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 Rv1175c/fadH:

update plot	correlation	link to info on gene
Rv2345/-	(cc=0.5897)	info on Rv2345/-
Rv2068c/blaC	(cc=0.5489)	info on Rv2068c/blaC
Rv0605/-	(cc=0.488)	info on Rv0605/-
Rv2634c/PE_PGRS46	(cc=0.4844)	info on Rv2634c/PE_PGRS46
Rv0399c/lpqK	(cc=0.4744)	info on Rv0399c/lpqK
Rv2954c/-	(cc=0.4701)	info on Rv2954c/-
Rv1812c/-	(cc=0.4642)	info on Rv1812c/-
Rv2788/sirR	(cc=0.4597)	info on Rv2788/sirR
Rv0968/-	(cc=0.4423)	info on Rv0968/-
Rv1997/ctpF	(cc=0.4412)	info on Rv1997/ctpF

Correlation of Rv1175c/fadH with Rv0399c/lpqK

Normalized LFCs for Rv1175c/fadH:
(description and provenance of datasets)

	Rv1175c/fadH	Rv0399c/lpqK
Fe_supp_jason_reseq	-0.78	0.215
low_pH_jason_reseq	-0.489	0.087
NO_jason_reseq	-0.452	0.522
B6_jason_reseq	-0.548	0.114
MHCII_jason_reseq	-0.009	0.21
Isoniazid02	-0.784	-3.51
Rifampicin4	0.401	0.764
Ethambutol3	-0.703	-2.908
Meropenem3	-1.731	-2.207
Vancomycin16	-0.629	-1.08
Rv2680_day32	-0.947	-0.648
H37Rv_KO_MarP	0.13	-0.277
hypoxia_3wks	0.658	0.375
hypoxia_6wks	-0.088	1.054
glycerol	0.015	0.107
cholesterol	0.273	0.349
AJ	-0.279	0.153
Bibs02	-0.191	-0.076
Bibs02c	-0.155	1.291
BL6	0.0	-0.052
BL6a	-0.043	0.936
BXD01	-0.445	0.069
BXD010	-0.046	0.39
BXD011	0.178	-0.185
BXD03	0.111	0.695
BXD04	0.0	0.244
BXD05	0.488	0.488
BXD06	-0.307	0.018
BXD07	-0.246	0.091
BXD08	-0.429	0.444
BXD09	0.257	0.0
CAST	0.174	0.062
CCcont	-0.121	-0.127
DS01	-0.342	0.544
DS02	-0.128	-0.121
DS04	-0.429	0.966
DS0c	-0.176	0.523
GP01	0.125	-0.144
GP02	-0.992	-0.527
GP0c	-0.76	0.018
NOD	-0.148	1.193
NZO	-0.803	-0.027
PWK	-0.503	0.129
H37Rv_KO_CtpC	-0.071	0.086
H37Rv_KO_CtpD	1.533	1.419
H37Rv_KO_Rv1272	0.161	-0.079
H37Rv_KO_SugABC	0.1	0.683
H37Rv_KO_MbtN	-0.108	0.215
Trans05	0.474	0.052
macrophage_unactivated	0.379	-0.363
IL1	-0.163	-0.78
Rapamycin	0.239	0.381
Tcell	0.391	0.176
GMCSF	0.488	0.327
IFNab	-0.166	-0.662
IFNg	0.142	-0.051
IFNg_GMCSF1	0.245	0.443
Rv1432_day32	-0.017	0.082
Rv1565c_day32	-0.011	0.269
secA2_input	0.214	0.312
delta_Rv3594	-0.041	0.057
delta_Rv3717	-0.214	0.115
delta_Rv3811	-0.297	-0.028
delta_Rv0954	0.287	-0.96
PonA1	-0.031	-0.112
EccD1_KO	0.793	0.161
EspI_KO	0.0	0.274
PE35_KO	0.79	0.236
PPE68_KO	0.294	0.259
glycerol2	0.615	0.238
lignocerate	0.789	0.524
oleate	0.077	0.631
phosphatidylcholine	0.727	0.496
acetate	0.068	0.535
glucAc	0.124	0.349
Rv0950ko	-0.057	0.048
Rv1096ko	-0.329	0.745
Rv3684ko	-0.095	-0.321
delta_otsA_trehalose	0.42	0.178