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 Rv3431c/-:

update plot	correlation	link to info on gene
Rv1075c/-	(cc=0.5139)	info on Rv1075c/-
Rv1040c/PE8	(cc=0.4583)	info on Rv1040c/PE8
Rv0675/echA5	(cc=0.4352)	info on Rv0675/echA5
Rv2142c/parE2	(cc=0.433)	info on Rv2142c/parE2
Rv0571c/-	(cc=0.4289)	info on Rv0571c/-
Rv2530A/vapB39	(cc=0.4211)	info on Rv2530A/vapB39
Rv0523c/-	(cc=0.4161)	info on Rv0523c/-
Rv1907c/-	(cc=0.4143)	info on Rv1907c/-
Rv0829/-	(cc=0.4057)	info on Rv0829/-
Rv1538c/ansA	(cc=0.3948)	info on Rv1538c/ansA

Correlation of Rv3431c/- with Rv0523c/-

Normalized LFCs for Rv3431c/-:
(description and provenance of datasets)

	Rv3431c/-	Rv0523c/-
Fe_supp_jason_reseq	-0.714	-0.737
low_pH_jason_reseq	-0.686	-0.475
NO_jason_reseq	-0.499	0.249
B6_jason_reseq	-0.525	0.596
MHCII_jason_reseq	0.641	1.125
Isoniazid02	0.342	0.204
Rifampicin4	0.141	0.271
Ethambutol3	1.51	0.491
Meropenem3	0.008	-0.151
Vancomycin16	-0.021	0.454
Rv2680_day32	1.029	0.057
H37Rv_KO_MarP	-0.295	0.229
hypoxia_3wks	-0.498	-0.423
hypoxia_6wks	0.0	0.094
glycerol	-1.204	-0.26
cholesterol	-0.582	-0.297
AJ	0.23	-0.402
Bibs02	0.069	0.109
Bibs02c	0.708	0.444
BL6	0.59	-0.94
BL6a	0.403	-0.189
BXD01	0.07	0.264
BXD010	0.0	-0.055
BXD011	-0.253	-0.781
BXD03	0.079	0.309
BXD04	0.353	0.274
BXD05	0.553	-0.477
BXD06	-0.037	0.149
BXD07	-0.399	-0.228
BXD08	-0.238	-0.323
BXD09	0.208	-0.483
CAST	0.11	0.194
CCcont	-0.228	-0.895
DS01	-0.014	0.616
DS02	0.829	0.496
DS04	-0.49	-0.015
DS0c	0.564	0.256
GP01	-0.788	0.041
GP02	0.891	-0.789
GP0c	0.148	-0.481
NOD	0.107	0.156
NZO	-0.045	-0.283
PWK	-0.156	0.674
H37Rv_KO_CtpC	-1.297	-1.086
H37Rv_KO_CtpD	0.162	-0.982
H37Rv_KO_Rv1272	0.605	-0.753
H37Rv_KO_SugABC	-0.25	-1.402
H37Rv_KO_MbtN	-0.537	-1.265
Trans05	0.498	0.237
macrophage_unactivated	0.518	-0.59
IL1	-0.917	-0.816
Rapamycin	-0.85	-0.488
Tcell	-0.603	0.316
GMCSF	-1.019	-0.42
IFNab	-0.133	-0.71
IFNg	-0.241	-0.957
IFNg_GMCSF1	1.69	0.079
Rv1432_day32	-0.133	0.233
Rv1565c_day32	-0.264	-1.567
secA2_input	1.653	0.086
delta_Rv3594	1.608	0.948
delta_Rv3717	0.807	0.927
delta_Rv3811	1.157	0.631
delta_Rv0954	0.695	0.678
PonA1	1.789	0.0
EccD1_KO	0.483	0.747
EspI_KO	0.396	0.242
PE35_KO	0.54	-0.312
PPE68_KO	0.214	-0.026
glycerol2	0.039	0.35
lignocerate	-0.035	0.239
oleate	0.516	0.81
phosphatidylcholine	0.332	0.283
acetate	-0.173	-0.17
glucAc	-0.366	-0.555
Rv0950ko	0.081	-0.13
Rv1096ko	0.775	-0.024
Rv3684ko	0.452	0.056
delta_otsA_trehalose	-0.662	-0.739