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 Rv1694/tlyA:

update plot	correlation	link to info on gene
Rv0047c/-	(cc=0.5334)	info on Rv0047c/-
Rv2668/-	(cc=0.4868)	info on Rv2668/-
Rv2506/-	(cc=0.4819)	info on Rv2506/-
Rv2905/lppW	(cc=0.4329)	info on Rv2905/lppW
Rv1913/-	(cc=0.4307)	info on Rv1913/-
Rv1593c/-	(cc=0.4282)	info on Rv1593c/-
Rv2427c/proA	(cc=0.4273)	info on Rv2427c/proA
Rv2060/-	(cc=0.4234)	info on Rv2060/-
Rv3263/-	(cc=0.4232)	info on Rv3263/-
Rv3421c/-	(cc=0.4212)	info on Rv3421c/-

Correlation of Rv1694/tlyA with Rv3263/-

Normalized LFCs for Rv1694/tlyA:
(description and provenance of datasets)

	Rv1694/tlyA	Rv3263/-
Fe_supp_jason_reseq	-1.88	-1.905
low_pH_jason_reseq	1.76	-0.959
NO_jason_reseq	3.069	0.837
B6_jason_reseq	-0.266	0.922
MHCII_jason_reseq	0.554	-0.43
Isoniazid02	1.355	-0.489
Rifampicin4	0.0	0.16
Ethambutol3	1.47	0.758
Meropenem3	0.805	0.109
Vancomycin16	0.854	-0.695
Rv2680_day32	0.798	-0.234
H37Rv_KO_MarP	0.535	-0.452
hypoxia_3wks	-0.502	-0.247
hypoxia_6wks	-0.549	0.578
glycerol	0.054	-0.582
cholesterol	-0.813	-0.775
AJ	-1.047	-0.21
Bibs02	-1.678	-0.609
Bibs02c	-2.46	-0.332
BL6	0.513	0.115
BL6a	-1.158	-0.258
BXD01	1.442	0.184
BXD010	-0.018	0.337
BXD011	0.579	1.005
BXD03	0.894	0.09
BXD04	0.636	0.789
BXD05	0.325	0.495
BXD06	1.145	0.821
BXD07	0.364	0.652
BXD08	1.263	0.599
BXD09	0.746	0.19
CAST	0.903	1.431
CCcont	0.376	-1.225
DS01	-1.495	-0.944
DS02	-1.271	-0.731
DS04	1.015	-0.682
DS0c	-3.864	-1.051
GP01	0.206	0.595
GP02	1.595	0.579
GP0c	-0.671	0.048
NOD	-0.291	0.044
NZO	0.481	0.621
PWK	2.028	1.826
H37Rv_KO_CtpC	-2.051	1.37
H37Rv_KO_CtpD	0.819	0.098
H37Rv_KO_Rv1272	0.565	-0.939
H37Rv_KO_SugABC	-1.505	0.037
H37Rv_KO_MbtN	-0.819	0.144
Trans05	-0.15	0.422
macrophage_unactivated	-1.723	-1.591
IL1	-0.095	0.027
Rapamycin	-0.565	-0.789
Tcell	1.662	0.469
GMCSF	-1.824	-0.325
IFNab	-1.865	-1.094
IFNg	-1.713	0.457
IFNg_GMCSF1	-2.951	0.39
Rv1432_day32	-0.98	1.272
Rv1565c_day32	-1.579	-1.303
secA2_input	1.794	0.507
delta_Rv3594	0.493	0.381
delta_Rv3717	0.331	0.79
delta_Rv3811	-0.226	0.272
delta_Rv0954	0.559	0.044
PonA1	-1.24	-0.117
EccD1_KO	1.115	0.467
EspI_KO	-0.633	-0.057
PE35_KO	0.487	0.222
PPE68_KO	0.534	0.042
glycerol2	0.832	0.905
lignocerate	1.218	0.463
oleate	-1.154	-0.22
phosphatidylcholine	1.214	1.006
acetate	1.799	-0.12
glucAc	1.349	0.277
Rv0950ko	1.818	0.645
Rv1096ko	0.6	0.193
Rv3684ko	1.019	0.901
delta_otsA_trehalose	0.0	0.021