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 Rv2804c/-:

update plot	correlation	link to info on gene
Rv3607c/folB	(cc=0.5178)	info on Rv3607c/folB
Rv1646/PE17	(cc=0.5149)	info on Rv1646/PE17
Rv3026c/-	(cc=0.4881)	info on Rv3026c/-
Rv1163/narJ	(cc=0.4738)	info on Rv1163/narJ
Rv0985c/mscL	(cc=0.47)	info on Rv0985c/mscL
Rv0613c/-	(cc=0.4674)	info on Rv0613c/-
Rv2669/-	(cc=0.4642)	info on Rv2669/-
Rv2974c/-	(cc=0.4551)	info on Rv2974c/-
Rv3297/nei	(cc=0.4534)	info on Rv3297/nei
Rv0359/-	(cc=0.438)	info on Rv0359/-

Correlation of Rv2804c/- with Rv0985c/mscL

Normalized LFCs for Rv2804c/-:
(description and provenance of datasets)

	Rv2804c/-	Rv0985c/mscL
Fe_supp_jason_reseq	-0.661	-0.2
low_pH_jason_reseq	0.211	0.597
NO_jason_reseq	-0.087	-0.593
B6_jason_reseq	-0.134	-0.109
MHCII_jason_reseq	0.891	0.374
Isoniazid02	0.422	0.042
Rifampicin4	1.27	0.563
Ethambutol3	0.158	0.186
Meropenem3	0.247	0.096
Vancomycin16	0.345	-0.151
Rv2680_day32	0.806	0.223
H37Rv_KO_MarP	0.435	0.279
hypoxia_3wks	0.064	-2.536
hypoxia_6wks	-0.113	-0.739
glycerol	0.521	0.889
cholesterol	0.516	0.508
AJ	0.916	0.553
Bibs02	0.903	1.672
Bibs02c	0.196	1.34
BL6	0.421	-0.157
BL6a	0.309	0.188
BXD01	-0.454	-0.865
BXD010	0.11	-0.396
BXD011	0.404	-0.69
BXD03	-0.486	-1.197
BXD04	0.12	-1.516
BXD05	0.016	-1.172
BXD06	-0.374	-0.951
BXD07	0.048	-0.184
BXD08	0.553	-1.049
BXD09	-0.126	-0.853
CAST	0.958	1.306
CCcont	-0.504	0.098
DS01	0.423	1.357
DS02	0.561	1.486
DS04	1.235	0.537
DS0c	1.119	1.537
GP01	-0.366	0.059
GP02	1.241	1.022
GP0c	0.064	0.946
NOD	0.566	1.695
NZO	0.207	-0.038
PWK	0.732	0.22
H37Rv_KO_CtpC	1.116	0.245
H37Rv_KO_CtpD	0.039	0.106
H37Rv_KO_Rv1272	-1.693	0.604
H37Rv_KO_SugABC	0.353	-1.654
H37Rv_KO_MbtN	-0.847	-0.046
Trans05	-0.386	-0.483
macrophage_unactivated	-0.208	-0.821
IL1	-0.658	-1.083
Rapamycin	-0.7	-0.988
Tcell	-0.622	-1.483
GMCSF	-0.38	-1.328
IFNab	-0.405	-1.521
IFNg	-0.77	-3.421
IFNg_GMCSF1	0.016	-0.691
Rv1432_day32	-0.631	-0.052
Rv1565c_day32	-0.52	-0.231
secA2_input	0.307	-0.178
delta_Rv3594	-0.216	0.783
delta_Rv3717	0.301	0.018
delta_Rv3811	-0.082	0.669
delta_Rv0954	0.886	1.009
PonA1	0.293	0.464
EccD1_KO	0.237	-0.27
EspI_KO	0.784	0.724
PE35_KO	0.254	0.618
PPE68_KO	-0.134	0.71
glycerol2	0.496	0.605
lignocerate	0.566	-0.056
oleate	0.254	0.532
phosphatidylcholine	0.515	0.248
acetate	0.414	-0.236
glucAc	-0.205	-0.593
Rv0950ko	-0.552	-0.299
Rv1096ko	-0.688	-0.374
Rv3684ko	0.151	-0.616
delta_otsA_trehalose	-0.576	1.163