN	-1.093	-0.85
Trans05	-1.339	0.061
macrophage_unactivated	0.133	0.843
IL1	-0.756	0.792
Rapamycin	0.252	0.54
Tcell	0.137	0.723
GMCSF	-0.478	0.401
IFNab	0.308	0.532
IFNg	0.166	1.318
IFNg_GMCSF1	0.848	0.977
Rv1432_day32	1.043	-0.139
Rv1565c_day32	-0.607	0.163
secA2_input	-0.398	-0.185
delta_Rv3594	-0.791	0.04
delta_Rv3717	-0.715	-0.5
delta_Rv3811	0.378	-0.253
delta_Rv0954	-1.314	-0.035
PonA1	-2.641	-0.77
EccD1_KO	0.72	0.26
EspI_KO	1.121	0.225
PE35_KO	-0.064	0.592
PPE68_KO	0.819	0.416
glycerol2	0.038	1.499
lignocerate	0.911	2.015
oleate	0.112	0.537
phosphatidylcholine	0.562	1.683
acetate	1.16	2.292
glucAc	0.931	2.744
Rv0950ko	0.525	0.217
Rv1096ko	0.323	1.324
Rv3684ko	-0.187	1.195
delta_otsA_trehalose	2.804	-0.103