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 Rv1944c/-:

update plot	correlation	link to info on gene
Rv3410c/guaB3	(cc=0.6104)	info on Rv3410c/guaB3
Rv1215c/-	(cc=0.525)	info on Rv1215c/-
Rv1962A/vapB35	(cc=0.504)	info on Rv1962A/vapB35
Rv1697/-	(cc=0.5007)	info on Rv1697/-
Rv1785c/cyp143	(cc=0.4725)	info on Rv1785c/cyp143
Rv1552/frdA	(cc=0.4636)	info on Rv1552/frdA
Rv0988/-	(cc=0.4541)	info on Rv0988/-
Rv0013/trpG	(cc=0.4481)	info on Rv0013/trpG
Rv3665c/dppB	(cc=0.4409)	info on Rv3665c/dppB
Rv2677c/hemY	(cc=0.4353)	info on Rv2677c/hemY

Correlation of Rv1944c/- with Rv1785c/cyp143

Normalized LFCs for Rv1944c/-:
(description and provenance of datasets)

	Rv1944c/-	Rv1785c/cyp143
Fe_supp_jason_reseq	-0.614	-1.061
low_pH_jason_reseq	2.561	0.375
NO_jason_reseq	-0.788	-0.47
B6_jason_reseq	-0.807	-1.819
MHCII_jason_reseq	-1.64	-1.7
Isoniazid02	3.462	2.343
Rifampicin4	0.173	0.276
Ethambutol3	3.199	3.134
Meropenem3	0.097	0.55
Vancomycin16	0.17	0.854
Rv2680_day32	-0.039	1.493
H37Rv_KO_MarP	0.49	-0.233
hypoxia_3wks	-0.522	0.148
hypoxia_6wks	0.0	0.332
glycerol	-0.614	-0.32
cholesterol	0.946	-1.07
AJ	-0.97	-0.664
Bibs02	0.413	-0.67
Bibs02c	-0.67	0.368
BL6	0.477	0.31
BL6a	0.044	-0.491
BXD01	0.734	0.038
BXD010	0.605	0.485
BXD011	0.323	0.753
BXD03	0.133	0.706
BXD04	-0.627	-0.196
BXD05	1.216	0.59
BXD06	0.314	-0.282
BXD07	0.549	0.226
BXD08	0.925	0.094
BXD09	0.196	-0.153
CAST	0.367	-0.704
CCcont	0.694	0.753
DS01	0.282	-0.034
DS02	0.532	0.354
DS04	0.252	0.292
DS0c	1.279	-0.663
GP01	0.843	0.701
GP02	2.041	0.979
GP0c	1.277	0.853
NOD	0.944	-1.66
NZO	-0.517	-0.494
PWK	1.269	-0.719
H37Rv_KO_CtpC	1.205	1.472
H37Rv_KO_CtpD	0.344	-0.038
H37Rv_KO_Rv1272	1.093	1.278
H37Rv_KO_SugABC	0.768	0.453
H37Rv_KO_MbtN	0.08	0.461
Trans05	-0.126	1.2
macrophage_unactivated	0.9	0.369
IL1	-0.89	0.178
Rapamycin	-0.387	0.184
Tcell	1.388	0.049
GMCSF	-0.42	0.454
IFNab	0.514	0.091
IFNg	-0.249	0.385
IFNg_GMCSF1	0.273	0.946
Rv1432_day32	1.073	-0.37
Rv1565c_day32	0.444	-1.101
secA2_input	0.402	-0.022
delta_Rv3594	-0.26	-0.3
delta_Rv3717	0.191	-1.0
delta_Rv3811	-0.327	0.32
delta_Rv0954	0.213	-1.23
PonA1	0.454	-0.309
EccD1_KO	0.342	0.615
EspI_KO	0.328	0.533
PE35_KO	0.732	0.776
PPE68_KO	-0.038	0.768
glycerol2	0.548	-0.104
lignocerate	0.258	0.198
oleate	0.525	-0.561
phosphatidylcholine	0.978	0.06
acetate	-0.279	0.973
glucAc	-0.194	0.284
Rv0950ko	-1.933	-0.1
Rv1096ko	-0.799	-1.062
Rv3684ko	-2.512	-1.064
delta_otsA_trehalose	-1.08	0.701