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 Rv3351c/-:

update plot	correlation	link to info on gene
Rv0072/-	(cc=0.4804)	info on Rv0072/-
Rv0305c/PPE6	(cc=0.4753)	info on Rv0305c/PPE6
Rv2665/-	(cc=0.4546)	info on Rv2665/-
Rv1948c/-	(cc=0.4485)	info on Rv1948c/-
Rv3440c/-	(cc=0.4421)	info on Rv3440c/-
Rv1145/mmpL13a	(cc=0.4416)	info on Rv1145/mmpL13a
Rv0832/PE_PGRS12	(cc=0.4345)	info on Rv0832/PE_PGRS12
Rv0194/-	(cc=0.4315)	info on Rv0194/-
Rv0138/-	(cc=0.431)	info on Rv0138/-
Rv2436/rbsK	(cc=0.4277)	info on Rv2436/rbsK

Correlation of Rv3351c/- with Rv1948c/-

Normalized LFCs for Rv3351c/-:
(description and provenance of datasets)

	Rv3351c/-	Rv1948c/-
Fe_supp_jason_reseq	-0.014	-0.508
low_pH_jason_reseq	-0.36	-0.206
NO_jason_reseq	-0.108	0.887
B6_jason_reseq	-0.684	-2.506
MHCII_jason_reseq	0.108	-1.292
Isoniazid02	-0.282	-0.185
Rifampicin4	-0.366	-0.791
Ethambutol3	0.435	1.612
Meropenem3	0.28	-0.38
Vancomycin16	-0.316	0.361
Rv2680_day32	0.504	0.915
H37Rv_KO_MarP	0.296	-0.123
hypoxia_3wks	0.187	0.219
hypoxia_6wks	0.263	-0.885
glycerol	0.17	-0.348
cholesterol	0.084	0.064
AJ	0.588	1.086
Bibs02	0.295	-0.817
Bibs02c	0.717	1.984
BL6	0.165	1.445
BL6a	0.283	1.709
BXD01	0.175	0.512
BXD010	-0.481	0.421
BXD011	-0.239	0.163
BXD03	0.167	-0.513
BXD04	-0.105	0.322
BXD05	0.408	0.991
BXD06	0.15	0.525
BXD07	0.112	0.707
BXD08	0.673	0.437
BXD09	-0.009	0.152
CAST	0.207	-0.277
CCcont	0.125	1.509
DS01	0.144	0.571
DS02	0.63	0.321
DS04	0.63	1.292
DS0c	0.848	1.31
GP01	-0.262	1.547
GP02	0.262	0.019
GP0c	-0.273	1.727
NOD	-0.145	-0.576
NZO	0.173	0.483
PWK	0.078	0.74
H37Rv_KO_CtpC	0.318	0.981
H37Rv_KO_CtpD	1.464	1.213
H37Rv_KO_Rv1272	0.539	1.702
H37Rv_KO_SugABC	0.413	0.706
H37Rv_KO_MbtN	0.243	1.766
Trans05	0.063	1.32
macrophage_unactivated	0.038	-0.521
IL1	-0.24	0.0
Rapamycin	-0.181	-0.856
Tcell	0.147	-0.831
GMCSF	0.293	-0.053
IFNab	0.426	-0.121
IFNg	0.088	0.0
IFNg_GMCSF1	0.167	-0.126
Rv1432_day32	0.445	0.117
Rv1565c_day32	0.028	-0.839
secA2_input	-0.319	-0.87
delta_Rv3594	0.314	0.193
delta_Rv3717	0.033	0.06
delta_Rv3811	0.226	0.419
delta_Rv0954	-0.277	0.041
PonA1	0.035	-0.058
EccD1_KO	-0.283	-0.493
EspI_KO	0.108	-0.687
PE35_KO	-0.055	0.312
PPE68_KO	0.035	0.294
glycerol2	0.391	-0.233
lignocerate	0.431	0.216
oleate	0.449	0.211
phosphatidylcholine	0.286	0.127
acetate	-0.086	0.514
glucAc	-0.171	0.319
Rv0950ko	0.25	0.217
Rv1096ko	-0.347	-1.342
Rv3684ko	0.0	-2.319
delta_otsA_trehalose	-0.698	-0.785