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 Rv2717c/-:

update plot	correlation	link to info on gene
Rv2430c/PPE41	(cc=0.572)	info on Rv2430c/PPE41
Rv1088/PE9	(cc=0.5658)	info on Rv1088/PE9
Rv2823c/-	(cc=0.5032)	info on Rv2823c/-
Rv2928/tesA	(cc=0.4982)	info on Rv2928/tesA
Rv1500/-	(cc=0.4957)	info on Rv1500/-
Rv2067c/-	(cc=0.4956)	info on Rv2067c/-
Rv2817c/-	(cc=0.4912)	info on Rv2817c/-
Rv1059/-	(cc=0.4866)	info on Rv1059/-
Rv0260c/-	(cc=0.4781)	info on Rv0260c/-
Rv1526c/-	(cc=0.4763)	info on Rv1526c/-

Correlation of Rv2717c/- with Rv2928/tesA

Normalized LFCs for Rv2717c/-:
(description and provenance of datasets)

	Rv2717c/-	Rv2928/tesA
Fe_supp_jason_reseq	0.474	2.06
low_pH_jason_reseq	-0.611	2.361
NO_jason_reseq	-0.081	-0.184
B6_jason_reseq	-0.14	-0.405
MHCII_jason_reseq	-1.399	-2.188
Isoniazid02	0.1	-0.65
Rifampicin4	-0.097	-0.133
Ethambutol3	0.103	-0.122
Meropenem3	1.193	-0.089
Vancomycin16	0.0	-0.13
Rv2680_day32	-1.824	-0.864
H37Rv_KO_MarP	-0.409	0.157
hypoxia_3wks	0.08	0.291
hypoxia_6wks	-0.33	0.152
glycerol	-0.774	0.645
cholesterol	-0.055	1.252
AJ	1.276	0.0
Bibs02	0.093	-1.619
Bibs02c	-0.265	-1.223
BL6	1.014	0.364
BL6a	0.917	0.34
BXD01	1.27	1.648
BXD010	-0.217	0.693
BXD011	0.448	0.136
BXD03	0.291	0.606
BXD04	0.905	1.165
BXD05	0.509	0.354
BXD06	1.179	0.389
BXD07	1.029	0.686
BXD08	0.702	0.27
BXD09	0.32	0.938
CAST	1.131	0.537
CCcont	0.879	1.291
DS01	0.702	0.252
DS02	0.441	0.633
DS04	0.576	0.565
DS0c	-0.63	0.0
GP01	-0.177	0.869
GP02	1.036	0.879
GP0c	0.215	0.264
NOD	1.019	0.838
NZO	-0.107	0.405
PWK	0.209	-0.689
H37Rv_KO_CtpC	-0.139	-0.192
H37Rv_KO_CtpD	0.28	0.295
H37Rv_KO_Rv1272	0.775	0.15
H37Rv_KO_SugABC	0.571	0.601
H37Rv_KO_MbtN	-0.362	0.535
Trans05	0.803	-0.269
macrophage_unactivated	1.382	2.632
IL1	0.285	-0.19
Rapamycin	-0.209	0.543
Tcell	0.235	2.6
GMCSF	0.747	0.882
IFNab	0.517	-0.396
IFNg	-0.321	0.0
IFNg_GMCSF1	0.716	0.377
Rv1432_day32	0.253	-1.027
Rv1565c_day32	0.344	-0.49
secA2_input	-0.571	-0.355
delta_Rv3594	0.564	-1.663
delta_Rv3717	-0.028	-1.155
delta_Rv3811	0.094	-1.445
delta_Rv0954	-0.269	-0.756
PonA1	0.555	0.171
EccD1_KO	-0.299	-0.467
EspI_KO	-0.505	0.0
PE35_KO	0.685	1.143
PPE68_KO	0.477	1.03
glycerol2	0.713	0.587
lignocerate	0.684	0.307
oleate	0.301	1.121
phosphatidylcholine	0.927	0.812
acetate	0.46	-0.645
glucAc	0.4	-0.588
Rv0950ko	-0.95	-1.083
Rv1096ko	-1.134	-3.242
Rv3684ko	-1.411	-2.744
delta_otsA_trehalose	0.26	0.275