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 Rv0572c/-:

update plot	correlation	link to info on gene
Rv0443/-	(cc=0.5626)	info on Rv0443/-
Rv3742c/-	(cc=0.5123)	info on Rv3742c/-
Rv2777c/-	(cc=0.5088)	info on Rv2777c/-
Rv2689c/-	(cc=0.5066)	info on Rv2689c/-
Rv3555c/-	(cc=0.4841)	info on Rv3555c/-
Rv1087/PE_PGRS21	(cc=0.4734)	info on Rv1087/PE_PGRS21
Rv3738c/PPE66	(cc=0.4718)	info on Rv3738c/PPE66
Rv1604/impA	(cc=0.4639)	info on Rv1604/impA
Rv3287c/rsbW	(cc=0.4552)	info on Rv3287c/rsbW
Rv2892c/PPE45	(cc=0.4528)	info on Rv2892c/PPE45

Correlation of Rv0572c/- with Rv3287c/rsbW

Normalized LFCs for Rv0572c/-:
(description and provenance of datasets)

	Rv0572c/-	Rv3287c/rsbW
Fe_supp_jason_reseq	-0.704	-0.033
low_pH_jason_reseq	-0.642	-0.82
NO_jason_reseq	-0.113	-1.247
B6_jason_reseq	-0.323	-1.009
MHCII_jason_reseq	-0.164	-0.522
Isoniazid02	-0.442	0.045
Rifampicin4	0.195	0.669
Ethambutol3	0.112	0.075
Meropenem3	-0.071	-0.098
Vancomycin16	0.082	0.361
Rv2680_day32	-0.024	-0.459
H37Rv_KO_MarP	-0.349	0.309
hypoxia_3wks	0.02	0.0
hypoxia_6wks	0.52	0.699
glycerol	0.786	1.559
cholesterol	0.303	1.391
AJ	-0.501	-2.066
Bibs02	1.257	0.946
Bibs02c	0.668	-0.029
BL6	0.552	2.01
BL6a	0.402	0.511
BXD01	-0.145	0.054
BXD010	0.242	1.072
BXD011	0.82	2.975
BXD03	0.888	1.626
BXD04	0.015	2.202
BXD05	0.184	0.332
BXD06	0.319	1.198
BXD07	0.434	0.954
BXD08	0.233	0.837
BXD09	0.017	1.506
CAST	0.047	-1.074
CCcont	0.799	1.769
DS01	-0.284	-0.171
DS02	-0.08	1.049
DS04	0.055	1.351
DS0c	-0.036	-1.262
GP01	0.362	0.659
GP02	2.156	1.791
GP0c	0.117	0.867
NOD	0.063	-0.952
NZO	0.032	0.309
PWK	0.047	1.047
H37Rv_KO_CtpC	1.011	1.85
H37Rv_KO_CtpD	0.638	1.512
H37Rv_KO_Rv1272	0.674	0.565
H37Rv_KO_SugABC	0.184	0.545
H37Rv_KO_MbtN	-0.143	0.809
Trans05	0.783	-0.423
macrophage_unactivated	0.338	-0.451
IL1	-0.255	1.667
Rapamycin	-0.071	1.102
Tcell	-0.046	-1.013
GMCSF	-0.074	-0.256
IFNab	-0.348	-1.203
IFNg	-0.216	0.815
IFNg_GMCSF1	-0.27	2.231
Rv1432_day32	-0.229	-0.301
Rv1565c_day32	0.662	0.951
secA2_input	0.008	0.136
delta_Rv3594	-0.184	1.728
delta_Rv3717	-0.034	0.88
delta_Rv3811	0.039	2.0
delta_Rv0954	-0.421	0.876
PonA1	-0.517	1.49
EccD1_KO	-0.056	0.497
EspI_KO	0.482	-0.191
PE35_KO	-0.23	1.797
PPE68_KO	-0.237	0.643
glycerol2	0.902	4.278
lignocerate	1.179	4.612
oleate	0.103	2.62
phosphatidylcholine	0.852	4.323
acetate	0.071	6.0
glucAc	0.395	4.153
Rv0950ko	0.063	-0.057
Rv1096ko	0.763	1.62
Rv3684ko	0.331	0.845
delta_otsA_trehalose	2.429	3.074